diff --git a/BioModels/BIOMD0000000001/BIOMD0000000001_url.omex b/BioModels/BIOMD0000000001/BIOMD0000000001_url.omex new file mode 100644 index 00000000..01e982da Binary files /dev/null and b/BioModels/BIOMD0000000001/BIOMD0000000001_url.omex differ diff --git a/BioModels/BIOMD0000000001/BIOMD0000000001_url.sedml b/BioModels/BIOMD0000000001/BIOMD0000000001_url.sedml index 03dd1b45..bf616787 100644 --- a/BioModels/BIOMD0000000001/BIOMD0000000001_url.sedml +++ b/BioModels/BIOMD0000000001/BIOMD0000000001_url.sedml @@ -4,7 +4,7 @@ - + @@ -613,21 +613,21 @@ - + - - - - - - - - - - - - + + + + + + + + + + + + diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf index 48d9399d..26b4c729 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf index a12a44b9..32519528 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf index 60a87593..e85b4740 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf index 0bdeb2bf..d0c04f17 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf index a355afd7..b566d77e 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf index 117beaf2..c29fb3a4 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf index 20882ea6..89420a5b 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf index 11d7378c..8d98585e 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf index 1659ee1b..decd04b8 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf index 5c6a8a90..5810fdf3 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000001/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf index fd648be2..d1be5e72 100644 Binary files a/BioModels/BIOMD0000000001/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000001/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000001/tests/results_compatibility_biosimulators.md b/BioModels/BIOMD0000000001/tests/results_BIOMD0000000001_url.md similarity index 84% rename from BioModels/BIOMD0000000001/tests/results_compatibility_biosimulators.md rename to BioModels/BIOMD0000000001/tests/results_BIOMD0000000001_url.md index 304796b9..b4bcc661 100644 --- a/BioModels/BIOMD0000000001/tests/results_compatibility_biosimulators.md +++ b/BioModels/BIOMD0000000001/tests/results_BIOMD0000000001_url.md @@ -1,23 +1,23 @@ | Engine | Compatibility | pass / FAIL (R) | pass / FAIL (L) | d1 (R) | d1 (L) | |:-------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------|:-----------------------------------------------------------------------| -|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Could not load MassModel 'BIOMD0000000001'

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | -|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | -|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

SBML, SED-ML and BNGL are compatible with VCell.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file +|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
❌ FAILview
download
logs

ERROR MESSAGE:
Reached maximum number of steps

|
❌ FAILERROR MESSAGE:
Reached maximum number of steps

| plot | plot | +|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Could not load MassModel 'BIOMD0000000001'

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | +|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | +|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

BNGL, SBML and SED-ML are compatible with VCell.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file diff --git a/BioModels/BIOMD0000000001/tests/results_local.json b/BioModels/BIOMD0000000001/tests/results_local.json index 6d3fc9cb..52a5788a 100644 --- a/BioModels/BIOMD0000000001/tests/results_local.json +++ b/BioModels/BIOMD0000000001/tests/results_local.json @@ -2,12 +2,12 @@ "amici": { "exception_message": "", "log_yml": { - "duration": 18.20733, + "duration": 101.597932, "exception": null, "output": "", "sedDocuments": [ { - "duration": 17.799615, + "duration": 100.767004, "exception": null, "location": "BIOMD0000000001_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -279,7 +279,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.307685, + "duration": 16.255451, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -337,7 +337,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.385686, + "duration": 6.551666, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -350,10 +350,10 @@ "tasks": [ { "algorithm": "KISAO_0000496", - "duration": 16.938878, + "duration": 77.741589, "exception": null, "id": "task1", - "output": "", + "output": "2025-01-14 11:39:32.867 - amici.swig_wrappers - ERROR - [OTHER] AMICI simulation failed: Reached maximum number of steps 10000 before reaching tout at t=1769.08.\r\n2025-01-14 11:39:32.868 - amici.swig_wrappers - DEBUG - [BACKTRACE] The previous error occurred at:\r\n2 0x7f36e520fa8b /usr/local/lib/python3.11/site-packages/amici/_amici.cpython-311-x86_64-linux-gnu.so(+0xb5a8b) [0x7f36e520fa8b]\r\n3 0x7f36e5303262 amici::Solver::run(double) const + 34\r\n4 0x7f36e533b5d0 amici::ForwardProblem::workForwardProblem() + 1728\r\n5 0x7f36e52ef763 amici::runAmiciSimulation(amici::Solver&, amici::ExpData const*, amici::Model&, bool) + 435\r\n6 0x7f36e5299280 /usr/local/lib/python3.11/site-packages/amici/_amici.cpython-311-x86_64-linux-gnu.so(+0x13f\r\n", "simulatorDetails": [ { "key": "solver", @@ -382,12 +382,12 @@ "brian2": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/brian2' returned non-zero exit status 1", "log_yml": { - "duration": 0.043407, + "duration": 0.058421, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_fz72ych/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_fz72ych/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", + "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpxw4_t7xz/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpxw4_t7xz/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -397,12 +397,12 @@ "bionetgen": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/bionetgen' returned non-zero exit status 1", "log_yml": { - "duration": 0.134905, + "duration": 0.192712, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp206cqzzw/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp298rr3tg/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -412,12 +412,12 @@ "boolnet": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/boolnet' returned non-zero exit status 1", "log_yml": { - "duration": 0.182631, + "duration": 0.196481, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmphfkbf5he/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpn4pj7ckr/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -427,12 +427,12 @@ "cbmpy": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/cbmpy' returned non-zero exit status 1", "log_yml": { - "duration": 0.223897, + "duration": 0.265899, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpha66extc/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpyfbf0dnm/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -442,12 +442,12 @@ "cobrapy": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/cobrapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.158545, + "duration": 0.188745, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpopgzkji3/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpprhrzcqy/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -457,12 +457,12 @@ "copasi": { "exception_message": "", "log_yml": { - "duration": 1.431043, + "duration": 22.368224, "exception": null, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp9c464apg/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp9c464apg/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpekd_06jz/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpekd_06jz/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 1.099564, + "duration": 21.936623, "exception": null, "location": "BIOMD0000000001_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -734,7 +734,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.274029, + "duration": 13.13731, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -792,7 +792,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.501315, + "duration": 6.44331, "exception": null, "id": "autogen_plot_for_task1", "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", @@ -805,10 +805,10 @@ "tasks": [ { "algorithm": "KISAO_0000560", - "duration": 0.148264, + "duration": 2.109923, "exception": null, "id": "task1", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_kf_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_B__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_t2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_D__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_comp1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ILL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ALL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_I__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_IL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_AL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_A__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React13__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `BIOMD0000000001_url` may be invalid.\r\n - The model file `/tmp/tmp9c464apg/./BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_kf_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_B__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_I__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_IL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_t2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_A__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ILL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_AL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_comp1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_D__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ALL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_16__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `BIOMD0000000001_url` may be invalid.\r\n - The model file `/tmp/tmpekd_06jz/./BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", "simulatorDetails": [ { "key": "methodName", @@ -833,12 +833,12 @@ "gillespy2": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/gillespy2' returned non-zero exit status 1", "log_yml": { - "duration": 0.152, + "duration": 0.204915, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpkdmso8af/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpuu8mdvhm/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -848,12 +848,12 @@ "ginsim": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/ginsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.128864, + "duration": 0.176716, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp3vbg7tr5/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpjjdopgwn/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -863,12 +863,12 @@ "libsbmlsim": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/libsbmlsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.179679, + "duration": 0.205327, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpmn6h9csd/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp40zv7ave/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -878,12 +878,12 @@ "masspy": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/masspy' returned non-zero exit status 1", "log_yml": { - "duration": 0.17974, + "duration": 0.341986, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmpt46pzdhi/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmpm184wwzu/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -893,7 +893,7 @@ "netpyne": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/netpyne' returned non-zero exit status 1", "log_yml": { - "duration": 0.056066, + "duration": 0.054944, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -908,12 +908,12 @@ "neuron": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/neuron' returned non-zero exit status 1", "log_yml": { - "duration": 0.042372, + "duration": 0.055616, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpr_7h14xr/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpry23fg44/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -923,12 +923,12 @@ "opencor": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/opencor' returned non-zero exit status 1", "log_yml": { - "duration": 0.080298, + "duration": 0.095632, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpmmw6_5dk/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpuk6q30i9/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -938,12 +938,12 @@ "pyneuroml": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/pyneuroml' returned non-zero exit status 1", "log_yml": { - "duration": 0.045287, + "duration": 0.052102, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpdaqw5ior/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpbd5_909q/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -953,15 +953,15 @@ "pysces": { "exception_message": "", "log_yml": { - "duration": 1.854252, + "duration": 24.465236, "exception": null, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpm8x6ierx/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpm8x6ierx/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpvsepco8u/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpvsepco8u/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 1.454957, + "duration": 24.038673, "exception": null, "location": "BIOMD0000000001_url.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nINFO: Rescaling compartment with size 1e-16 to 1.0\r\ncsymbol time defined as \"time\" in event \r\nInfo: single compartment model: locating \"React0\" in default compartment\r\nInfo: single compartment model: locating \"React1\" in default compartment\r\nInfo: single compartment model: locating \"React2\" in default compartment\r\nInfo: single compartment model: locating \"React3\" in default compartment\r\nInfo: single compartment model: locating \"React4\" in default compartment\r\nInfo: single compartment model: locating \"React5\" in default compartment\r\nInfo: single compartment model: locating \"React6\" in default compartment\r\nInfo: single compartment model: locating \"React7\" in default compartment\r\nInfo: single compartment model: locating \"React8\" in default compartment\r\nInfo: single compartment model: locating \"React9\" in default compartment\r\nInfo: single compartment model: locating \"React10\" in default compartment\r\nInfo: single compartment model: locating \"React11\" in default compartment\r\nInfo: single compartment model: locating \"React12\" in default compartment\r\nInfo: single compartment model: locating \"React13\" in default compartment\r\nInfo: single compartment model: locating \"React14\" in default compartment\r\nInfo: single compartment model: locating \"React15\" in default compartment\r\nInfo: single compartment model: locating \"React16\" in default compartment\r\nWriting file: /tmp/tmptkw82oao.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpbq29rf7n.xml\r\nout: /tmp/tmptkw82oao.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmptkw82oao.psc loading ..... \r\nParsing file: /tmp/tmptkw82oao.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"t2\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . done.\r\n \r\nEvent(s) detected.\r\n\r\nINFO: events detected and we have Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\nCVODE time for 1001 points: 0.03949284553527832\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nINFO: Rescaling compartment with size 1e-16 to 1.0\r\ncsymbol time defined as \"time\" in event \r\nInfo: single compartment model: locating \"React0\" in default compartment\r\nInfo: single compartment model: locating \"React1\" in default compartment\r\nInfo: single compartment model: locating \"React2\" in default compartment\r\nInfo: single compartment model: locating \"React3\" in default compartment\r\nInfo: single compartment model: locating \"React4\" in default compartment\r\nInfo: single compartment model: locating \"React5\" in default compartment\r\nInfo: single compartment model: locating \"React6\" in default compartment\r\nInfo: single compartment model: locating \"React7\" in default compartment\r\nInfo: single compartment model: locating \"React8\" in default compartment\r\nInfo: single compartment model: locating \"React9\" in default compartment\r\nInfo: single compartment model: locating \"React10\" in default compartment\r\nInfo: single compartment model: locating \"React11\" in default compartment\r\nInfo: single compartment model: locating \"React12\" in default compartment\r\nInfo: single compartment model: locating \"React13\" in default compartment\r\nInfo: single compartment model: locating \"React14\" in default compartment\r\nInfo: single compartment model: locating \"React15\" in default compartment\r\nInfo: single compartment model: locating \"React16\" in default compartment\r\nWriting file: /tmp/tmpim6c68nw.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmp79owik7g.xml\r\nout: /tmp/tmpim6c68nw.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmpim6c68nw.psc loading ..... \r\nParsing file: /tmp/tmpim6c68nw.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"t2\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . done.\r\n \r\nEvent(s) detected.\r\n\r\nINFO: events detected and we have Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nevent RemovalACh is evaluating at 20.0998\r\nevent RemovalACh is assigning at 20.0998 (delay=0.0)\r\nexecuting RemovalACh\r\nCVODE time for 50001 points: 2.783015489578247\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", "outputs": [ { "dataSets": [ @@ -1230,7 +1230,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.516309, + "duration": 14.239757, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -1288,7 +1288,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.396995, + "duration": 6.510308, "exception": null, "id": "autogen_plot_for_task1", "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", @@ -1301,10 +1301,10 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.259261, + "duration": 3.07945, "exception": null, "id": "task1", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_kr_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_A__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ALL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_AL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ILL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_B__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_t2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_D__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_comp1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_IL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_I__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_React7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_A__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_I__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_t2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_AL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_comp1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_B__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_D__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_IL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ALL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ILL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_0__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", "simulatorDetails": [ { "key": "method", @@ -1341,12 +1341,12 @@ "rbapy": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/rbapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.161602, + "duration": 0.207671, "exception": { "message": "`/root/in/BIOMD0000000001_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpu_k9a9mv/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp6xb2vqje/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` may be invalid.\r\n - Model `BIOMD0000000001_url` may be invalid.\r\n - The model file `BIOMD0000000001_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_1 * BL - kr_1 * BLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_2 * BLL - kr_2 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_3 * A - kr_3 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_4 * AL - kr_4 * ALL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_5 * B - kr_5 * A)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_6 * BL - kr_6 * AL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_7 * I - kr_7 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_8 * IL - kr_8 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_9 * A - kr_9 * I)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_10 * AL - kr_10 * IL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_11 * ALL - kr_11 * ILL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_12 * D - kr_12 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_13 * DL - kr_13 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_14 * I - kr_14 * D)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_15 * IL - kr_15 * DL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_16 * ILL - kr_16 * DLL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gt(time, t2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_0' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_3' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_4' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_6' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_7' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_8' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_9' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_10' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_11' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_12' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_13' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_14' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_15' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kr_16' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 't2' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1361,12 +1361,12 @@ "tellurium": { "exception_message": "", "log_yml": { - "duration": 1.585119, + "duration": 21.185007, "exception": null, - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmplpusfrgh/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmplpusfrgh/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmp720n4_ci/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` has warnings.\r\n - Model `BIOMD0000000001_url` has warnings.\r\n - The model file `BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmp720n4_ci/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n", "sedDocuments": [ { - "duration": 1.032478, + "duration": 20.680741, "exception": null, "location": "BIOMD0000000001_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -1638,7 +1638,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.300394, + "duration": 13.365233, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -1696,7 +1696,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.418293, + "duration": 6.350474, "exception": null, "id": "autogen_plot_for_task1", "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning:\r\n\r\n\u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n\r\n", @@ -1709,10 +1709,10 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.150004, + "duration": 0.653562, "exception": null, "id": "task1", - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `auto_dg_for_task1_React9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ILL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_B__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_A__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_comp1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_IL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ALL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_AL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_I__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_D__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_t2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_12__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `BIOMD0000000001_url` may be invalid.\r\n - The model file `/tmp/tmplpusfrgh/./BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `auto_dg_for_task1_kf_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_AL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_D__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_comp1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_DLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_9__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_t2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_IL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_10__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ILL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_BLL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kr_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_I__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_A__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ALL__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_React8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_B__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kf_15__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `BIOMD0000000001_url` may be invalid.\r\n - The model file `/tmp/tmp720n4_ci/./BIOMD0000000001_url.xml` has warnings.\r\n - 26 warnings of type SBML unit consistency (99505). The following is the first warning at line 467, column 8:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'comp1 * (kf_0 * B - kr_0 * BL)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 35 warnings of type Modeling practice (80701). The following is the first warning at line 406, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kf_0' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n", "simulatorDetails": [ { "key": "method", @@ -1785,7 +1785,7 @@ "vcell": { "exception_message": "", "log_yml": { - "duration": 13, + "duration": 52, "exception": null, "output": "Processing BIOMD0000000001_url.sedml. Done", "sedDocuments": [ @@ -2133,7 +2133,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 1, + "duration": 17, "exception": null, "id": "task1", "output": "Initializing simulation job 0 ... done. Starting simulation... done.", @@ -2152,12 +2152,12 @@ "xpp": { "exception_message": "Command '-i '/root/in/BIOMD0000000001_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/xpp' returned non-zero exit status 1", "log_yml": { - "duration": 0.043889, + "duration": 0.064717, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp4ib7glpc/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmprvgfa4ms/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" diff --git a/BioModels/BIOMD0000000001/tests/results_remote.json b/BioModels/BIOMD0000000001/tests/results_remote.json index 5243231b..467c644d 100644 --- a/BioModels/BIOMD0000000001/tests/results_remote.json +++ b/BioModels/BIOMD0000000001/tests/results_remote.json @@ -1,16 +1,16 @@ { "amici": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759986e707aa641046207d2", - "download": "https://api.biosimulations.org/results/6759986e707aa641046207d2/download", - "logs": "https://api.biosimulations.org/logs/6759986e707aa641046207d2?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b89ba5a3f02b9f2f0c9", + "download": "https://api.biosimulations.org/results/67864b89ba5a3f02b9f2f0c9/download", + "logs": "https://api.biosimulations.org/logs/67864b89ba5a3f02b9f2f0c9?includeOutput=true", "log_yml": { - "duration": 34.743231, + "duration": 85.884143, "exception": null, "output": "", "sedDocuments": [ { - "duration": 34.294082, + "duration": 85.415945, "exception": null, "location": "BIOMD0000000001_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -282,7 +282,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.412893, + "duration": 12.83531, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -340,7 +340,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.488225, + "duration": 5.703909, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -353,10 +353,10 @@ "tasks": [ { "algorithm": "KISAO_0000496", - "duration": 33.225571, + "duration": 66.725409, "exception": null, "id": "task1", - "output": "", + "output": "2025-01-14 06:34:44.022 - amici.swig_wrappers - ERROR - [OTHER] AMICI simulation failed: Reached maximum number of steps 10000 before reaching tout at t=1769.08.\r\n2025-01-14 06:34:44.023 - amici.swig_wrappers - DEBUG - [BACKTRACE] The previous error occurred at:\r\n2 0x7ffff3462a8b /usr/local/lib/python3.11/site-packages/amici/_amici.cpython-311-x86_64-linux-gnu.so(+0xb5a8b) [0x7ffff3462a8b]\r\n3 0x7ffff3556262 amici::Solver::run(double) const + 34\r\n4 0x7ffff358e5d0 amici::ForwardProblem::workForwardProblem() + 1728\r\n5 0x7ffff3542763 amici::runAmiciSimulation(amici::Solver&, amici::ExpData const*, amici::Model&, bool) + 435\r\n6 0x7ffff34ec280 /usr/local/lib/python3.11/site-packages/amici/_amici.cpython-311-x86_64-linux-gnu.so(+0x13f\r\n", "simulatorDetails": [ { "key": "solver", @@ -383,11 +383,11 @@ }, "brian2": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759986f707aa641046207e8", - "download": "https://api.biosimulations.org/results/6759986f707aa641046207e8/download", - "logs": "https://api.biosimulations.org/logs/6759986f707aa641046207e8?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b8bba5a3f02b9f2f0cc", + "download": "https://api.biosimulations.org/results/67864b8bba5a3f02b9f2f0cc/download", + "logs": "https://api.biosimulations.org/logs/67864b8bba5a3f02b9f2f0cc?includeOutput=true", "log_yml": { - "duration": 0.062282, + "duration": 0.054901, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -400,11 +400,11 @@ }, "bionetgen": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599874c3054f763d58534c", - "download": "https://api.biosimulations.org/results/67599874c3054f763d58534c/download", - "logs": "https://api.biosimulations.org/logs/67599874c3054f763d58534c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b8d1f52f47f628b5680", + "download": "https://api.biosimulations.org/results/67864b8d1f52f47f628b5680/download", + "logs": "https://api.biosimulations.org/logs/67864b8d1f52f47f628b5680?includeOutput=true", "log_yml": { - "duration": 0.228823, + "duration": 0.179585, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -417,11 +417,11 @@ }, "boolnet": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599878707aa6410462085c", - "download": "https://api.biosimulations.org/results/67599878707aa6410462085c/download", - "logs": "https://api.biosimulations.org/logs/67599878707aa6410462085c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b8e1f52f47f628b5683", + "download": "https://api.biosimulations.org/results/67864b8e1f52f47f628b5683/download", + "logs": "https://api.biosimulations.org/logs/67864b8e1f52f47f628b5683?includeOutput=true", "log_yml": { - "duration": 0.227526, + "duration": 0.179865, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -434,11 +434,11 @@ }, "cbmpy": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599879c3054f763d5853ae", - "download": "https://api.biosimulations.org/results/67599879c3054f763d5853ae/download", - "logs": "https://api.biosimulations.org/logs/67599879c3054f763d5853ae?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b90167dc18b5b247610", + "download": "https://api.biosimulations.org/results/67864b90167dc18b5b247610/download", + "logs": "https://api.biosimulations.org/logs/67864b90167dc18b5b247610?includeOutput=true", "log_yml": { - "duration": 0.370103, + "duration": 0.279523, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -451,11 +451,11 @@ }, "cobrapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759987b9fa297efdca4ce9c", - "download": "https://api.biosimulations.org/results/6759987b9fa297efdca4ce9c/download", - "logs": "https://api.biosimulations.org/logs/6759987b9fa297efdca4ce9c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b92ba5a3f02b9f2f0d6", + "download": "https://api.biosimulations.org/results/67864b92ba5a3f02b9f2f0d6/download", + "logs": "https://api.biosimulations.org/logs/67864b92ba5a3f02b9f2f0d6?includeOutput=true", "log_yml": { - "duration": 0.224675, + "duration": 0.181367, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -468,16 +468,16 @@ }, "copasi": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759987d707aa64104620898", - "download": "https://api.biosimulations.org/results/6759987d707aa64104620898/download", - "logs": "https://api.biosimulations.org/logs/6759987d707aa64104620898?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b951f52f47f628b5688", + "download": "https://api.biosimulations.org/results/67864b951f52f47f628b5688/download", + "logs": "https://api.biosimulations.org/logs/67864b951f52f47f628b5688?includeOutput=true", "log_yml": { - "duration": 1.910214, + "duration": 25.081208, "exception": null, "output": "", "sedDocuments": [ { - "duration": 1.538635, + "duration": 24.729735, "exception": null, "location": "BIOMD0000000001_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...woohoo!\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -749,7 +749,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.428548, + "duration": 15.39297, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -807,7 +807,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.668095, + "duration": 6.737561, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -820,7 +820,7 @@ "tasks": [ { "algorithm": "KISAO_0000560", - "duration": 0.280451, + "duration": 2.362862, "exception": null, "id": "task1", "output": "", @@ -846,11 +846,11 @@ }, "gillespy2": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759987f707aa641046208a7", - "download": "https://api.biosimulations.org/results/6759987f707aa641046208a7/download", - "logs": "https://api.biosimulations.org/logs/6759987f707aa641046208a7?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b971f52f47f628b568f", + "download": "https://api.biosimulations.org/results/67864b971f52f47f628b568f/download", + "logs": "https://api.biosimulations.org/logs/67864b971f52f47f628b568f?includeOutput=true", "log_yml": { - "duration": 0.230086, + "duration": 0.185696, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -863,11 +863,11 @@ }, "ginsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599880707aa641046208c9", - "download": "https://api.biosimulations.org/results/67599880707aa641046208c9/download", - "logs": "https://api.biosimulations.org/logs/67599880707aa641046208c9?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b981f52f47f628b5694", + "download": "https://api.biosimulations.org/results/67864b981f52f47f628b5694/download", + "logs": "https://api.biosimulations.org/logs/67864b981f52f47f628b5694?includeOutput=true", "log_yml": { - "duration": 0.219107, + "duration": 0.203589, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -880,11 +880,11 @@ }, "libsbmlsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/675998829fa297efdca4cf0b", - "download": "https://api.biosimulations.org/results/675998829fa297efdca4cf0b/download", - "logs": "https://api.biosimulations.org/logs/675998829fa297efdca4cf0b?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b9aba5a3f02b9f2f0dc", + "download": "https://api.biosimulations.org/results/67864b9aba5a3f02b9f2f0dc/download", + "logs": "https://api.biosimulations.org/logs/67864b9aba5a3f02b9f2f0dc?includeOutput=true", "log_yml": { - "duration": 0.224774, + "duration": 0.1818, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -897,11 +897,11 @@ }, "masspy": { "response": 201, - "view": "https://api.biosimulations.org/runs/675998849fa297efdca4cf2a", - "download": "https://api.biosimulations.org/results/675998849fa297efdca4cf2a/download", - "logs": "https://api.biosimulations.org/logs/675998849fa297efdca4cf2a?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b9cba5a3f02b9f2f0e0", + "download": "https://api.biosimulations.org/results/67864b9cba5a3f02b9f2f0e0/download", + "logs": "https://api.biosimulations.org/logs/67864b9cba5a3f02b9f2f0e0?includeOutput=true", "log_yml": { - "duration": 1.596004, + "duration": 1.270141, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n Could not load MassModel 'BIOMD0000000001'", "type": "CombineArchiveExecutionError" @@ -909,7 +909,7 @@ "output": "", "sedDocuments": [ { - "duration": 0.997565, + "duration": 0.806946, "exception": { "message": "The SED document did not execute successfully:\n\n Could not load MassModel 'BIOMD0000000001'", "type": "SedmlExecutionError" @@ -1184,7 +1184,7 @@ "status": "SKIPPED" } ], - "duration": 0.058288, + "duration": 0.052818, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -1242,7 +1242,7 @@ "status": "SKIPPED" } ], - "duration": 0.341506, + "duration": 0.270129, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -1255,7 +1255,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.374972, + "duration": 0.291643, "exception": { "message": "Could not load MassModel 'BIOMD0000000001'", "type": "MassSimulationError" @@ -1275,11 +1275,11 @@ }, "netpyne": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599885c3054f763d585469", - "download": "https://api.biosimulations.org/results/67599885c3054f763d585469/download", - "logs": "https://api.biosimulations.org/logs/67599885c3054f763d585469?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b9eba5a3f02b9f2f0e6", + "download": "https://api.biosimulations.org/results/67864b9eba5a3f02b9f2f0e6/download", + "logs": "https://api.biosimulations.org/logs/67864b9eba5a3f02b9f2f0e6?includeOutput=true", "log_yml": { - "duration": 0.078228, + "duration": 0.050973, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1292,11 +1292,11 @@ }, "neuron": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599887707aa64104620929", - "download": "https://api.biosimulations.org/results/67599887707aa64104620929/download", - "logs": "https://api.biosimulations.org/logs/67599887707aa64104620929?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864b9fba5a3f02b9f2f0f4", + "download": "https://api.biosimulations.org/results/67864b9fba5a3f02b9f2f0f4/download", + "logs": "https://api.biosimulations.org/logs/67864b9fba5a3f02b9f2f0f4?includeOutput=true", "log_yml": { - "duration": 0.049125, + "duration": 0.077206, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1309,16 +1309,16 @@ }, "opencor": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599889707aa64104620949", - "download": "https://api.biosimulations.org/results/67599889707aa64104620949/download", - "logs": "https://api.biosimulations.org/logs/67599889707aa64104620949?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ba11f52f47f628b56a9", + "download": "https://api.biosimulations.org/results/67864ba11f52f47f628b56a9/download", + "logs": "https://api.biosimulations.org/logs/67864ba11f52f47f628b56a9?includeOutput=true", "log_yml": { - "duration": 0.042642, + "duration": 0.034826, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpzxwfq98w/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp0vcu99m4/./BIOMD0000000001_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1326,11 +1326,11 @@ }, "pyneuroml": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759988a9fa297efdca4cf90", - "download": "https://api.biosimulations.org/results/6759988a9fa297efdca4cf90/download", - "logs": "https://api.biosimulations.org/logs/6759988a9fa297efdca4cf90?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ba21f52f47f628b56ba", + "download": "https://api.biosimulations.org/results/67864ba21f52f47f628b56ba/download", + "logs": "https://api.biosimulations.org/logs/67864ba21f52f47f628b56ba?includeOutput=true", "log_yml": { - "duration": 0.056714, + "duration": 0.049941, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1343,19 +1343,19 @@ }, "pysces": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759988d707aa6410462098c", - "download": "https://api.biosimulations.org/results/6759988d707aa6410462098c/download", - "logs": "https://api.biosimulations.org/logs/6759988d707aa6410462098c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ba41f52f47f628b56c2", + "download": "https://api.biosimulations.org/results/67864ba41f52f47f628b56c2/download", + "logs": "https://api.biosimulations.org/logs/67864ba41f52f47f628b56c2?includeOutput=true", "log_yml": { - "duration": 1.865952, + "duration": 24.519283, "exception": null, "output": "libtk8.6.so: cannot open shared object file: No such file or directory\r\n\r\nPySCeS defaults to matplotlib's TKagg backend if not specified in the user configuration file, set \"matplotlib_backend = \" \r\nMatplotlib interface loaded (pysces.plt.m)\r\nPitcon routines available\r\nNLEQ2 routines available\r\nSBML support available\r\nYou are using NumPy (2.1.2) with SciPy (1.14.1)\r\nAssimulo CVode available\r\nRateChar is available\r\nParallel scanner is available\r\n\r\nPySCeS environment\r\n******************\r\npysces.model_dir = /home/FCAM/crbmapi/Pysces/psc\r\npysces.output_dir = /home/FCAM/crbmapi/Pysces\r\n\r\n\r\n***********************************************************************\r\n* Welcome to PySCeS (1.2.2) - Python Simulator for Cellular Systems *\r\n* http://pysces.sourceforge.net *\r\n* Copyright(C) B.G. Olivier, J.M. Rohwer, J.-H.S. Hofmeyr, 2004-2024 *\r\n* Triple-J Group for Molecular Cell Physiology *\r\n* Stellenbosch University, ZA and VU University Amsterdam, NL *\r\n* PySCeS is distributed under the PySCeS (BSD style) licence, see *\r\n* LICENCE.txt (supplied with this release) for details *\r\n* Please cite PySCeS with: doi:10.1093/bioinformatics/bti046 *\r\n***********************************************************************\r\n", "sedDocuments": [ { - "duration": 1.473278, + "duration": 24.161034, "exception": null, "location": "BIOMD0000000001_url.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nINFO: Rescaling compartment with size 1e-16 to 1.0\r\ncsymbol time defined as \"time\" in event \r\nInfo: single compartment model: locating \"React0\" in default compartment\r\nInfo: single compartment model: locating \"React1\" in default compartment\r\nInfo: single compartment model: locating \"React2\" in default compartment\r\nInfo: single compartment model: locating \"React3\" in default compartment\r\nInfo: single compartment model: locating \"React4\" in default compartment\r\nInfo: single compartment model: locating \"React5\" in default compartment\r\nInfo: single compartment model: locating \"React6\" in default compartment\r\nInfo: single compartment model: locating \"React7\" in default compartment\r\nInfo: single compartment model: locating \"React8\" in default compartment\r\nInfo: single compartment model: locating \"React9\" in default compartment\r\nInfo: single compartment model: locating \"React10\" in default compartment\r\nInfo: single compartment model: locating \"React11\" in default compartment\r\nInfo: single compartment model: locating \"React12\" in default compartment\r\nInfo: single compartment model: locating \"React13\" in default compartment\r\nInfo: single compartment model: locating \"React14\" in default compartment\r\nInfo: single compartment model: locating \"React15\" in default compartment\r\nInfo: single compartment model: locating \"React16\" in default compartment\r\nWriting file: /tmp/tmpg5lywq8j.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpii1g4uod.xml\r\nout: /tmp/tmpg5lywq8j.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpg5lywq8j.psc loading ..... \r\nParsing file: /tmp/tmpg5lywq8j.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"t2\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . done.\r\n \r\nEvent(s) detected.\r\n\r\nINFO: events detected and we have Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\nCVODE time for 1001 points: 0.07738018035888672\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nINFO: Rescaling compartment with size 1e-16 to 1.0\r\ncsymbol time defined as \"time\" in event \r\nInfo: single compartment model: locating \"React0\" in default compartment\r\nInfo: single compartment model: locating \"React1\" in default compartment\r\nInfo: single compartment model: locating \"React2\" in default compartment\r\nInfo: single compartment model: locating \"React3\" in default compartment\r\nInfo: single compartment model: locating \"React4\" in default compartment\r\nInfo: single compartment model: locating \"React5\" in default compartment\r\nInfo: single compartment model: locating \"React6\" in default compartment\r\nInfo: single compartment model: locating \"React7\" in default compartment\r\nInfo: single compartment model: locating \"React8\" in default compartment\r\nInfo: single compartment model: locating \"React9\" in default compartment\r\nInfo: single compartment model: locating \"React10\" in default compartment\r\nInfo: single compartment model: locating \"React11\" in default compartment\r\nInfo: single compartment model: locating \"React12\" in default compartment\r\nInfo: single compartment model: locating \"React13\" in default compartment\r\nInfo: single compartment model: locating \"React14\" in default compartment\r\nInfo: single compartment model: locating \"React15\" in default compartment\r\nInfo: single compartment model: locating \"React16\" in default compartment\r\nWriting file: /tmp/tmpw_jvijcu.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpe4n8mlnl.xml\r\nout: /tmp/tmpw_jvijcu.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpw_jvijcu.psc loading ..... \r\nParsing file: /tmp/tmpw_jvijcu.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"t2\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . done.\r\n \r\nEvent(s) detected.\r\n\r\nINFO: events detected and we have Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nevent RemovalACh is evaluating at 20.0998\r\nevent RemovalACh is assigning at 20.0998 (delay=0.0)\r\nexecuting RemovalACh\r\nCVODE time for 50001 points: 3.135878086090088\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", "outputs": [ { "dataSets": [ @@ -1624,7 +1624,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.408972, + "duration": 14.200617, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -1682,7 +1682,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.535191, + "duration": 6.493102, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -1695,7 +1695,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.35353, + "duration": 3.286069, "exception": null, "id": "task1", "output": "", @@ -1733,11 +1733,11 @@ }, "rbapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759988f9fa297efdca4cfc3", - "download": "https://api.biosimulations.org/results/6759988f9fa297efdca4cfc3/download", - "logs": "https://api.biosimulations.org/logs/6759988f9fa297efdca4cfc3?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ba6ba5a3f02b9f2f11f", + "download": "https://api.biosimulations.org/results/67864ba6ba5a3f02b9f2f11f/download", + "logs": "https://api.biosimulations.org/logs/67864ba6ba5a3f02b9f2f11f?includeOutput=true", "log_yml": { - "duration": 0.210301, + "duration": 0.180942, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000001_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -1750,11 +1750,11 @@ }, "smoldyn": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599892707aa641046209f2", - "download": "https://api.biosimulations.org/results/67599892707aa641046209f2/download", - "logs": "https://api.biosimulations.org/logs/67599892707aa641046209f2?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ba81f52f47f628b56d0", + "download": "https://api.biosimulations.org/results/67864ba81f52f47f628b56d0/download", + "logs": "https://api.biosimulations.org/logs/67864ba81f52f47f628b56d0?includeOutput=true", "log_yml": { - "duration": 0.055518, + "duration": 0.049693, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1767,16 +1767,16 @@ }, "tellurium": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599894707aa64104620a2b", - "download": "https://api.biosimulations.org/results/67599894707aa64104620a2b/download", - "logs": "https://api.biosimulations.org/logs/67599894707aa64104620a2b?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864baaba5a3f02b9f2f12a", + "download": "https://api.biosimulations.org/results/67864baaba5a3f02b9f2f12a/download", + "logs": "https://api.biosimulations.org/logs/67864baaba5a3f02b9f2f12a?includeOutput=true", "log_yml": { - "duration": 2.042794, + "duration": 23.230706, "exception": null, "output": "", "sedDocuments": [ { - "duration": 1.51381, + "duration": 22.791319, "exception": null, "location": "BIOMD0000000001_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000001_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 66 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 12 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000001_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -2048,7 +2048,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.449744, + "duration": 14.83119, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -2106,7 +2106,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.589555, + "duration": 7.100055, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -2119,7 +2119,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.291824, + "duration": 0.686363, "exception": null, "id": "task1", "output": "", @@ -2193,11 +2193,11 @@ }, "vcell": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599897707aa64104620aaf", - "download": "https://api.biosimulations.org/results/67599897707aa64104620aaf/download", - "logs": "https://api.biosimulations.org/logs/67599897707aa64104620aaf?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864bad167dc18b5b24766a", + "download": "https://api.biosimulations.org/results/67864bad167dc18b5b24766a/download", + "logs": "https://api.biosimulations.org/logs/67864bad167dc18b5b24766a?includeOutput=true", "log_yml": { - "duration": 13, + "duration": 26, "exception": null, "output": "Processing BIOMD0000000001_url.sedml. Done", "sedDocuments": [ @@ -2545,7 +2545,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 1, + "duration": 3, "exception": null, "id": "task1", "output": "Initializing simulation job 0 ... done. Starting simulation... done.", @@ -2562,11 +2562,11 @@ }, "xpp": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599899c3054f763d58561d", - "download": "https://api.biosimulations.org/results/67599899c3054f763d58561d/download", - "logs": "https://api.biosimulations.org/logs/67599899c3054f763d58561d?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864baf1f52f47f628b56f5", + "download": "https://api.biosimulations.org/results/67864baf1f52f47f628b56f5/download", + "logs": "https://api.biosimulations.org/logs/67864baf1f52f47f628b56f5?includeOutput=true", "log_yml": { - "duration": 0.064341, + "duration": 0.064079, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" diff --git a/BioModels/BIOMD0000000138/BIOMD0000000138_url.omex b/BioModels/BIOMD0000000138/BIOMD0000000138_url.omex new file mode 100644 index 00000000..25cf62da Binary files /dev/null and b/BioModels/BIOMD0000000138/BIOMD0000000138_url.omex differ diff --git a/BioModels/BIOMD0000000138/BIOMD0000000138_url.sedml b/BioModels/BIOMD0000000138/BIOMD0000000138_url.sedml index 13802d13..4f531fb7 100644 --- a/BioModels/BIOMD0000000138/BIOMD0000000138_url.sedml +++ b/BioModels/BIOMD0000000138/BIOMD0000000138_url.sedml @@ -4,7 +4,7 @@ - + @@ -422,4 +422,4 @@ - + \ No newline at end of file diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf index 17a44568..cb4717ce 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_local/amici_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf index c0592967..fc334c48 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_local/copasi_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf index 0622ec0d..d693c23a 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_local/pysces_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf index c3f5e20c..b2361225 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_local/tellurium_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf index 1330f5da..c10fd13d 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_local/vcell_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf index 8f99d26e..e5fee74a 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_remote/amici_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf index a9015b82..7c91d28f 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_remote/copasi_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf index 6603cfd1..8c551ae5 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_remote/masspy_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf index 84eb24cc..d7bbde69 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_remote/pysces_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf index 3479b8b1..c07290cb 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_remote/tellurium_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf b/BioModels/BIOMD0000000138/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf index dd63ecb0..e49a6298 100644 Binary files a/BioModels/BIOMD0000000138/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf and b/BioModels/BIOMD0000000138/tests/d1_plots_remote/vcell_autogen_plot_for_task1.pdf differ diff --git a/BioModels/BIOMD0000000138/tests/results_compatibility_biosimulators.md b/BioModels/BIOMD0000000138/tests/results_BIOMD0000000138_url.md similarity index 85% rename from BioModels/BIOMD0000000138/tests/results_compatibility_biosimulators.md rename to BioModels/BIOMD0000000138/tests/results_BIOMD0000000138_url.md index d97352a5..6efa284c 100644 --- a/BioModels/BIOMD0000000138/tests/results_compatibility_biosimulators.md +++ b/BioModels/BIOMD0000000138/tests/results_BIOMD0000000138_url.md @@ -1,23 +1,23 @@ | Engine | Compatibility | pass / FAIL (R) | pass / FAIL (L) | d1 (R) | d1 (L) | |:-------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------|:-----------------------------------------------------------------------| -|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/

|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
❌ FAILview
download
logs

ERROR MESSAGE:
lambda * (phik - n) / taun

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
lambda * (phik - n) / taun

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | -|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Something went wrong reading the SBML model. Most likely the SBML model is not valid. Please check that your model is valid using the `mass.io.sbml.validate_sbml_model` function or via the online validator at http://sbml.org/validator .
`(model, errors) = validate_sbml_model(filename)`
If the model is valid and cannot be read please open an issue at https://github.com/SBRG/masspy/issues .

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | -|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

class 'AttributeError':'PysMod' object has no attribute 'lambda'

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

class 'AttributeError':'PysMod' object has no attribute 'lambda'

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | -|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | -|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

SBML, SED-ML and BNGL are compatible with VCell.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file +|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
❌ FAILview
download
logs

ERROR MESSAGE:
lambda * (phik - n) / taun

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
lambda * (phik - n) / taun

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | +|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Something went wrong reading the SBML model. Most likely the SBML model is not valid. Please check that your model is valid using the `mass.io.sbml.validate_sbml_model` function or via the online validator at http://sbml.org/validator .
`(model, errors) = validate_sbml_model(filename)`
If the model is valid and cannot be read please open an issue at https://github.com/SBRG/masspy/issues .

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | +|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

class 'AttributeError':'PysMod' object has no attribute 'lambda'

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

class 'AttributeError':'PysMod' object has no attribute 'lambda'

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | +|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.
- Simulation `auto_ten_seconds` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | +|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

BNGL, SBML and SED-ML are compatible with VCell.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file diff --git a/BioModels/BIOMD0000000138/tests/results_local.json b/BioModels/BIOMD0000000138/tests/results_local.json index b139b252..512b0105 100644 --- a/BioModels/BIOMD0000000138/tests/results_local.json +++ b/BioModels/BIOMD0000000138/tests/results_local.json @@ -2,7 +2,7 @@ "amici": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/amici' returned non-zero exit status 1", "log_yml": { - "duration": 1.032238, + "duration": 1.877625, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n rateRule \"lambda * (phik - n) / taun\" contains an unsupported expression: Sympify of expression 'could not parse 'lambda * (phik - n) / taun'' failed, because of exception being raised:\n TokenError: Starred arguments in lambda not supported.", "type": "CombineArchiveExecutionError" @@ -10,7 +10,7 @@ "output": "", "sedDocuments": [ { - "duration": 0.617973, + "duration": 1.214399, "exception": { "message": "The SED document did not execute successfully:\n\n rateRule \"lambda * (phik - n) / taun\" contains an unsupported expression: Sympify of expression 'could not parse 'lambda * (phik - n) / taun'' failed, because of exception being raised:\n TokenError: Starred arguments in lambda not supported.", "type": "SedmlExecutionError" @@ -197,7 +197,7 @@ "status": "SKIPPED" } ], - "duration": 0.070374, + "duration": 0.069103, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -211,7 +211,7 @@ "status": "SKIPPED" } ], - "duration": 0.303367, + "duration": 0.667161, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -224,7 +224,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.103595, + "duration": 0.259598, "exception": { "message": "rateRule \"lambda * (phik - n) / taun\" contains an unsupported expression: Sympify of expression 'could not parse 'lambda * (phik - n) / taun'' failed, because of exception being raised:\nTokenError: Starred arguments in lambda not supported.", "type": "SBMLException" @@ -246,12 +246,12 @@ "brian2": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/brian2' returned non-zero exit status 1", "log_yml": { - "duration": 0.057646, + "duration": 0.054593, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmprl_sq5nd/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmprl_sq5nd/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", + "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_qqxt423/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_qqxt423/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -261,12 +261,12 @@ "bionetgen": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/bionetgen' returned non-zero exit status 1", "log_yml": { - "duration": 0.321758, + "duration": 0.180273, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmppw3rmx7z/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpzovze2fr/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -276,12 +276,12 @@ "boolnet": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/boolnet' returned non-zero exit status 1", "log_yml": { - "duration": 0.13801, + "duration": 0.175026, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpizrdsji4/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpdtrisbpe/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -291,12 +291,12 @@ "cbmpy": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/cbmpy' returned non-zero exit status 1", "log_yml": { - "duration": 0.272314, + "duration": 0.260162, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp9_kx444p/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpyx38qr_w/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -306,12 +306,12 @@ "cobrapy": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/cobrapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.130785, + "duration": 0.187222, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpsdnf6zwy/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp1m_9xnbn/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -321,12 +321,12 @@ "copasi": { "exception_message": "", "log_yml": { - "duration": 1.23765, + "duration": 8.287122, "exception": null, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpp12xqjof/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpp12xqjof/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp3zkn7lhy/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp3zkn7lhy/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 0.988234, + "duration": 7.88391, "exception": null, "location": "BIOMD0000000138_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -510,7 +510,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.188624, + "duration": 5.513608, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -524,7 +524,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.404789, + "duration": 0.937858, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -537,10 +537,10 @@ "tasks": [ { "algorithm": "KISAO_0000560", - "duration": 0.105681, + "duration": 1.226304, "exception": null, "id": "task1", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_gcal__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_taun__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_isk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ks__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ga__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_tauh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phif__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phih__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phical__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_Cm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_alpha__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cinf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vca__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ff__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_va__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_c__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_n__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_h__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gsk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_reaction_0000004__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ica__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_V__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ibk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_lambda__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ikdr__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `BIOMD0000000138_url` may be invalid.\r\n - The model file `/tmp/tmpp12xqjof/./BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_alpha__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_reaction_0000004__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ibk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cinf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ica__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_tauh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ff__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ks__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ikdr__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_h__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_isk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_c__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_lambda__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phif__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_V__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vca__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ga__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_va__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gsk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_n__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gcal__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phih__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_Cm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_taun__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phical__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phik__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `BIOMD0000000138_url` may be invalid.\r\n - The model file `/tmp/tmp3zkn7lhy/./BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", "simulatorDetails": [ { "key": "methodName", @@ -565,12 +565,12 @@ "gillespy2": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/gillespy2' returned non-zero exit status 1", "log_yml": { - "duration": 0.129637, + "duration": 0.150747, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmphr0xa1gw/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpbzytny2r/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -580,12 +580,12 @@ "ginsim": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/ginsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.125017, + "duration": 0.145654, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp8wbu9mpc/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmplhecdld9/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -595,12 +595,12 @@ "libsbmlsim": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/libsbmlsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.144621, + "duration": 0.13722, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpyuc4v55q/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpmonjtjvh/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -610,12 +610,12 @@ "masspy": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/masspy' returned non-zero exit status 1", "log_yml": { - "duration": 0.132452, + "duration": 0.206677, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmpp4dcqrwr/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmpxq54t0_0/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -625,7 +625,7 @@ "netpyne": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/netpyne' returned non-zero exit status 1", "log_yml": { - "duration": 0.055506, + "duration": 0.061523, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -640,12 +640,12 @@ "neuron": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/neuron' returned non-zero exit status 1", "log_yml": { - "duration": 0.0361, + "duration": 0.058044, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmplsil1iqz/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp7x9dcprt/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -655,12 +655,12 @@ "opencor": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/opencor' returned non-zero exit status 1", "log_yml": { - "duration": 0.065856, + "duration": 0.088319, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmprzokvr4x/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp5aagj4fj/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -670,12 +670,12 @@ "pyneuroml": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/pyneuroml' returned non-zero exit status 1", "log_yml": { - "duration": 0.045912, + "duration": 0.065812, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmppflsl260/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp9y8nif7a/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -685,21 +685,21 @@ "pysces": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/pysces' returned non-zero exit status 1", "log_yml": { - "duration": 1.907434, + "duration": 3.14559, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n :'PysMod' object has no attribute 'lambda'", "type": "CombineArchiveExecutionError" }, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpiw9r8oqq/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpiw9r8oqq/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpwfpytsc6/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpwfpytsc6/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 1.631441, + "duration": 2.845247, "exception": { "message": "The SED document did not execute successfully:\n\n :'PysMod' object has no attribute 'lambda'", "type": "SedmlExecutionError" }, "location": "BIOMD0000000138_url.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V1\r\nlambda is a reserved symbol, replacing with Lambda\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmpf736fa2e.xml\r\n*******************************************************************\r\n\r\nReserved symbol lambda replaced with Lambda \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"reaction_0000004\" in default compartment\r\nWriting file: /tmp/tmpsdz9cbtq.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpf736fa2e.xml\r\nout: /tmp/tmpsdz9cbtq.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmpsdz9cbtq.psc loading ..... \r\nParsing file: /tmp/tmpsdz9cbtq.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"vca\" has been initialised but does not occur in a rate equation\r\nInfo: \"vk\" has been initialised but does not occur in a rate equation\r\nInfo: \"Cm\" has been initialised but does not occur in a rate equation\r\nInfo: \"gk\" has been initialised but does not occur in a rate equation\r\nInfo: \"gcal\" has been initialised but does not occur in a rate equation\r\nInfo: \"gsk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ga\" has been initialised but does not occur in a rate equation\r\nInfo: \"gf\" has been initialised but does not occur in a rate equation\r\nInfo: \"vn\" has been initialised but does not occur in a rate equation\r\nInfo: \"va\" has been initialised but does not occur in a rate equation\r\nInfo: \"vm\" has been initialised but does not occur in a rate equation\r\nInfo: \"vh\" has been initialised but does not occur in a rate equation\r\nInfo: \"vf\" has been initialised but does not occur in a rate equation\r\nInfo: \"sn\" has been initialised but does not occur in a rate equation\r\nInfo: \"sa\" has been initialised but does not occur in a rate equation\r\nInfo: \"sm\" has been initialised but does not occur in a rate equation\r\nInfo: \"sh\" has been initialised but does not occur in a rate equation\r\nInfo: \"sf\" has been initialised but does not occur in a rate equation\r\nInfo: \"taun\" has been initialised but does not occur in a rate equation\r\nInfo: \"tauh\" has been initialised but does not occur in a rate equation\r\nInfo: \"Lambda\" has been initialised but does not occur in a rate equation\r\nInfo: \"ks\" has been initialised but does not occur in a rate equation\r\nInfo: \"phik\" has been initialised but does not occur in a rate equation\r\nInfo: \"phia\" has been initialised but does not occur in a rate equation\r\nInfo: \"phih\" has been initialised but does not occur in a rate equation\r\nInfo: \"phif\" has been initialised but does not occur in a rate equation\r\nInfo: \"phical\" has been initialised but does not occur in a rate equation\r\nInfo: \"cinf\" has been initialised but does not occur in a rate equation\r\nInfo: \"isk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ibk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ikdr\" has been initialised but does not occur in a rate equation\r\nInfo: \"ia\" has been initialised but does not occur in a rate equation\r\nInfo: \"ik\" has been initialised but does not occur in a rate equation\r\nInfo: \"n\" has been initialised but does not occur in a rate equation\r\nInfo: \"h\" has been initialised but does not occur in a rate equation\r\nInfo: \"V\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . no flux conservation\r\n done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nRate rule(s) detected.\r\nINFO: RateRules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 1001 points: 0.022429227828979492\r\nRateRules evaluated and added to mod.data_sim.\r\n \u001b[31mfailed - 'PysMod' object has no attribute 'lambda'\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[36mqueued\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V1\r\nlambda is a reserved symbol, replacing with Lambda\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmpsfp1l9p9.xml\r\n*******************************************************************\r\n\r\nReserved symbol lambda replaced with Lambda \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"reaction_0000004\" in default compartment\r\nWriting file: /tmp/tmp2wn2wxb2.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpsfp1l9p9.xml\r\nout: /tmp/tmp2wn2wxb2.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmp2wn2wxb2.psc loading ..... \r\nParsing file: /tmp/tmp2wn2wxb2.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"vca\" has been initialised but does not occur in a rate equation\r\nInfo: \"vk\" has been initialised but does not occur in a rate equation\r\nInfo: \"Cm\" has been initialised but does not occur in a rate equation\r\nInfo: \"gk\" has been initialised but does not occur in a rate equation\r\nInfo: \"gcal\" has been initialised but does not occur in a rate equation\r\nInfo: \"gsk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ga\" has been initialised but does not occur in a rate equation\r\nInfo: \"gf\" has been initialised but does not occur in a rate equation\r\nInfo: \"vn\" has been initialised but does not occur in a rate equation\r\nInfo: \"va\" has been initialised but does not occur in a rate equation\r\nInfo: \"vm\" has been initialised but does not occur in a rate equation\r\nInfo: \"vh\" has been initialised but does not occur in a rate equation\r\nInfo: \"vf\" has been initialised but does not occur in a rate equation\r\nInfo: \"sn\" has been initialised but does not occur in a rate equation\r\nInfo: \"sa\" has been initialised but does not occur in a rate equation\r\nInfo: \"sm\" has been initialised but does not occur in a rate equation\r\nInfo: \"sh\" has been initialised but does not occur in a rate equation\r\nInfo: \"sf\" has been initialised but does not occur in a rate equation\r\nInfo: \"taun\" has been initialised but does not occur in a rate equation\r\nInfo: \"tauh\" has been initialised but does not occur in a rate equation\r\nInfo: \"Lambda\" has been initialised but does not occur in a rate equation\r\nInfo: \"ks\" has been initialised but does not occur in a rate equation\r\nInfo: \"phik\" has been initialised but does not occur in a rate equation\r\nInfo: \"phia\" has been initialised but does not occur in a rate equation\r\nInfo: \"phih\" has been initialised but does not occur in a rate equation\r\nInfo: \"phif\" has been initialised but does not occur in a rate equation\r\nInfo: \"phical\" has been initialised but does not occur in a rate equation\r\nInfo: \"cinf\" has been initialised but does not occur in a rate equation\r\nInfo: \"isk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ibk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ikdr\" has been initialised but does not occur in a rate equation\r\nInfo: \"ia\" has been initialised but does not occur in a rate equation\r\nInfo: \"ik\" has been initialised but does not occur in a rate equation\r\nInfo: \"n\" has been initialised but does not occur in a rate equation\r\nInfo: \"h\" has been initialised but does not occur in a rate equation\r\nInfo: \"V\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . no flux conservation\r\n done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nRate rule(s) detected.\r\nINFO: RateRules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 30001 points: 1.0987403392791748\r\nRateRules evaluated and added to mod.data_sim.\r\n \u001b[31mfailed - 'PysMod' object has no attribute 'lambda'\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[36mqueued\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", "outputs": [ { "dataSets": [ @@ -880,7 +880,7 @@ "status": "SKIPPED" } ], - "duration": 0.058461, + "duration": 0.042524, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -894,7 +894,7 @@ "status": "SKIPPED" } ], - "duration": 0.316446, + "duration": 0.33085, "exception": null, "id": "autogen_plot_for_task1", "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the X axis because the X data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mCurves have inconsistent x axis scales. All curves will be plotted in linear scale.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mCurves have inconsistent y axis scales. All curves will be plotted in linear scale.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", @@ -907,13 +907,13 @@ "tasks": [ { "algorithm": null, - "duration": 1.121393, + "duration": 2.282584, "exception": { "message": "'PysMod' object has no attribute 'lambda'", "type": "AttributeError" }, "id": "task1", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_ga__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_V__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_taun__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_reaction_0000004__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ibk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_tauh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phif__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_isk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ikdr__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_lambda__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ks__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gsk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ff__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vca__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_alpha__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_c__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_Cm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gcal__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phical__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_va__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cinf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_n__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_h__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phih__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ica__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task1_phia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_alpha__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_tauh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phif__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gcal__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ica__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gsk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ikdr__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phical__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_Cm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ga__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_c__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_lambda__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vca__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_va__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cinf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_h__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ff__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phih__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ibk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_n__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ks__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_isk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_taun__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_reaction_0000004__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_V__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", "simulatorDetails": null, "skipReason": null, "status": "FAILED" @@ -929,12 +929,12 @@ "rbapy": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/rbapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.118782, + "duration": 0.186552, "exception": { "message": "`/root/in/BIOMD0000000138_url.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpu5yiuvh2/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpbmc8r66v/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` may be invalid.\r\n - Model `BIOMD0000000138_url` may be invalid.\r\n - The model file `BIOMD0000000138_url.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((va - V) / sa))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((V - vh) / sh))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vf - V) / sf))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vm - V) / sm))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gcal * phical * (V - vca)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pow(c, 2) / (pow(c, 2) + pow(ks, 2))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gsk * cinf * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gf * phif * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'gk * n * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ga * phia * h * (V - vk)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'isk + ibk + ikdr + ia' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-(ica + ik) / Cm' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'lambda * (phik - n) / taun' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '(phih - h) / tauh' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '-ff * (alpha * ica + kc * c) * cell' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Cm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gcal' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gsk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ga' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'gf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'va' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sa' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sm' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'sf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'taun' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'tauh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'lambda' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'kc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ks' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ff' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'alpha' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phih' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phif' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'phical' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'cinf' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ica' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'isk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ibk' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ikdr' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ia' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ik' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'n' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'h' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'V' does not have a 'units' attribute.\r\n \u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -949,12 +949,12 @@ "tellurium": { "exception_message": "", "log_yml": { - "duration": 1.155725, + "duration": 7.21062, "exception": null, - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpx3c_bii7/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpx3c_bii7/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpbbz2x1wg/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` has warnings.\r\n - Model `BIOMD0000000138_url` has warnings.\r\n - The model file `BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpbbz2x1wg/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n", "sedDocuments": [ { - "duration": 0.774385, + "duration": 6.732142, "exception": null, "location": "BIOMD0000000138_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -1138,7 +1138,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.194506, + "duration": 5.227241, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -1152,7 +1152,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.299407, + "duration": 1.015425, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -1165,10 +1165,10 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.116665, + "duration": 0.298645, "exception": null, "id": "task1", - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `auto_dg_for_task1_h__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_lambda__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_va__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_isk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ga__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ks__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_taun__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_tauh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gcal__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_reaction_0000004__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ikdr__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ibk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phical__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_Cm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phif__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gsk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ica__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phih__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_alpha__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vca__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cinf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_V__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_c__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_n__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ff__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vf__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `BIOMD0000000138_url` may be invalid.\r\n - The model file `/tmp/tmpx3c_bii7/./BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `auto_dg_for_task1_gk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_isk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_reaction_0000004__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cinf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ia__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_n__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_Cm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ga__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_alpha__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vca__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_kc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_tauh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sf__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phik__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ica__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_h__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gsk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ibk__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_sm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_lambda__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_gcal__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phical__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_V__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_c__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_vm__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ikdr__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phif__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ks__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_va__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_taun__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_ff__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task1_phih__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `BIOMD0000000138_url` may be invalid.\r\n - The model file `/tmp/tmpbbz2x1wg/./BIOMD0000000138_url.xml` has warnings.\r\n - 16 warnings of type SBML unit consistency (99505). The following is the first warning at line 182, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1 / (1 + exp((vn - V) / sn))' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 40 warnings of type Modeling practice (80701). The following is the first warning at line 134, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'vca' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n", "simulatorDetails": [ { "key": "method", @@ -1241,7 +1241,7 @@ "vcell": { "exception_message": "", "log_yml": { - "duration": 10, + "duration": 22, "exception": null, "output": "Processing BIOMD0000000138_url.sedml. Done", "sedDocuments": [ @@ -1457,7 +1457,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 1, + "duration": 7, "exception": null, "id": "task1", "output": "Initializing simulation job 0 ... done. Starting simulation... done.", @@ -1476,12 +1476,12 @@ "xpp": { "exception_message": "Command '-i '/root/in/BIOMD0000000138_url.omex' -o /root/out' in image 'ghcr.io/biosimulators/xpp' returned non-zero exit status 1", "log_yml": { - "duration": 0.043295, + "duration": 0.059712, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpvcx37jkg/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmphs3ysasz/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" diff --git a/BioModels/BIOMD0000000138/tests/results_remote.json b/BioModels/BIOMD0000000138/tests/results_remote.json index 81e88681..2ed68328 100644 --- a/BioModels/BIOMD0000000138/tests/results_remote.json +++ b/BioModels/BIOMD0000000138/tests/results_remote.json @@ -1,11 +1,11 @@ { "amici": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999409fa297efdca4d2a4", - "download": "https://api.biosimulations.org/results/675999409fa297efdca4d2a4/download", - "logs": "https://api.biosimulations.org/logs/675999409fa297efdca4d2a4?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864df3167dc18b5b2476fe", + "download": "https://api.biosimulations.org/results/67864df3167dc18b5b2476fe/download", + "logs": "https://api.biosimulations.org/logs/67864df3167dc18b5b2476fe?includeOutput=true", "log_yml": { - "duration": 0.971204, + "duration": 0.928141, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n rateRule \"lambda * (phik - n) / taun\" contains an unsupported expression: Sympify of expression 'could not parse 'lambda * (phik - n) / taun'' failed, because of exception being raised:\n TokenError: Starred arguments in lambda not supported.", "type": "CombineArchiveExecutionError" @@ -13,7 +13,7 @@ "output": "", "sedDocuments": [ { - "duration": 0.582419, + "duration": 0.550258, "exception": { "message": "The SED document did not execute successfully:\n\n rateRule \"lambda * (phik - n) / taun\" contains an unsupported expression: Sympify of expression 'could not parse 'lambda * (phik - n) / taun'' failed, because of exception being raised:\n TokenError: Starred arguments in lambda not supported.", "type": "SedmlExecutionError" @@ -200,7 +200,7 @@ "status": "SKIPPED" } ], - "duration": 0.06155, + "duration": 0.058551, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -214,7 +214,7 @@ "status": "SKIPPED" } ], - "duration": 0.286159, + "duration": 0.28067, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -227,7 +227,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.101771, + "duration": 0.095587, "exception": { "message": "rateRule \"lambda * (phik - n) / taun\" contains an unsupported expression: Sympify of expression 'could not parse 'lambda * (phik - n) / taun'' failed, because of exception being raised:\nTokenError: Starred arguments in lambda not supported.", "type": "SBMLException" @@ -247,11 +247,11 @@ }, "brian2": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599942c3054f763d585837", - "download": "https://api.biosimulations.org/results/67599942c3054f763d585837/download", - "logs": "https://api.biosimulations.org/logs/67599942c3054f763d585837?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864df5167dc18b5b247701", + "download": "https://api.biosimulations.org/results/67864df5167dc18b5b247701/download", + "logs": "https://api.biosimulations.org/logs/67864df5167dc18b5b247701?includeOutput=true", "log_yml": { - "duration": 0.051573, + "duration": 0.049079, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -264,11 +264,11 @@ }, "bionetgen": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999449fa297efdca4d2a7", - "download": "https://api.biosimulations.org/results/675999449fa297efdca4d2a7/download", - "logs": "https://api.biosimulations.org/logs/675999449fa297efdca4d2a7?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864df7167dc18b5b247704", + "download": "https://api.biosimulations.org/results/67864df7167dc18b5b247704/download", + "logs": "https://api.biosimulations.org/logs/67864df7167dc18b5b247704?includeOutput=true", "log_yml": { - "duration": 0.180789, + "duration": 0.177497, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -281,11 +281,11 @@ }, "boolnet": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599946c3054f763d58583c", - "download": "https://api.biosimulations.org/results/67599946c3054f763d58583c/download", - "logs": "https://api.biosimulations.org/logs/67599946c3054f763d58583c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864df8ba5a3f02b9f2f1e3", + "download": "https://api.biosimulations.org/results/67864df8ba5a3f02b9f2f1e3/download", + "logs": "https://api.biosimulations.org/logs/67864df8ba5a3f02b9f2f1e3?includeOutput=true", "log_yml": { - "duration": 0.189244, + "duration": 0.184346, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -298,11 +298,11 @@ }, "cbmpy": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599947707aa64104620c8f", - "download": "https://api.biosimulations.org/results/67599947707aa64104620c8f/download", - "logs": "https://api.biosimulations.org/logs/67599947707aa64104620c8f?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864dfa167dc18b5b247707", + "download": "https://api.biosimulations.org/results/67864dfa167dc18b5b247707/download", + "logs": "https://api.biosimulations.org/logs/67864dfa167dc18b5b247707?includeOutput=true", "log_yml": { - "duration": 0.288107, + "duration": 0.255117, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -315,11 +315,11 @@ }, "cobrapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999499fa297efdca4d2ae", - "download": "https://api.biosimulations.org/results/675999499fa297efdca4d2ae/download", - "logs": "https://api.biosimulations.org/logs/675999499fa297efdca4d2ae?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864dfc167dc18b5b24770c", + "download": "https://api.biosimulations.org/results/67864dfc167dc18b5b24770c/download", + "logs": "https://api.biosimulations.org/logs/67864dfc167dc18b5b24770c?includeOutput=true", "log_yml": { - "duration": 0.206998, + "duration": 0.169123, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -332,16 +332,16 @@ }, "copasi": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759994cc3054f763d58583f", - "download": "https://api.biosimulations.org/results/6759994cc3054f763d58583f/download", - "logs": "https://api.biosimulations.org/logs/6759994cc3054f763d58583f?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864dfe167dc18b5b247711", + "download": "https://api.biosimulations.org/results/67864dfe167dc18b5b247711/download", + "logs": "https://api.biosimulations.org/logs/67864dfe167dc18b5b247711?includeOutput=true", "log_yml": { - "duration": 1.402967, + "duration": 8.410892, "exception": null, "output": "", "sedDocuments": [ { - "duration": 1.078911, + "duration": 7.952209, "exception": null, "location": "BIOMD0000000138_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...woohoo!\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -525,7 +525,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.301759, + "duration": 5.828147, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -539,7 +539,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.44474, + "duration": 0.850224, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -552,7 +552,7 @@ "tasks": [ { "algorithm": "KISAO_0000560", - "duration": 0.193466, + "duration": 1.155574, "exception": null, "id": "task1", "output": "", @@ -578,11 +578,11 @@ }, "gillespy2": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759994e9fa297efdca4d2b6", - "download": "https://api.biosimulations.org/results/6759994e9fa297efdca4d2b6/download", - "logs": "https://api.biosimulations.org/logs/6759994e9fa297efdca4d2b6?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e00ba5a3f02b9f2f1e9", + "download": "https://api.biosimulations.org/results/67864e00ba5a3f02b9f2f1e9/download", + "logs": "https://api.biosimulations.org/logs/67864e00ba5a3f02b9f2f1e9?includeOutput=true", "log_yml": { - "duration": 0.196542, + "duration": 0.191265, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -595,11 +595,11 @@ }, "ginsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759994fc3054f763d585849", - "download": "https://api.biosimulations.org/results/6759994fc3054f763d585849/download", - "logs": "https://api.biosimulations.org/logs/6759994fc3054f763d585849?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e02167dc18b5b247717", + "download": "https://api.biosimulations.org/results/67864e02167dc18b5b247717/download", + "logs": "https://api.biosimulations.org/logs/67864e02167dc18b5b247717?includeOutput=true", "log_yml": { - "duration": 0.181475, + "duration": 0.161988, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -612,11 +612,11 @@ }, "libsbmlsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599951c3054f763d58584c", - "download": "https://api.biosimulations.org/results/67599951c3054f763d58584c/download", - "logs": "https://api.biosimulations.org/logs/67599951c3054f763d58584c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e04ba5a3f02b9f2f1f0", + "download": "https://api.biosimulations.org/results/67864e04ba5a3f02b9f2f1f0/download", + "logs": "https://api.biosimulations.org/logs/67864e04ba5a3f02b9f2f1f0?includeOutput=true", "log_yml": { - "duration": 0.1971, + "duration": 0.167952, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -629,11 +629,11 @@ }, "masspy": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999539fa297efdca4d2c4", - "download": "https://api.biosimulations.org/results/675999539fa297efdca4d2c4/download", - "logs": "https://api.biosimulations.org/logs/675999539fa297efdca4d2c4?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e06167dc18b5b24771d", + "download": "https://api.biosimulations.org/results/67864e06167dc18b5b24771d/download", + "logs": "https://api.biosimulations.org/logs/67864e06167dc18b5b24771d?includeOutput=true", "log_yml": { - "duration": 1.160059, + "duration": 1.127107, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n Something went wrong reading the SBML model. Most likely the SBML model is not valid. Please check that your model is valid using the `mass.io.sbml.validate_sbml_model` function or via the online validator at http://sbml.org/validator .\n \t`(model, errors) = validate_sbml_model(filename)`\n If the model is valid and cannot be read please open an issue at https://github.com/SBRG/masspy/issues .", "type": "CombineArchiveExecutionError" @@ -641,7 +641,7 @@ "output": "", "sedDocuments": [ { - "duration": 0.641092, + "duration": 0.690025, "exception": { "message": "The SED document did not execute successfully:\n\n Something went wrong reading the SBML model. Most likely the SBML model is not valid. Please check that your model is valid using the `mass.io.sbml.validate_sbml_model` function or via the online validator at http://sbml.org/validator .\n \t`(model, errors) = validate_sbml_model(filename)`\n If the model is valid and cannot be read please open an issue at https://github.com/SBRG/masspy/issues .", "type": "SedmlExecutionError" @@ -828,7 +828,7 @@ "status": "SKIPPED" } ], - "duration": 0.056229, + "duration": 0.179651, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -842,7 +842,7 @@ "status": "SKIPPED" } ], - "duration": 0.339426, + "duration": 0.278479, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -855,7 +855,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.086716, + "duration": 0.073765, "exception": { "message": "Something went wrong reading the SBML model. Most likely the SBML model is not valid. Please check that your model is valid using the `mass.io.sbml.validate_sbml_model` function or via the online validator at http://sbml.org/validator .\n\t`(model, errors) = validate_sbml_model(filename)`\nIf the model is valid and cannot be read please open an issue at https://github.com/SBRG/masspy/issues .", "type": "MassSBMLError" @@ -875,11 +875,11 @@ }, "netpyne": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599955c3054f763d585861", - "download": "https://api.biosimulations.org/results/67599955c3054f763d585861/download", - "logs": "https://api.biosimulations.org/logs/67599955c3054f763d585861?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e07167dc18b5b247726", + "download": "https://api.biosimulations.org/results/67864e07167dc18b5b247726/download", + "logs": "https://api.biosimulations.org/logs/67864e07167dc18b5b247726?includeOutput=true", "log_yml": { - "duration": 0.052541, + "duration": 0.051417, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -892,11 +892,11 @@ }, "neuron": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599956707aa64104620cab", - "download": "https://api.biosimulations.org/results/67599956707aa64104620cab/download", - "logs": "https://api.biosimulations.org/logs/67599956707aa64104620cab?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e09ba5a3f02b9f2f213", + "download": "https://api.biosimulations.org/results/67864e09ba5a3f02b9f2f213/download", + "logs": "https://api.biosimulations.org/logs/67864e09ba5a3f02b9f2f213?includeOutput=true", "log_yml": { - "duration": 0.048951, + "duration": 0.047247, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -909,16 +909,16 @@ }, "opencor": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599958c3054f763d585873", - "download": "https://api.biosimulations.org/results/67599958c3054f763d585873/download", - "logs": "https://api.biosimulations.org/logs/67599958c3054f763d585873?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e0a1f52f47f628b57b6", + "download": "https://api.biosimulations.org/results/67864e0a1f52f47f628b57b6/download", + "logs": "https://api.biosimulations.org/logs/67864e0a1f52f47f628b57b6?includeOutput=true", "log_yml": { - "duration": 0.029932, + "duration": 0.050846, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpmyqps9wi/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpiy7l0iq_/./BIOMD0000000138_url.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -926,11 +926,11 @@ }, "pyneuroml": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599959c3054f763d585886", - "download": "https://api.biosimulations.org/results/67599959c3054f763d585886/download", - "logs": "https://api.biosimulations.org/logs/67599959c3054f763d585886?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e0c1f52f47f628b57bf", + "download": "https://api.biosimulations.org/results/67864e0c1f52f47f628b57bf/download", + "logs": "https://api.biosimulations.org/logs/67864e0c1f52f47f628b57bf?includeOutput=true", "log_yml": { - "duration": 0.048959, + "duration": 0.048989, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -943,11 +943,11 @@ }, "pysces": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759995bc3054f763d58588c", - "download": "https://api.biosimulations.org/results/6759995bc3054f763d58588c/download", - "logs": "https://api.biosimulations.org/logs/6759995bc3054f763d58588c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e0eba5a3f02b9f2f230", + "download": "https://api.biosimulations.org/results/67864e0eba5a3f02b9f2f230/download", + "logs": "https://api.biosimulations.org/logs/67864e0eba5a3f02b9f2f230?includeOutput=true", "log_yml": { - "duration": 2.135361, + "duration": 3.560239, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n :'PysMod' object has no attribute 'lambda'", "type": "CombineArchiveExecutionError" @@ -955,13 +955,13 @@ "output": "libtk8.6.so: cannot open shared object file: No such file or directory\r\n\r\nPySCeS defaults to matplotlib's TKagg backend if not specified in the user configuration file, set \"matplotlib_backend = \" \r\nMatplotlib interface loaded (pysces.plt.m)\r\nPitcon routines available\r\nNLEQ2 routines available\r\nSBML support available\r\nYou are using NumPy (2.1.2) with SciPy (1.14.1)\r\nAssimulo CVode available\r\nRateChar is available\r\nParallel scanner is available\r\n\r\nPySCeS environment\r\n******************\r\npysces.model_dir = /home/FCAM/crbmapi/Pysces/psc\r\npysces.output_dir = /home/FCAM/crbmapi/Pysces\r\n\r\n\r\n***********************************************************************\r\n* Welcome to PySCeS (1.2.2) - Python Simulator for Cellular Systems *\r\n* http://pysces.sourceforge.net *\r\n* Copyright(C) B.G. Olivier, J.M. Rohwer, J.-H.S. Hofmeyr, 2004-2024 *\r\n* Triple-J Group for Molecular Cell Physiology *\r\n* Stellenbosch University, ZA and VU University Amsterdam, NL *\r\n* PySCeS is distributed under the PySCeS (BSD style) licence, see *\r\n* LICENCE.txt (supplied with this release) for details *\r\n* Please cite PySCeS with: doi:10.1093/bioinformatics/bti046 *\r\n***********************************************************************\r\n", "sedDocuments": [ { - "duration": 1.817634, + "duration": 3.268038, "exception": { "message": "The SED document did not execute successfully:\n\n :'PysMod' object has no attribute 'lambda'", "type": "SedmlExecutionError" }, "location": "BIOMD0000000138_url.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V1\r\nlambda is a reserved symbol, replacing with Lambda\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmphf9ek76_.xml\r\n*******************************************************************\r\n\r\nReserved symbol lambda replaced with Lambda \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"reaction_0000004\" in default compartment\r\nWriting file: /tmp/tmpj7zz980a.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmphf9ek76_.xml\r\nout: /tmp/tmpj7zz980a.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpj7zz980a.psc loading ..... \r\nParsing file: /tmp/tmpj7zz980a.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"vca\" has been initialised but does not occur in a rate equation\r\nInfo: \"vk\" has been initialised but does not occur in a rate equation\r\nInfo: \"Cm\" has been initialised but does not occur in a rate equation\r\nInfo: \"gk\" has been initialised but does not occur in a rate equation\r\nInfo: \"gcal\" has been initialised but does not occur in a rate equation\r\nInfo: \"gsk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ga\" has been initialised but does not occur in a rate equation\r\nInfo: \"gf\" has been initialised but does not occur in a rate equation\r\nInfo: \"vn\" has been initialised but does not occur in a rate equation\r\nInfo: \"va\" has been initialised but does not occur in a rate equation\r\nInfo: \"vm\" has been initialised but does not occur in a rate equation\r\nInfo: \"vh\" has been initialised but does not occur in a rate equation\r\nInfo: \"vf\" has been initialised but does not occur in a rate equation\r\nInfo: \"sn\" has been initialised but does not occur in a rate equation\r\nInfo: \"sa\" has been initialised but does not occur in a rate equation\r\nInfo: \"sm\" has been initialised but does not occur in a rate equation\r\nInfo: \"sh\" has been initialised but does not occur in a rate equation\r\nInfo: \"sf\" has been initialised but does not occur in a rate equation\r\nInfo: \"taun\" has been initialised but does not occur in a rate equation\r\nInfo: \"tauh\" has been initialised but does not occur in a rate equation\r\nInfo: \"Lambda\" has been initialised but does not occur in a rate equation\r\nInfo: \"ks\" has been initialised but does not occur in a rate equation\r\nInfo: \"phik\" has been initialised but does not occur in a rate equation\r\nInfo: \"phia\" has been initialised but does not occur in a rate equation\r\nInfo: \"phih\" has been initialised but does not occur in a rate equation\r\nInfo: \"phif\" has been initialised but does not occur in a rate equation\r\nInfo: \"phical\" has been initialised but does not occur in a rate equation\r\nInfo: \"cinf\" has been initialised but does not occur in a rate equation\r\nInfo: \"isk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ibk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ikdr\" has been initialised but does not occur in a rate equation\r\nInfo: \"ia\" has been initialised but does not occur in a rate equation\r\nInfo: \"ik\" has been initialised but does not occur in a rate equation\r\nInfo: \"n\" has been initialised but does not occur in a rate equation\r\nInfo: \"h\" has been initialised but does not occur in a rate equation\r\nInfo: \"V\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . no flux conservation\r\n done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nRate rule(s) detected.\r\nINFO: RateRules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 1001 points: 0.04923725128173828\r\nRateRules evaluated and added to mod.data_sim.\r\n \u001b[31mfailed - 'PysMod' object has no attribute 'lambda'\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[36mqueued\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V1\r\nlambda is a reserved symbol, replacing with Lambda\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmp3gil0fk3.xml\r\n*******************************************************************\r\n\r\nReserved symbol lambda replaced with Lambda \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"reaction_0000004\" in default compartment\r\nWriting file: /tmp/tmpp7d4rg7y.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmp3gil0fk3.xml\r\nout: /tmp/tmpp7d4rg7y.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpp7d4rg7y.psc loading ..... \r\nParsing file: /tmp/tmpp7d4rg7y.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"vca\" has been initialised but does not occur in a rate equation\r\nInfo: \"vk\" has been initialised but does not occur in a rate equation\r\nInfo: \"Cm\" has been initialised but does not occur in a rate equation\r\nInfo: \"gk\" has been initialised but does not occur in a rate equation\r\nInfo: \"gcal\" has been initialised but does not occur in a rate equation\r\nInfo: \"gsk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ga\" has been initialised but does not occur in a rate equation\r\nInfo: \"gf\" has been initialised but does not occur in a rate equation\r\nInfo: \"vn\" has been initialised but does not occur in a rate equation\r\nInfo: \"va\" has been initialised but does not occur in a rate equation\r\nInfo: \"vm\" has been initialised but does not occur in a rate equation\r\nInfo: \"vh\" has been initialised but does not occur in a rate equation\r\nInfo: \"vf\" has been initialised but does not occur in a rate equation\r\nInfo: \"sn\" has been initialised but does not occur in a rate equation\r\nInfo: \"sa\" has been initialised but does not occur in a rate equation\r\nInfo: \"sm\" has been initialised but does not occur in a rate equation\r\nInfo: \"sh\" has been initialised but does not occur in a rate equation\r\nInfo: \"sf\" has been initialised but does not occur in a rate equation\r\nInfo: \"taun\" has been initialised but does not occur in a rate equation\r\nInfo: \"tauh\" has been initialised but does not occur in a rate equation\r\nInfo: \"Lambda\" has been initialised but does not occur in a rate equation\r\nInfo: \"ks\" has been initialised but does not occur in a rate equation\r\nInfo: \"phik\" has been initialised but does not occur in a rate equation\r\nInfo: \"phia\" has been initialised but does not occur in a rate equation\r\nInfo: \"phih\" has been initialised but does not occur in a rate equation\r\nInfo: \"phif\" has been initialised but does not occur in a rate equation\r\nInfo: \"phical\" has been initialised but does not occur in a rate equation\r\nInfo: \"cinf\" has been initialised but does not occur in a rate equation\r\nInfo: \"isk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ibk\" has been initialised but does not occur in a rate equation\r\nInfo: \"ikdr\" has been initialised but does not occur in a rate equation\r\nInfo: \"ia\" has been initialised but does not occur in a rate equation\r\nInfo: \"ik\" has been initialised but does not occur in a rate equation\r\nInfo: \"n\" has been initialised but does not occur in a rate equation\r\nInfo: \"h\" has been initialised but does not occur in a rate equation\r\nInfo: \"V\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . done.\r\nCalculating K matrix . . . . . . . no flux conservation\r\n done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nRate rule(s) detected.\r\nINFO: RateRules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 30001 points: 1.5136682987213135\r\nRateRules evaluated and added to mod.data_sim.\r\n \u001b[31mfailed - 'PysMod' object has no attribute 'lambda'\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[36mqueued\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", "outputs": [ { "dataSets": [ @@ -1142,7 +1142,7 @@ "status": "SKIPPED" } ], - "duration": 0.054186, + "duration": 0.058535, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -1156,7 +1156,7 @@ "status": "SKIPPED" } ], - "duration": 0.432871, + "duration": 0.299191, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -1169,7 +1169,7 @@ "tasks": [ { "algorithm": null, - "duration": 1.195812, + "duration": 2.78261, "exception": { "message": "'PysMod' object has no attribute 'lambda'", "type": "AttributeError" @@ -1189,11 +1189,11 @@ }, "rbapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759995d9fa297efdca4d2f7", - "download": "https://api.biosimulations.org/results/6759995d9fa297efdca4d2f7/download", - "logs": "https://api.biosimulations.org/logs/6759995d9fa297efdca4d2f7?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e0f1f52f47f628b57ca", + "download": "https://api.biosimulations.org/results/67864e0f1f52f47f628b57ca/download", + "logs": "https://api.biosimulations.org/logs/67864e0f1f52f47f628b57ca?includeOutput=true", "log_yml": { - "duration": 0.191285, + "duration": 0.192293, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./BIOMD0000000138_url.sedml` is invalid.\n - Simulation `auto_ten_seconds` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -1206,11 +1206,11 @@ }, "smoldyn": { "response": 201, - "view": "https://api.biosimulations.org/runs/6759995f707aa64104620cd9", - "download": "https://api.biosimulations.org/results/6759995f707aa64104620cd9/download", - "logs": "https://api.biosimulations.org/logs/6759995f707aa64104620cd9?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e11167dc18b5b24776f", + "download": "https://api.biosimulations.org/results/67864e11167dc18b5b24776f/download", + "logs": "https://api.biosimulations.org/logs/67864e11167dc18b5b24776f?includeOutput=true", "log_yml": { - "duration": 0.048917, + "duration": 0.05768, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1223,16 +1223,16 @@ }, "tellurium": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599961707aa64104620ce4", - "download": "https://api.biosimulations.org/results/67599961707aa64104620ce4/download", - "logs": "https://api.biosimulations.org/logs/67599961707aa64104620ce4?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e12167dc18b5b247774", + "download": "https://api.biosimulations.org/results/67864e12167dc18b5b247774/download", + "logs": "https://api.biosimulations.org/logs/67864e12167dc18b5b247774?includeOutput=true", "log_yml": { - "duration": 1.480166, + "duration": 7.92626, "exception": null, "output": "", "sedDocuments": [ { - "duration": 1.048799, + "duration": 7.550539, "exception": null, "location": "BIOMD0000000138_url.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n BIOMD0000000138_url.sedml:\r\n Tasks (1):\r\n task1\r\n Reports (1):\r\n autogen_report_for_task1: 44 data sets\r\n Plots (1):\r\n autogen_plot_for_task1: 1 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000138_url.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n Outputs:\r\n `autogen_plot_for_task1`\r\n `autogen_report_for_task1`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_plot_for_task1` ...", @@ -1416,7 +1416,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.279199, + "duration": 6.04438, "exception": null, "id": "autogen_report_for_task1", "output": "", @@ -1430,7 +1430,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.359601, + "duration": 0.979144, "exception": null, "id": "autogen_plot_for_task1", "output": "", @@ -1443,7 +1443,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.248306, + "duration": 0.391823, "exception": null, "id": "task1", "output": "", @@ -1517,11 +1517,11 @@ }, "vcell": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599964707aa64104620cf9", - "download": "https://api.biosimulations.org/results/67599964707aa64104620cf9/download", - "logs": "https://api.biosimulations.org/logs/67599964707aa64104620cf9?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e16167dc18b5b247785", + "download": "https://api.biosimulations.org/results/67864e16167dc18b5b247785/download", + "logs": "https://api.biosimulations.org/logs/67864e16167dc18b5b247785?includeOutput=true", "log_yml": { - "duration": 7, + "duration": 11, "exception": null, "output": "Processing BIOMD0000000138_url.sedml. Done", "sedDocuments": [ @@ -1754,11 +1754,11 @@ }, "xpp": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599966707aa64104620d00", - "download": "https://api.biosimulations.org/results/67599966707aa64104620d00/download", - "logs": "https://api.biosimulations.org/logs/67599966707aa64104620d00?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864e18ba5a3f02b9f2f25f", + "download": "https://api.biosimulations.org/results/67864e18ba5a3f02b9f2f25f/download", + "logs": "https://api.biosimulations.org/logs/67864e18ba5a3f02b9f2f25f?includeOutput=true", "log_yml": { - "duration": 0.047262, + "duration": 0.049439, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" diff --git a/BioModels/BIOMD0000000724/Theinmozhi_2018.omex b/BioModels/BIOMD0000000724/Theinmozhi_2018.omex new file mode 100644 index 00000000..7dcbf4bc Binary files /dev/null and b/BioModels/BIOMD0000000724/Theinmozhi_2018.omex differ diff --git 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a/BioModels/BIOMD0000000724/tests/results_compatibility_biosimulators.md +++ b/BioModels/BIOMD0000000724/tests/results_Theinmozhi_2018.md @@ -1,23 +1,23 @@ | Engine | Compatibility | pass / FAIL (R) | pass / FAIL (L) | d1 (R) | d1 (L) | |:-------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------|:-------------------------------------------------------------| -|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/

|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | -|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Could not load MassModel '_30356330_Theinmozhi_PDL1_TCR_regulation'

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] cannot be changed by XML manipulation, as the target is not an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | -|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | -|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

SBML, SED-ML and BNGL are compatible with VCell.
|
✅ PASSview
download
logs

|
❌ FAILERROR MESSAGE:
Runtime Exception

| plot | | -|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file +|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | +|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Could not load MassModel '_30356330_Theinmozhi_PDL1_TCR_regulation'

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] cannot be changed by XML manipulation, as the target is not an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | +|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | +|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

BNGL, SBML and SED-ML are compatible with VCell.
|
✅ PASSview
download
logs

|
❌ FAILERROR MESSAGE:
Runtime Exception

| plot | | +|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file diff --git a/BioModels/BIOMD0000000724/tests/results_local.json b/BioModels/BIOMD0000000724/tests/results_local.json index f5d9c512..ee551b8e 100644 --- a/BioModels/BIOMD0000000724/tests/results_local.json +++ b/BioModels/BIOMD0000000724/tests/results_local.json @@ -2,7 +2,7 @@ "amici": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/amici' returned non-zero exit status 1", "log_yml": { - "duration": 3.673248, + "duration": 4.347384, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.\n \n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element", "type": "CombineArchiveExecutionError" @@ -10,7 +10,7 @@ "output": "", "sedDocuments": [ { - "duration": 3.075882, + "duration": 3.499748, "exception": { "message": "The SED document did not execute successfully:\n\n Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.\n\n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element", "type": "SedmlExecutionError" @@ -25,7 +25,7 @@ "status": "SKIPPED" } ], - "duration": 0.200472, + "duration": 0.208845, "exception": null, "id": "plot_6_task2", "output": "", @@ -39,7 +39,7 @@ "status": "SKIPPED" } ], - "duration": 0.163246, + "duration": 0.404815, "exception": null, "id": "plot_7_task2", "output": "", @@ -57,7 +57,7 @@ "status": "SKIPPED" } ], - "duration": 0.179896, + "duration": 0.205435, "exception": null, "id": "plot_8_task2", "output": "", @@ -71,7 +71,7 @@ "status": "SKIPPED" } ], - "duration": 0.286281, + "duration": 0.264832, "exception": null, "id": "plot_9_task2", "output": "", @@ -85,7 +85,7 @@ "status": "SKIPPED" } ], - "duration": 0.202418, + "duration": 0.208737, "exception": null, "id": "plot_10_task2", "output": "", @@ -575,7 +575,7 @@ "status": "SKIPPED" } ], - "duration": 0.067765, + "duration": 0.062541, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -588,7 +588,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.117533, + "duration": 0.144359, "exception": { "message": "Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.", "type": "SBMLException" @@ -601,7 +601,7 @@ }, { "algorithm": null, - "duration": 0.190501, + "duration": 0.048868, "exception": { "message": "target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element", "type": "ValueError" @@ -623,12 +623,12 @@ "brian2": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/brian2' returned non-zero exit status 1", "log_yml": { - "duration": 0.063489, + "duration": 0.077351, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp2he3k7kl/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp2he3k7kl/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", + "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpm6jblc1r/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpm6jblc1r/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -638,12 +638,12 @@ "bionetgen": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/bionetgen' returned non-zero exit status 1", "log_yml": { - "duration": 0.269294, + "duration": 0.208906, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpkblwi4ym/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpzxyaoerj/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -653,12 +653,12 @@ "boolnet": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/boolnet' returned non-zero exit status 1", "log_yml": { - "duration": 0.183914, + "duration": 0.215225, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpb2cxw46_/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp53yd9x27/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -668,12 +668,12 @@ "cbmpy": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/cbmpy' returned non-zero exit status 1", "log_yml": { - "duration": 0.255235, + "duration": 0.356789, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpg116sky3/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp05bauw4w/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -683,12 +683,12 @@ "cobrapy": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/cobrapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.17102, + "duration": 0.184327, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpoh3n2shi/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpzr0sdqu2/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -698,12 +698,12 @@ "copasi": { "exception_message": "", "log_yml": { - "duration": 3.264843, + "duration": 3.218845, "exception": null, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_wddmlq3/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_wddmlq3/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpvmnf537_/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpvmnf537_/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 2.3926, + "duration": 2.649753, "exception": null, "location": "Theinmozhi_2018.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 1 tasks and 6 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", @@ -715,7 +715,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.294191, + "duration": 0.307227, "exception": null, "id": "plot_6_task2", "output": "", @@ -729,7 +729,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.220769, + "duration": 0.228237, "exception": null, "id": "plot_7_task2", "output": "", @@ -747,7 +747,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.292428, + "duration": 0.272226, "exception": null, "id": "plot_8_task2", "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", @@ -761,7 +761,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.224587, + "duration": 0.225846, "exception": null, "id": "plot_9_task2", "output": "", @@ -775,7 +775,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.249276, + "duration": 0.259481, "exception": null, "id": "plot_10_task2", "output": "", @@ -1265,7 +1265,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.171407, + "duration": 0.207256, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1278,10 +1278,10 @@ "tasks": [ { "algorithm": null, - "duration": 0.421953, + "duration": 0.539177, "exception": null, "id": "task2", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmp_wddmlq3/tmpyynxx_4n.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmp_wddmlq3/tmp_cf8cs1k.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmpvmnf537_/tmpro7vc74t.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmpvmnf537_/tmpdmhrebl7.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "simulatorDetails": null, "skipReason": null, "status": "SUCCEEDED" @@ -1297,12 +1297,12 @@ "gillespy2": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/gillespy2' returned non-zero exit status 1", "log_yml": { - "duration": 0.183644, + "duration": 0.235754, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpbuzu5qga/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp4lbepa5b/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1312,12 +1312,12 @@ "ginsim": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/ginsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.178154, + "duration": 0.261475, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp598x9i_u/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpxi0szfxu/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1327,12 +1327,12 @@ "libsbmlsim": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/libsbmlsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.218582, + "duration": 0.245851, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpjghrtv07/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmplghy_3wt/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1342,12 +1342,12 @@ "masspy": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/masspy' returned non-zero exit status 1", "log_yml": { - "duration": 0.166265, + "duration": 0.211936, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmph_gz4n19/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmpj4k1a5u0/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` has warnings.\r\n - Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` has warnings.\r\n - Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` has warnings.\r\n - Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` has warnings.\r\n - Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` has warnings.\r\n - Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` has warnings.\r\n - Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` has warnings.\r\n - Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` has warnings.\r\n - Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` has warnings.\r\n - Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` has warnings.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` has warnings.\r\n - Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` has warnings.\r\n - Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` has warnings.\r\n - Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` has warnings.\r\n - Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` has warnings.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` has warnings.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` has warnings.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` has warnings.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` has warnings.\r\n - Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` has warnings.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` has warnings.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` has warnings.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` has warnings.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` has warnings.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` has warnings.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` has warnings.\r\n - Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` has warnings.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` has warnings.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` has warnings.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` has warnings.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` has warnings.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` has warnings.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` has warnings.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` has warnings.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` has warnings.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` has warnings.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` has warnings.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` has warnings.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` has warnings.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1357,7 +1357,7 @@ "netpyne": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/netpyne' returned non-zero exit status 1", "log_yml": { - "duration": 0.052341, + "duration": 0.072537, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1372,12 +1372,12 @@ "neuron": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/neuron' returned non-zero exit status 1", "log_yml": { - "duration": 0.059977, + "duration": 0.060662, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp9nxq28uk/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpzkcwevva/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1387,12 +1387,12 @@ "opencor": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/opencor' returned non-zero exit status 1", "log_yml": { - "duration": 0.077544, + "duration": 0.165994, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpbdxtb4_p/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp8uaqd90g/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1402,12 +1402,12 @@ "pyneuroml": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/pyneuroml' returned non-zero exit status 1", "log_yml": { - "duration": 0.156048, + "duration": 0.067892, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmprw_hwkms/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpb8siw6la/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1417,15 +1417,15 @@ "pysces": { "exception_message": "", "log_yml": { - "duration": 5.153343, + "duration": 4.588674, "exception": null, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmptpxqie8w/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmptpxqie8w/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_uw_3qbh/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_uw_3qbh/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 4.599817, + "duration": 4.15613, "exception": null, "location": "Theinmozhi_2018.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 1 tasks and 6 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Info: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmp9diudle9.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpjmnu4i6p.xml\r\nout: /tmp/tmp9diudle9.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmp9diudle9.psc loading ..... \r\nParsing file: /tmp/tmp9diudle9.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.1041567325592041\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 1 tasks and 6 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Info: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmpdwpjbyma.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpa2el52y_.xml\r\nout: /tmp/tmpdwpjbyma.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmpdwpjbyma.psc loading ..... \r\nParsing file: /tmp/tmpdwpjbyma.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.0960850715637207\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", "outputs": [ { "curves": [ @@ -1434,7 +1434,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.32479, + "duration": 0.206273, "exception": null, "id": "plot_6_task2", "output": "", @@ -1448,7 +1448,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.124499, + "duration": 0.12254, "exception": null, "id": "plot_7_task2", "output": "", @@ -1466,7 +1466,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.135296, + "duration": 0.146675, "exception": null, "id": "plot_8_task2", "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", @@ -1480,7 +1480,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.253619, + "duration": 0.125699, "exception": null, "id": "plot_9_task2", "output": "", @@ -1494,7 +1494,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.150726, + "duration": 0.123002, "exception": null, "id": "plot_10_task2", "output": "", @@ -1984,7 +1984,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.201563, + "duration": 0.142105, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1997,10 +1997,10 @@ "tasks": [ { "algorithm": null, - "duration": 2.725857, + "duration": 2.89098, "exception": null, "id": "task2", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmp13ztaf41.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\nInfo: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmp5qc2sv4g.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmp13ztaf41.xml\r\nout: /tmp/tmp5qc2sv4g.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmp5qc2sv4g.psc loading ..... \r\nParsing file: /tmp/tmp5qc2sv4g.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.1160132884979248\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmpjmnu4i6p.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmp86t_vtdr.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\nInfo: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmpvvcxds2u.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmp86t_vtdr.xml\r\nout: /tmp/tmpvvcxds2u.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmpvvcxds2u.psc loading ..... \r\nParsing file: /tmp/tmpvvcxds2u.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.11348104476928711\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmpa2el52y_.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\n", "simulatorDetails": null, "skipReason": null, "status": "SUCCEEDED" @@ -2016,12 +2016,12 @@ "rbapy": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/rbapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.174784, + "duration": 0.240783, "exception": { "message": "`/root/in/Theinmozhi_2018.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmprdbjcrqy/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpn09z4at4/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Theinmozhi_2018.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '1.2e-7 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '2.4e-5 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKinactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCKactive / (LCKi + LCKpi + LCKya + LCKyi + LCKyiya) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'ZAP70 / (ZAP70 + ZAP70i + ZAP70a1 + ZAP70a2) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'PI3K / (PI3Kb + PI3K) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '6e-6 * ModelValue_0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'SHP2 / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'CPactive / (SHP2 + CPactive) * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Cell * Equation_for_PD1_activation(Kp_pd1, LCKactive, PD1, KMp_pd1, PD1p1, PD1p2, LCKt, k)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD3z_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CD28_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_SHP2_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_PI3K_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_ZAP70_free' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y315' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ZAP70_phos_Y93' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y505' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_phos_Y394' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LAT_phosphorylated' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_active' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'perc_LCK_inactive' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'LCK_switch' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ModelValue_0' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_PI3K_free_1_task2` may be invalid.\r\n - Variable `p1_perc_PI3K_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_ZAP70_free_1_task2` may be invalid.\r\n - Variable `p2_perc_ZAP70_free_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_active_1_task2` may be invalid.\r\n - Variable `p3_perc_LCK_active_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `perc_LCK_inactive_2_task2` may be invalid.\r\n - Variable `p3_perc_LCK_inactive_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `SLP76a_1_task2` may be invalid.\r\n - Variable `p4_SLP76a_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `ZAP70a2_1_task2` may be invalid.\r\n - Variable `p5_ZAP70a2_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKt` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CPactive` may be invalid.\r\n - Variable `auto_dg_for_task2_CPactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kb` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kb__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PI3Kt` may be invalid.\r\n - Variable `auto_dg_for_task2_PI3Kt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70t` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATt` may be invalid.\r\n - Variable `auto_dg_for_task2_LATt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSt` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76t` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3t` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3t__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKinactive` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKinactive__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpi_yiya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpi_yiya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdpa_pi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdpa_pi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpi_ya` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpi_ya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_i` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kpa_yi` may be invalid.\r\n - Variable `auto_dg_for_task2_Kpa_yi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_k` may be invalid.\r\n - Variable `auto_dg_for_task2_k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_pd1` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_pd1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd1_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd1_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd2_shp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd2_shp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cp2` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cp2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd28` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd28__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_pi3k` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_pi3k__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_Kdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_KMdp_cd3` may be invalid.\r\n - Variable `auto_dg_for_task2_KMdp_cd3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp1_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp1_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp2_zap` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp2_zap__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_lat` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_lat__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_gads` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_gads__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Ka_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Ka_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kd_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kd_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Kp_slp` may be invalid.\r\n - Variable `auto_dg_for_task2_Kp_slp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_bound` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_bound__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3z_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3z_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_perc_SHP2_free` may be invalid.\r\n - Variable `auto_dg_for_task2_perc_SHP2_free__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y315` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70_phos_Y93` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y505` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y505__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_phos_Y394` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_phos_Y394__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LAT_phosphorylated` may be invalid.\r\n - Variable `auto_dg_for_task2_LAT_phosphorylated__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_switch` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_switch__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ModelValue_0` may be invalid.\r\n - Variable `auto_dg_for_task2_ModelValue_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Cell` may be invalid.\r\n - Variable `auto_dg_for_task2_Cell__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKyi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCK_P_LCKya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_P_LCKyiya_act` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_P_LCKpi_inh` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKya_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyi_DP_LCKi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKyiya_DP_LCKya` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LCKpi_DP_LCKyi` may be invalid.\r\n - Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1_P_PD1p1_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_P_PD1p2_act` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p1_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_PD1p2_Bd_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP2_DP_CP1` may be invalid.\r\n - Variable `auto_dg_for_task2_CP2_DP_CP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CP1_Diss_PD1_SHP2` may be invalid.\r\n - Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28i_P_CD28a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28i_P_CD28a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_DP_CD28i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD28a_Bd_PI3K` may be invalid.\r\n - Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3i_P_CD3a` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3i_P_CD3a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_DP_CD3i` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CD3a_Bd_ZAP70` may be invalid.\r\n - Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70i_P_ZAP70a1` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ZAP70a1_P_ZAP70a2` may be invalid.\r\n - Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATi_P_LATa` may be invalid.\r\n - Variable `auto_dg_for_task2_LATi_P_LATa__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_LATa_Bd_GADS` may be invalid.\r\n - Variable `auto_dg_for_task2_LATa_Bd_GADS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_GADSa_Bd_SLP76` may be invalid.\r\n - Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SLP76i_P_SLC76a` may be invalid.\r\n - Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_6_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_7_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_8_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_9_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `plot_10_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -2036,12 +2036,12 @@ "tellurium": { "exception_message": "", "log_yml": { - "duration": 3.089811, + "duration": 3.399238, "exception": null, - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpi_5yhy86/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpi_5yhy86/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpaiktkg5q/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Theinmozhi_2018.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpaiktkg5q/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_6_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_7_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_8_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_9_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `plot_10_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n", "sedDocuments": [ { - "duration": 2.523413, + "duration": 2.571369, "exception": null, "location": "Theinmozhi_2018.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 1 tasks and 6 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", @@ -2053,7 +2053,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.287259, + "duration": 0.300733, "exception": null, "id": "plot_6_task2", "output": "", @@ -2067,7 +2067,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.20391, + "duration": 0.218464, "exception": null, "id": "plot_7_task2", "output": "", @@ -2085,7 +2085,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.426901, + "duration": 0.438787, "exception": null, "id": "plot_8_task2", "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning:\r\n\r\n\u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n\r\n", @@ -2099,7 +2099,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.434322, + "duration": 0.227426, "exception": null, "id": "plot_9_task2", "output": "", @@ -2113,7 +2113,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.228164, + "duration": 0.301805, "exception": null, "id": "plot_10_task2", "output": "", @@ -2603,7 +2603,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.203789, + "duration": 0.230141, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -2616,10 +2616,10 @@ "tasks": [ { "algorithm": null, - "duration": 0.228865, + "duration": 0.291107, "exception": null, "id": "task2", - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmpi_5yhy86/./Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mAlgorithm parameter with KiSAO id 'KISAO_0000216' was ignored because it is not supported. Parameter must have one of the following KiSAO ids:\r\n - KISAO_0000209: relative_tolerance (relative tolerance)\r\n - KISAO_0000211: absolute_tolerance (absolute tolerance)\r\n - KISAO_0000571: absolute_tolerance_adjustment_factor (absolute tolerance adjustment factor)\r\n - KISAO_0000220: maximum_bdf_order (Maximum Backward Differentiation Formula (BDF) order)\r\n - KISAO_0000219: maximum_adams_order (Maximum Adams order)\r\n - KISAO_0000415: maximum_num_steps (Maximum number of steps)\r\n - KISAO_0000467: maximum_time_step (Maximum time step)\r\n - KISAO_0000485: minimum_time_step (Minimum time step)\r\n - KISAO_0000559: initial_time_step (Initial time step)\r\n - KISAO_0000671: stiff (Stiff)\r\n - KISAO_0000670: multiple_steps (Multiple steps)\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `auto_dg_for_task2_GADSa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1_P_ZAP70a2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_lat__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1_P_PD1p2_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd2_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p5_ZAP70a2_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1_P_PD1p1_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_Bd_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_DP_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSa_Bd_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp2_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_ya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i_P_SLC76a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i_P_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi_P_LATa__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd1_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKpi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP2_Diss_SHP2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p4_SLP76a_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpi_i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y315__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3z_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_P_LCKpi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpa_pi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_inactive_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_switch__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a_DP_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p2_perc_ZAP70_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70_phos_Y93__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_DP_LCKi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y394__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_slp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1p2_Bd_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_shp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADSt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CP1_Diss_PD1_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PD1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cp2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ModelValue_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_DP_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya_DP_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LAT_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_phos_Y505__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p3_perc_LCK_active_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdp_cd3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Ka_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kdpi_yiya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SLP76__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_bound__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCK_P_LCKyi_inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKyi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3Kb__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3a_Bd_ZAP70__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKinactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LATa_Bd_GADS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i_P_CD28a__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kpa_yi__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_perc_SHP2_free__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Cell__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_KMp_pd1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_perc_PI3K_free_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_PI3K__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp1_zap__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kp_cd28__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CPactive__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_LCKya_P_LCKyiya_act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70i_P_ZAP70a1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28_phosphorylated__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_gads__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Kd_pi3k__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD3i__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ZAP70t__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CD28a__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmpaiktkg5q/./Theinmozhi_2018.xml` has warnings.\r\n - 13 warnings of type SBML unit consistency (99505). The following is the first warning at line 2568, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'LCK_switch' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 15 warnings of type Modeling practice (80701). The following is the first warning at line 1946, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'k' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mAlgorithm parameter with KiSAO id 'KISAO_0000216' was ignored because it is not supported. Parameter must have one of the following KiSAO ids:\r\n - KISAO_0000209: relative_tolerance (relative tolerance)\r\n - KISAO_0000211: absolute_tolerance (absolute tolerance)\r\n - KISAO_0000571: absolute_tolerance_adjustment_factor (absolute tolerance adjustment factor)\r\n - KISAO_0000220: maximum_bdf_order (Maximum Backward Differentiation Formula (BDF) order)\r\n - KISAO_0000219: maximum_adams_order (Maximum Adams order)\r\n - KISAO_0000415: maximum_num_steps (Maximum number of steps)\r\n - KISAO_0000467: maximum_time_step (Maximum time step)\r\n - KISAO_0000485: minimum_time_step (Minimum time step)\r\n - KISAO_0000559: initial_time_step (Initial time step)\r\n - KISAO_0000671: stiff (Stiff)\r\n - KISAO_0000670: multiple_steps (Multiple steps)\u001b[0m\r\n\r\n", "simulatorDetails": null, "skipReason": null, "status": "SUCCEEDED" @@ -2635,7 +2635,7 @@ "vcell": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/vcell' returned non-zero exit status 1", "log_yml": { - "duration": 4, + "duration": 7, "exception": null, "output": "Processing Theinmozhi_2018.sedml. Done", "sedDocuments": [ @@ -3250,12 +3250,12 @@ "xpp": { "exception_message": "Command '-i '/root/in/Theinmozhi_2018.omex' -o /root/out' in image 'ghcr.io/biosimulators/xpp' returned non-zero exit status 1", "log_yml": { - "duration": 0.051701, + "duration": 0.133041, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpqyuyjj9l/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmprkykyfaz/./Theinmozhi_2018.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" diff --git a/BioModels/BIOMD0000000724/tests/results_remote.json b/BioModels/BIOMD0000000724/tests/results_remote.json index 3474c44c..25107a5a 100644 --- a/BioModels/BIOMD0000000724/tests/results_remote.json +++ b/BioModels/BIOMD0000000724/tests/results_remote.json @@ -1,11 +1,11 @@ { "amici": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999e9c3054f763d585989", - "download": "https://api.biosimulations.org/results/675999e9c3054f763d585989/download", - "logs": "https://api.biosimulations.org/logs/675999e9c3054f763d585989?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864eee1f52f47f628b5857", + "download": "https://api.biosimulations.org/results/67864eee1f52f47f628b5857/download", + "logs": "https://api.biosimulations.org/logs/67864eee1f52f47f628b5857?includeOutput=true", "log_yml": { - "duration": 2.719446, + "duration": 2.767317, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.\n \n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element", "type": "CombineArchiveExecutionError" @@ -13,7 +13,7 @@ "output": "", "sedDocuments": [ { - "duration": 2.213391, + "duration": 2.2879, "exception": { "message": "The SED document did not execute successfully:\n\n Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.\n\n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element", "type": "SedmlExecutionError" @@ -28,7 +28,7 @@ "status": "SKIPPED" } ], - "duration": 0.102998, + "duration": 0.093385, "exception": null, "id": "plot_6_task2", "output": "", @@ -42,7 +42,7 @@ "status": "SKIPPED" } ], - "duration": 0.104245, + "duration": 0.093117, "exception": null, "id": "plot_7_task2", "output": "", @@ -60,7 +60,7 @@ "status": "SKIPPED" } ], - "duration": 0.109426, + "duration": 0.095649, "exception": null, "id": "plot_8_task2", "output": "", @@ -74,7 +74,7 @@ "status": "SKIPPED" } ], - "duration": 0.106596, + "duration": 0.095253, "exception": null, "id": "plot_9_task2", "output": "", @@ -88,7 +88,7 @@ "status": "SKIPPED" } ], - "duration": 0.104431, + "duration": 0.096414, "exception": null, "id": "plot_10_task2", "output": "", @@ -578,7 +578,7 @@ "status": "SKIPPED" } ], - "duration": 0.053558, + "duration": 0.049193, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -591,7 +591,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.153917, + "duration": 0.15719, "exception": { "message": "Cannot turn parameter ModelValue_0 into a constant/fixed parameter since it either has an initial assignment or is the target of an assignment or rate rule.", "type": "SBMLException" @@ -604,7 +604,7 @@ }, { "algorithm": null, - "duration": 0.041214, + "duration": 0.040684, "exception": { "message": "target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] is not a valid XPath to an attribute of a model element", "type": "ValueError" @@ -624,11 +624,11 @@ }, "brian2": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999ebc3054f763d58598f", - "download": "https://api.biosimulations.org/results/675999ebc3054f763d58598f/download", - "logs": "https://api.biosimulations.org/logs/675999ebc3054f763d58598f?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ef1167dc18b5b2477f5", + "download": "https://api.biosimulations.org/results/67864ef1167dc18b5b2477f5/download", + "logs": "https://api.biosimulations.org/logs/67864ef1167dc18b5b2477f5?includeOutput=true", "log_yml": { - "duration": 0.08301, + "duration": 0.058549, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -641,11 +641,11 @@ }, "bionetgen": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999ec707aa64104620d7c", - "download": "https://api.biosimulations.org/results/675999ec707aa64104620d7c/download", - "logs": "https://api.biosimulations.org/logs/675999ec707aa64104620d7c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ef2167dc18b5b2477f8", + "download": "https://api.biosimulations.org/results/67864ef2167dc18b5b2477f8/download", + "logs": "https://api.biosimulations.org/logs/67864ef2167dc18b5b2477f8?includeOutput=true", "log_yml": { - "duration": 0.25008, + "duration": 0.232346, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -658,11 +658,11 @@ }, "boolnet": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999eec3054f763d585992", - "download": "https://api.biosimulations.org/results/675999eec3054f763d585992/download", - "logs": "https://api.biosimulations.org/logs/675999eec3054f763d585992?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ef41f52f47f628b585b", + "download": "https://api.biosimulations.org/results/67864ef41f52f47f628b585b/download", + "logs": "https://api.biosimulations.org/logs/67864ef41f52f47f628b585b?includeOutput=true", "log_yml": { - "duration": 0.264474, + "duration": 0.235421, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -675,11 +675,11 @@ }, "cbmpy": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999f0c3054f763d585995", - "download": "https://api.biosimulations.org/results/675999f0c3054f763d585995/download", - "logs": "https://api.biosimulations.org/logs/675999f0c3054f763d585995?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ef6ba5a3f02b9f2f2ca", + "download": "https://api.biosimulations.org/results/67864ef6ba5a3f02b9f2f2ca/download", + "logs": "https://api.biosimulations.org/logs/67864ef6ba5a3f02b9f2f2ca?includeOutput=true", "log_yml": { - "duration": 0.350226, + "duration": 0.321103, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -692,11 +692,11 @@ }, "cobrapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999f29fa297efdca4d39e", - "download": "https://api.biosimulations.org/results/675999f29fa297efdca4d39e/download", - "logs": "https://api.biosimulations.org/logs/675999f29fa297efdca4d39e?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864ef8167dc18b5b2477fb", + "download": "https://api.biosimulations.org/results/67864ef8167dc18b5b2477fb/download", + "logs": "https://api.biosimulations.org/logs/67864ef8167dc18b5b2477fb?includeOutput=true", "log_yml": { - "duration": 0.261318, + "duration": 0.226439, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -709,16 +709,16 @@ }, "copasi": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999f4c3054f763d58599e", - "download": "https://api.biosimulations.org/results/675999f4c3054f763d58599e/download", - "logs": "https://api.biosimulations.org/logs/675999f4c3054f763d58599e?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864efa1f52f47f628b5861", + "download": "https://api.biosimulations.org/results/67864efa1f52f47f628b5861/download", + "logs": "https://api.biosimulations.org/logs/67864efa1f52f47f628b5861?includeOutput=true", "log_yml": { - "duration": 2.715015, + "duration": 2.659893, "exception": null, "output": "", "sedDocuments": [ { - "duration": 2.186595, + "duration": 2.15223, "exception": null, "location": "Theinmozhi_2018.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 1 tasks and 6 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...woohoo!\r\nwoohoo!\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", @@ -730,7 +730,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.44773, + "duration": 0.394502, "exception": null, "id": "plot_6_task2", "output": "", @@ -744,7 +744,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.125284, + "duration": 0.154193, "exception": null, "id": "plot_7_task2", "output": "", @@ -762,7 +762,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.1364, + "duration": 0.130904, "exception": null, "id": "plot_8_task2", "output": "", @@ -776,7 +776,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.118575, + "duration": 0.114846, "exception": null, "id": "plot_9_task2", "output": "", @@ -790,7 +790,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.120286, + "duration": 0.192676, "exception": null, "id": "plot_10_task2", "output": "", @@ -1280,7 +1280,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.204297, + "duration": 0.193286, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1293,7 +1293,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.629107, + "duration": 0.576658, "exception": null, "id": "task2", "output": "", @@ -1310,11 +1310,11 @@ }, "gillespy2": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999f69fa297efdca4d3a4", - "download": "https://api.biosimulations.org/results/675999f69fa297efdca4d3a4/download", - "logs": "https://api.biosimulations.org/logs/675999f69fa297efdca4d3a4?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864efcba5a3f02b9f2f2d1", + "download": "https://api.biosimulations.org/results/67864efcba5a3f02b9f2f2d1/download", + "logs": "https://api.biosimulations.org/logs/67864efcba5a3f02b9f2f2d1?includeOutput=true", "log_yml": { - "duration": 0.256454, + "duration": 0.2418, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -1327,11 +1327,11 @@ }, "ginsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999f89fa297efdca4d3a9", - "download": "https://api.biosimulations.org/results/675999f89fa297efdca4d3a9/download", - "logs": "https://api.biosimulations.org/logs/675999f89fa297efdca4d3a9?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864efe167dc18b5b247805", + "download": "https://api.biosimulations.org/results/67864efe167dc18b5b247805/download", + "logs": "https://api.biosimulations.org/logs/67864efe167dc18b5b247805?includeOutput=true", "log_yml": { - "duration": 0.25789, + "duration": 0.24387, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -1344,11 +1344,11 @@ }, "libsbmlsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999fac3054f763d5859a8", - "download": "https://api.biosimulations.org/results/675999fac3054f763d5859a8/download", - "logs": "https://api.biosimulations.org/logs/675999fac3054f763d5859a8?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f00167dc18b5b24780b", + "download": "https://api.biosimulations.org/results/67864f00167dc18b5b24780b/download", + "logs": "https://api.biosimulations.org/logs/67864f00167dc18b5b24780b?includeOutput=true", "log_yml": { - "duration": 0.248469, + "duration": 0.227017, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -1361,11 +1361,11 @@ }, "masspy": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999fc707aa64104620d98", - "download": "https://api.biosimulations.org/results/675999fc707aa64104620d98/download", - "logs": "https://api.biosimulations.org/logs/675999fc707aa64104620d98?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f02ba5a3f02b9f2f2de", + "download": "https://api.biosimulations.org/results/67864f02ba5a3f02b9f2f2de/download", + "logs": "https://api.biosimulations.org/logs/67864f02ba5a3f02b9f2f2de?includeOutput=true", "log_yml": { - "duration": 3.400673, + "duration": 3.505598, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n Could not load MassModel '_30356330_Theinmozhi_PDL1_TCR_regulation'\n \n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] cannot be changed by XML manipulation, as the target is not an attribute of a model element", "type": "CombineArchiveExecutionError" @@ -1373,7 +1373,7 @@ "output": "", "sedDocuments": [ { - "duration": 2.760737, + "duration": 2.90163, "exception": { "message": "The SED document did not execute successfully:\n\n Could not load MassModel '_30356330_Theinmozhi_PDL1_TCR_regulation'\n\n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] cannot be changed by XML manipulation, as the target is not an attribute of a model element", "type": "SedmlExecutionError" @@ -1388,7 +1388,7 @@ "status": "SKIPPED" } ], - "duration": 0.24384, + "duration": 0.246963, "exception": null, "id": "plot_6_task2", "output": "", @@ -1402,7 +1402,7 @@ "status": "SKIPPED" } ], - "duration": 0.104923, + "duration": 0.102973, "exception": null, "id": "plot_7_task2", "output": "", @@ -1420,7 +1420,7 @@ "status": "SKIPPED" } ], - "duration": 0.10428, + "duration": 0.108216, "exception": null, "id": "plot_8_task2", "output": "", @@ -1434,7 +1434,7 @@ "status": "SKIPPED" } ], - "duration": 0.106551, + "duration": 0.115844, "exception": null, "id": "plot_9_task2", "output": "", @@ -1448,7 +1448,7 @@ "status": "SKIPPED" } ], - "duration": 0.1105, + "duration": 0.201625, "exception": null, "id": "plot_10_task2", "output": "", @@ -1938,7 +1938,7 @@ "status": "SKIPPED" } ], - "duration": 0.055107, + "duration": 0.052627, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1951,7 +1951,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.46494, + "duration": 0.452525, "exception": { "message": "Could not load MassModel '_30356330_Theinmozhi_PDL1_TCR_regulation'", "type": "MassSimulationError" @@ -1964,7 +1964,7 @@ }, { "algorithm": null, - "duration": 0.042945, + "duration": 0.04205, "exception": { "message": "target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='LCK_switch'] cannot be changed by XML manipulation, as the target is not an attribute of a model element", "type": "NotImplementedError" @@ -1984,11 +1984,11 @@ }, "netpyne": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999fdc3054f763d5859af", - "download": "https://api.biosimulations.org/results/675999fdc3054f763d5859af/download", - "logs": "https://api.biosimulations.org/logs/675999fdc3054f763d5859af?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f04ba5a3f02b9f2f2e4", + "download": "https://api.biosimulations.org/results/67864f04ba5a3f02b9f2f2e4/download", + "logs": "https://api.biosimulations.org/logs/67864f04ba5a3f02b9f2f2e4?includeOutput=true", "log_yml": { - "duration": 0.077607, + "duration": 0.057082, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -2001,11 +2001,11 @@ }, "neuron": { "response": 201, - "view": "https://api.biosimulations.org/runs/675999ff707aa64104620db2", - "download": "https://api.biosimulations.org/results/675999ff707aa64104620db2/download", - "logs": "https://api.biosimulations.org/logs/675999ff707aa64104620db2?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f06ba5a3f02b9f2f2ec", + "download": "https://api.biosimulations.org/results/67864f06ba5a3f02b9f2f2ec/download", + "logs": "https://api.biosimulations.org/logs/67864f06ba5a3f02b9f2f2ec?includeOutput=true", "log_yml": { - "duration": 0.068771, + "duration": 0.055155, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -2018,16 +2018,16 @@ }, "opencor": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a019fa297efdca4d3dc", - "download": "https://api.biosimulations.org/results/67599a019fa297efdca4d3dc/download", - "logs": "https://api.biosimulations.org/logs/67599a019fa297efdca4d3dc?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f08167dc18b5b247831", + "download": "https://api.biosimulations.org/results/67864f08167dc18b5b247831/download", + "logs": "https://api.biosimulations.org/logs/67864f08167dc18b5b247831?includeOutput=true", "log_yml": { - "duration": 0.050691, + "duration": 0.061032, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmph4d09iiw/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpd4gb235k/./Theinmozhi_2018.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -2035,11 +2035,11 @@ }, "pyneuroml": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a039fa297efdca4d3e7", - "download": "https://api.biosimulations.org/results/67599a039fa297efdca4d3e7/download", - "logs": "https://api.biosimulations.org/logs/67599a039fa297efdca4d3e7?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f0aba5a3f02b9f2f307", + "download": "https://api.biosimulations.org/results/67864f0aba5a3f02b9f2f307/download", + "logs": "https://api.biosimulations.org/logs/67864f0aba5a3f02b9f2f307?includeOutput=true", "log_yml": { - "duration": 0.061951, + "duration": 0.056221, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -2052,19 +2052,19 @@ }, "pysces": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a059fa297efdca4d3ec", - "download": "https://api.biosimulations.org/results/67599a059fa297efdca4d3ec/download", - "logs": "https://api.biosimulations.org/logs/67599a059fa297efdca4d3ec?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f0bba5a3f02b9f2f312", + "download": "https://api.biosimulations.org/results/67864f0bba5a3f02b9f2f312/download", + "logs": "https://api.biosimulations.org/logs/67864f0bba5a3f02b9f2f312?includeOutput=true", "log_yml": { - "duration": 5.470218, + "duration": 5.080667, "exception": null, "output": "libtk8.6.so: cannot open shared object file: No such file or directory\r\n\r\nPySCeS defaults to matplotlib's TKagg backend if not specified in the user configuration file, set \"matplotlib_backend = \" \r\nMatplotlib interface loaded (pysces.plt.m)\r\nPitcon routines available\r\nNLEQ2 routines available\r\nSBML support available\r\nYou are using NumPy (2.1.2) with SciPy (1.14.1)\r\nAssimulo CVode available\r\nRateChar is available\r\nParallel scanner is available\r\n\r\nPySCeS environment\r\n******************\r\npysces.model_dir = /home/FCAM/crbmapi/Pysces/psc\r\npysces.output_dir = /home/FCAM/crbmapi/Pysces\r\n\r\n\r\n***********************************************************************\r\n* Welcome to PySCeS (1.2.2) - Python Simulator for Cellular Systems *\r\n* http://pysces.sourceforge.net *\r\n* Copyright(C) B.G. Olivier, J.M. Rohwer, J.-H.S. Hofmeyr, 2004-2024 *\r\n* Triple-J Group for Molecular Cell Physiology *\r\n* Stellenbosch University, ZA and VU University Amsterdam, NL *\r\n* PySCeS is distributed under the PySCeS (BSD style) licence, see *\r\n* LICENCE.txt (supplied with this release) for details *\r\n* Please cite PySCeS with: doi:10.1093/bioinformatics/bti046 *\r\n***********************************************************************\r\n", "sedDocuments": [ { - "duration": 4.911505, + "duration": 4.614607, "exception": null, "location": "Theinmozhi_2018.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 1 tasks and 6 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Info: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmpa5k73wcn.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpwxesupkw.xml\r\nout: /tmp/tmpa5k73wcn.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpa5k73wcn.psc loading ..... \r\nParsing file: /tmp/tmpa5k73wcn.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.16897153854370117\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 1 tasks and 6 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Info: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmpc5k_1u6i.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpkacvl_ti.xml\r\nout: /tmp/tmpc5k_1u6i.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpc5k_1u6i.psc loading ..... \r\nParsing file: /tmp/tmpc5k_1u6i.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.14174938201904297\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", "outputs": [ { "curves": [ @@ -2073,7 +2073,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.32564, + "duration": 0.287712, "exception": null, "id": "plot_6_task2", "output": "", @@ -2087,7 +2087,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.144236, + "duration": 0.122846, "exception": null, "id": "plot_7_task2", "output": "", @@ -2105,7 +2105,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.153901, + "duration": 0.131839, "exception": null, "id": "plot_8_task2", "output": "", @@ -2119,7 +2119,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.128691, + "duration": 0.136811, "exception": null, "id": "plot_9_task2", "output": "", @@ -2133,7 +2133,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.134497, + "duration": 0.116042, "exception": null, "id": "plot_10_task2", "output": "", @@ -2623,7 +2623,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.212811, + "duration": 0.192478, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -2636,10 +2636,10 @@ "tasks": [ { "algorithm": null, - "duration": 3.218214, + "duration": 3.083859, "exception": null, "id": "task2", - "output": "Check SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmpuap7ro2k.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\nInfo: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmpym7tk6hm.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpuap7ro2k.xml\r\nout: /tmp/tmpym7tk6hm.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpym7tk6hm.psc loading ..... \r\nParsing file: /tmp/tmpym7tk6hm.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.18651652336120605\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmpwxesupkw.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\n", + "output": "Check SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmp13uc1knj.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\nInfo: single compartment model: locating \"CP2_DP_CP1\" in default compartment\r\nInfo: single compartment model: locating \"CP1_Diss_PD1_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CD28i_P_CD28a\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_DP_CD28i\" in default compartment\r\nInfo: single compartment model: locating \"CD28a_Bd_PI3K\" in default compartment\r\nInfo: single compartment model: locating \"CD3i_P_CD3a\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_DP_CD3i\" in default compartment\r\nInfo: single compartment model: locating \"CD3a_Bd_ZAP70\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70i_P_ZAP70a1\" in default compartment\r\nInfo: single compartment model: locating \"ZAP70a1_P_ZAP70a2\" in default compartment\r\nInfo: single compartment model: locating \"LATi_P_LATa\" in default compartment\r\nInfo: single compartment model: locating \"LATa_Bd_GADS\" in default compartment\r\nInfo: single compartment model: locating \"GADSa_Bd_SLP76\" in default compartment\r\nInfo: single compartment model: locating \"SLP76i_P_SLC76a\" in default compartment\r\nWriting file: /tmp/tmp7n41ev4w.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmp13uc1knj.xml\r\nout: /tmp/tmp7n41ev4w.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmp7n41ev4w.psc loading ..... \r\nParsing file: /tmp/tmp7n41ev4w.psc\r\nWarning: species \"LCKinactive\" (fixed) does not occur in any reaction\r\nWarning: species \"CD3t\" (fixed) does not occur in any reaction\r\nWarning: species \"SLP76t\" (fixed) does not occur in any reaction\r\nWarning: species \"GADSt\" (fixed) does not occur in any reaction\r\nWarning: species \"LATt\" (fixed) does not occur in any reaction\r\nWarning: species \"ZAP70t\" (fixed) does not occur in any reaction\r\nWarning: species \"PI3Kt\" (fixed) does not occur in any reaction\r\nWarning: species \"CD28t\" (fixed) does not occur in any reaction\r\nWarning: species \"CPactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKactive\" (fixed) does not occur in any reaction\r\nWarning: species \"LCKt\" (fixed) does not occur in any reaction\r\nInfo: \"CD28t\" has been initialised but does not occur in a rate equation\r\nInfo: \"PI3Kt\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LATt\" has been initialised but does not occur in a rate equation\r\nInfo: \"GADSt\" has been initialised but does not occur in a rate equation\r\nInfo: \"SLP76t\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3t\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCKinactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"Kdpa_yiya\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_bound\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD3z_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"CD28_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_SHP2_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_PI3K_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_ZAP70_free\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y315\" has been initialised but does not occur in a rate equation\r\nInfo: \"ZAP70_phos_Y93\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y505\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_phos_Y394\" has been initialised but does not occur in a rate equation\r\nInfo: \"LAT_phosphorylated\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_active\" has been initialised but does not occur in a rate equation\r\nInfo: \"perc_LCK_inactive\" has been initialised but does not occur in a rate equation\r\nInfo: \"LCK_switch\" has been initialised but does not occur in a rate equation\r\nInfo: \"ModelValue_0\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 101 points: 0.16927266120910645\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\n\r\n*******************************************************************\r\nIssues encountered in SBML translation (model processed anyway)\r\nSBML source: /tmp/tmpkacvl_ti.xml\r\n*******************************************************************\r\n\r\nParameter units ignored for parameters:\r\n['Kdpa_yiya', 'Kdpi_yi', 'Kdpi_yiya', 'Kdpa_ya', 'Kdpa_pi', 'Kpi_i', 'Kpi_ya', 'Kpa_i', 'Kpa_yi', 'Kp_pd1', 'KMp_pd1', 'Ka_shp', 'Kd1_shp', 'Kd2_shp', 'Kdp_cp2', 'Kp_cd28', 'KMp_cd28', 'Kdp_cd28', 'KMdp_cd28', 'Ka_pi3k', 'Kd_pi3k', 'Kp_cd3', 'KMp_cd3', 'Kdp_cd3', 'KMdp_cd3', 'Ka_zap', 'Kd_zap', 'Kp1_zap', 'Kp2_zap', 'Kp_lat', 'Ka_gads', 'Kd_gads', 'Ka_slp', 'Kd_slp', 'Kp_slp', 'perc_SHP2_bound'] \r\n\r\n*******************************************************************\r\n\r\nInfo: single compartment model: locating \"LCK_P_LCKyi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCK_P_LCKya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_P_LCKyiya_act\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_P_LCKpi_inh\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"LCKya_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyi_DP_LCKi\" in default compartment\r\nInfo: single compartment model: locating \"LCKyiya_DP_LCKya\" in default compartment\r\nInfo: single compartment model: locating \"LCKpi_DP_LCKyi\" in default compartment\r\nInfo: single compartment model: locating \"PD1_P_PD1p1_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_P_PD1p2_act\" in default compartment\r\nInfo: single compartment model: locating \"PD1p1_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"PD1p2_Bd_SHP2\" in default compartment\r\nInfo: single compartment model: locating \"CP2_Diss_SHP2_PD1p1\" in default compartment\r\n", "simulatorDetails": null, "skipReason": null, "status": "SUCCEEDED" @@ -2653,11 +2653,11 @@ }, "rbapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a079fa297efdca4d3f3", - "download": "https://api.biosimulations.org/results/67599a079fa297efdca4d3f3/download", - "logs": "https://api.biosimulations.org/logs/67599a079fa297efdca4d3f3?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f0d1f52f47f628b58ae", + "download": "https://api.biosimulations.org/results/67864f0d1f52f47f628b58ae/download", + "logs": "https://api.biosimulations.org/logs/67864f0d1f52f47f628b58ae?includeOutput=true", "log_yml": { - "duration": 0.269646, + "duration": 0.224946, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Theinmozhi_2018.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -2670,11 +2670,11 @@ }, "smoldyn": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a09c3054f763d585a0e", - "download": "https://api.biosimulations.org/results/67599a09c3054f763d585a0e/download", - "logs": "https://api.biosimulations.org/logs/67599a09c3054f763d585a0e?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f0fba5a3f02b9f2f321", + "download": "https://api.biosimulations.org/results/67864f0fba5a3f02b9f2f321/download", + "logs": "https://api.biosimulations.org/logs/67864f0fba5a3f02b9f2f321?includeOutput=true", "log_yml": { - "duration": 0.059965, + "duration": 0.058563, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -2687,16 +2687,16 @@ }, "tellurium": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a0b707aa64104620de0", - "download": "https://api.biosimulations.org/results/67599a0b707aa64104620de0/download", - "logs": "https://api.biosimulations.org/logs/67599a0b707aa64104620de0?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f11167dc18b5b24785d", + "download": "https://api.biosimulations.org/results/67864f11167dc18b5b24785d/download", + "logs": "https://api.biosimulations.org/logs/67864f11167dc18b5b24785d?includeOutput=true", "log_yml": { - "duration": 4.095218, + "duration": 3.8254, "exception": null, "output": "", "sedDocuments": [ { - "duration": 3.452619, + "duration": 3.229124, "exception": null, "location": "Theinmozhi_2018.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 5 plots:\r\n Theinmozhi_2018.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 120 data sets\r\n Plots (5):\r\n plot_10_task2: 1 curves\r\n plot_6_task2: 1 curves\r\n plot_7_task2: 1 curves\r\n plot_8_task2: 2 curves\r\n plot_9_task2: 1 curves\r\n\r\nExecuting SED-ML file 1: Theinmozhi_2018.sedml ...\r\n Found 2 tasks and 6 outputs:\r\n Tasks:\r\n `task1`\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_10_task2`\r\n `plot_6_task2`\r\n `plot_7_task2`\r\n `plot_8_task2`\r\n `plot_9_task2`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[36mqueued\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[36mqueued\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[36mqueued\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[36mqueued\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[36mqueued\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ... \u001b[36mqueued\u001b[0m\r\n Executing task 2: `task2`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 6 outputs ...\r\n Generating output 1: `plot_6_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `plot_7_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 3: `plot_8_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 4: `plot_9_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 5: `plot_10_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 6: `autogen_report_for_task2` ...", @@ -2708,7 +2708,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.145862, + "duration": 0.12586, "exception": null, "id": "plot_6_task2", "output": "", @@ -2722,7 +2722,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.156146, + "duration": 0.13023, "exception": null, "id": "plot_7_task2", "output": "", @@ -2740,7 +2740,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.163612, + "duration": 0.138288, "exception": null, "id": "plot_8_task2", "output": "", @@ -2754,7 +2754,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.136252, + "duration": 0.175926, "exception": null, "id": "plot_9_task2", "output": "", @@ -2768,7 +2768,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.143398, + "duration": 0.12089, "exception": null, "id": "plot_10_task2", "output": "", @@ -3258,7 +3258,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.221477, + "duration": 0.224598, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -3271,7 +3271,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.386098, + "duration": 0.317836, "exception": null, "id": "task1", "output": "", @@ -3338,7 +3338,7 @@ }, { "algorithm": null, - "duration": 0.335437, + "duration": 0.292123, "exception": null, "id": "task2", "output": "", @@ -3355,11 +3355,11 @@ }, "vcell": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a0e9fa297efdca4d411", - "download": "https://api.biosimulations.org/results/67599a0e9fa297efdca4d411/download", - "logs": "https://api.biosimulations.org/logs/67599a0e9fa297efdca4d411?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f141f52f47f628b58cf", + "download": "https://api.biosimulations.org/results/67864f141f52f47f628b58cf/download", + "logs": "https://api.biosimulations.org/logs/67864f141f52f47f628b58cf?includeOutput=true", "log_yml": { - "duration": 15, + "duration": 14, "exception": null, "output": "Processing Theinmozhi_2018.sedml. Done", "sedDocuments": [ @@ -3966,11 +3966,11 @@ }, "xpp": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599a109fa297efdca4d41c", - "download": "https://api.biosimulations.org/results/67599a109fa297efdca4d41c/download", - "logs": "https://api.biosimulations.org/logs/67599a109fa297efdca4d41c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864f16ba5a3f02b9f2f34d", + "download": "https://api.biosimulations.org/results/67864f16ba5a3f02b9f2f34d/download", + "logs": "https://api.biosimulations.org/logs/67864f16ba5a3f02b9f2f34d?includeOutput=true", "log_yml": { - "duration": 0.064887, + "duration": 0.081655, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" diff --git a/BioModels/BIOMD0000001077/Adlung2021 _model_jakstat_pa.omex b/BioModels/BIOMD0000001077/Adlung2021 _model_jakstat_pa.omex new file mode 100644 index 00000000..37fd7c67 Binary files /dev/null and b/BioModels/BIOMD0000001077/Adlung2021 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b/BioModels/BIOMD0000001077/tests/d1_plots_remote/vcell_plot_2_task2.pdf differ diff --git a/BioModels/BIOMD0000001077/tests/results_compatibility_biosimulators.md b/BioModels/BIOMD0000001077/tests/results_Adlung2021_model_jakstat_pa.md similarity index 86% rename from BioModels/BIOMD0000001077/tests/results_compatibility_biosimulators.md rename to BioModels/BIOMD0000001077/tests/results_Adlung2021_model_jakstat_pa.md index 681fe5ac..7aa53af7 100644 --- a/BioModels/BIOMD0000001077/tests/results_compatibility_biosimulators.md +++ b/BioModels/BIOMD0000001077/tests/results_Adlung2021_model_jakstat_pa.md @@ -1,23 +1,23 @@ | Engine | Compatibility | pass / FAIL (R) | pass / FAIL (L) | d1 (R) | d1 (L) | |:-------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:--------------------------------------------------------------|:-------------------------------------------------------------| -|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/

|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | -|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Could not load MassModel 'Adlung2021___Cell_to_cell_variability_in_JAK2_STAT5_pathway'

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] cannot be changed by XML manipulation, as the target is not an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | -|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | -|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | -|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | -|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | -|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

SBML, SED-ML and BNGL are compatible with VCell.
|
✅ PASSview
download
logs

|
❌ FAILERROR MESSAGE:
Runtime Exception

| plot | | -|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file +|
AMICIhttps://docs.biosimulators.org/Biosimulators_AMICI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with AMICI.

SBML and SED-ML are compatible with AMICI.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
| plot | plot | +|
BioNetGenhttps://docs.biosimulators.org/Biosimulators_BioNetGen/
|
⚠ XFAILEXPECTED FAIL

Only BNGL, SED-ML are compatible with BioNetGen.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
BoolNethttps://docs.biosimulators.org/Biosimulators_BoolNet/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with BoolNet.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Brian 2https://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with Brian 2.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
CBMPyhttps://docs.biosimulators.org/Biosimulators_CBMPy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with CBMPy.

SBML and SED-ML are compatible with CBMPy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COBRApyhttps://docs.biosimulators.org/Biosimulators_COBRApy/
Only allows steady state simulations
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COBRApy.

SBML and SED-ML are compatible with COBRApy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
COPASIhttps://docs.biosimulators.org/Biosimulators_COPASI/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with COPASI.

SBML and SED-ML are compatible with COPASI.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
GillesPy2https://docs.biosimulators.org/Biosimulators_GillesPy2/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with GillesPy2.

SBML and SED-ML are compatible with GillesPy2.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
GINsimhttps://docs.biosimulators.org/Biosimulators_GINsim/
|
⚠ XFAILEXPECTED FAIL

Only SBML-qual, SED-ML are compatible with GINsim.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
LibSBMLSimhttps://docs.biosimulators.org/Biosimulators_LibSBMLSim/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with LibSBMLSim.

SBML and SED-ML are compatible with LibSBMLSim.
|
❌ FAILview
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
MASSpyhttps://docs.biosimulators.org/Biosimulators_MASSpy/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with MASSpy.

SBML and SED-ML are compatible with MASSpy.
|
❌ FAILview
download
logs

ERROR MESSAGE:
The COMBINE/OMEX did not execute successfully:

The SED document did not execute successfully:

Could not load MassModel 'Adlung2021___Cell_to_cell_variability_in_JAK2_STAT5_pathway'

target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] cannot be changed by XML manipulation, as the target is not an attribute of a model element

ERROR TYPE:
CombineArchiveExecutionError
|
❌ FAILERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| plot | | +|
NetPyNEhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NetPyNE.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
NEURONhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with NEURON.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
OpenCORhttps://docs.biosimulators.org/Biosimulators_OpenCOR/
|
⚠ XFAILEXPECTED FAIL

Only CellML, SED-ML are compatible with OpenCOR.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
pyNeuroMLhttps://docs.biosimulators.org/Biosimulators_pyNeuroML/
|
⚠ XFAILEXPECTED FAIL

Only NeuroML, SED-ML are compatible with pyNeuroML.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | +|
PySCeShttps://docs.biosimulators.org/Biosimulators_PySCeS/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with PySCeS.

SBML and SED-ML are compatible with PySCeS.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
RBApyhttps://docs.biosimulators.org/Biosimulators_RBApy/
|
⚠ XFAILEXPECTED FAIL

Only RBApy, SED-ML are compatible with RBApy.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
`/root/archive.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.
- The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.
- Simulation `sim1` is invalid.
- Algorithm has an invalid KiSAO id `KISAO_0000694`.

ERROR TYPE:
ValueError
| | | +|
Smoldynhttps://smoldyn.readthedocs.io/en/latest/python/api.html#sed-ml-combine-biosimulators-api
|
⚠ XFAILEXPECTED FAIL

Only Smoldyn, SED-ML are compatible with Smoldyn.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
Error unknown. The log.yml containing error information was not found.

| | | +|
Telluriumhttps://docs.biosimulators.org/Biosimulators_tellurium/
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with Tellurium.

SBML and SED-ML are compatible with Tellurium.
|
✅ PASSview
download
logs

| ✅ PASS | plot | plot | +|
VCellhttps://github.com/virtualcell/vcell
|
❓ UNSUREThe file extensions ('xml', 'sedml') suggest the input file types may not be compatibe with VCell.

BNGL, SBML and SED-ML are compatible with VCell.
|
✅ PASSview
download
logs

|
❌ FAILERROR MESSAGE:
Runtime Exception

| plot | | +|
XPPhttps://docs.biosimulators.org/Biosimulators_XPP/
|
⚠ XFAILEXPECTED FAIL

Only XPP, SED-ML are compatible with XPP.
|
⚠ XFAILEXPECTED FAIL

view
download
logs

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
|
⚠ XFAILEXPECTED FAIL

ERROR MESSAGE:
No module named 'libsbml'

ERROR TYPE:
ModuleNotFoundError
| | | \ No newline at end of file diff --git a/BioModels/BIOMD0000001077/tests/results_local.json b/BioModels/BIOMD0000001077/tests/results_local.json index bf4877d0..8dfc86b6 100644 --- a/BioModels/BIOMD0000001077/tests/results_local.json +++ b/BioModels/BIOMD0000001077/tests/results_local.json @@ -2,7 +2,7 @@ "amici": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/amici' returned non-zero exit status 1", "log_yml": { - "duration": 17.785899, + "duration": 21.548877, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element", "type": "CombineArchiveExecutionError" @@ -10,7 +10,7 @@ "output": "", "sedDocuments": [ { - "duration": 17.28622, + "duration": 21.040382, "exception": { "message": "The SED document did not execute successfully:\n\n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element", "type": "SedmlExecutionError" @@ -29,7 +29,7 @@ "status": "SKIPPED" } ], - "duration": 0.148086, + "duration": 0.223657, "exception": null, "id": "plot_2_task2", "output": "", @@ -323,7 +323,7 @@ "status": "SKIPPED" } ], - "duration": 0.048225, + "duration": 0.073195, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -336,7 +336,7 @@ "tasks": [ { "algorithm": "KISAO_0000496", - "duration": 16.310881, + "duration": 19.998005, "exception": null, "id": "task1", "output": "", @@ -359,7 +359,7 @@ }, { "algorithm": null, - "duration": 0.037232, + "duration": 0.046482, "exception": { "message": "target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element", "type": "ValueError" @@ -381,12 +381,12 @@ "brian2": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/brian2' returned non-zero exit status 1", "log_yml": { - "duration": 0.052248, + "duration": 0.051667, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_m18o8nr/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp_m18o8nr/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", + "output": "WARNING /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpwu2nnbfd/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n [py.warnings]\r\npyNeuroML >>> WARNING - /usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpwu2nnbfd/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -396,12 +396,12 @@ "bionetgen": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/bionetgen' returned non-zero exit status 1", "log_yml": { - "duration": 0.137988, + "duration": 0.155502, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpks79islx/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpiq_jwkh0/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -411,12 +411,12 @@ "boolnet": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/boolnet' returned non-zero exit status 1", "log_yml": { - "duration": 0.159315, + "duration": 0.178601, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmplh13wniy/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp5cmdjghu/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -426,12 +426,12 @@ "cbmpy": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/cbmpy' returned non-zero exit status 1", "log_yml": { - "duration": 0.26858, + "duration": 0.274251, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp22wzcvia/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "\r\nINFO: No xlwt module available, Excel spreadsheet creation disabled\r\n\r\n\r\n\r\nNo module named 'cplex'\r\n\r\n\r\n\r\nCPLEX not available\r\n\r\n*****\r\nUsing GLPK\r\n*****\r\n\r\n\r\nINFO: No xlrd module available, Excel spreadsheet reading disabled\r\n\r\nCBMPy environment\r\n******************\r\nRevision: r689\r\n\r\n\r\n***********************************************************************\r\n* Welcome to CBMPy (0.7.25) - PySCeS Constraint Based Modelling *\r\n* http://cbmpy.sourceforge.net *\r\n* Copyright(C) Brett G. Olivier 2014 - 2019 *\r\n* Dept. of Systems Bioinformatics *\r\n* Vrije Universiteit Amsterdam, Amsterdam, The Netherlands *\r\n* CBMPy is developed as part of the BeBasic MetaToolKit Project *\r\n* Distributed under the GNU GPL v 3.0 licence, see *\r\n* LICENCE (supplied with this release) for details *\r\n***********************************************************************\r\n\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp7l9td1vb/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -441,12 +441,12 @@ "cobrapy": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/cobrapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.147205, + "duration": 0.166562, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpiz5mg1kj/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp87ucbcfl/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -456,12 +456,12 @@ "copasi": { "exception_message": "", "log_yml": { - "duration": 2.022621, + "duration": 1.737231, "exception": null, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpa2anhv2z/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpa2anhv2z/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp4763fgjw/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp4763fgjw/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 1.368904, + "duration": 1.332992, "exception": null, "location": "Adlung2021 _model_jakstat_pa.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", @@ -477,7 +477,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.476091, + "duration": 0.504846, "exception": null, "id": "plot_2_task2", "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", @@ -771,7 +771,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.230617, + "duration": 0.262514, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -784,10 +784,10 @@ "tasks": [ { "algorithm": null, - "duration": 0.249847, + "duration": 0.313744, "exception": null, "id": "task2", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmpa2anhv2z/tmphf0estil.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmpa2anhv2z/tmpwdz5sddy.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmp4763fgjw/tmpgu59en80.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'LSODA/LSODAR hybrid method' (KISAO_0000560) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmp4763fgjw/tmp3dpdnryb.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "simulatorDetails": null, "skipReason": null, "status": "SUCCEEDED" @@ -803,12 +803,12 @@ "gillespy2": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/gillespy2' returned non-zero exit status 1", "log_yml": { - "duration": 0.126215, + "duration": 0.156355, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmppneo74a6/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpt31q_jzr/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -818,12 +818,12 @@ "ginsim": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/ginsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.198952, + "duration": 0.15569, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp02h0mra6/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpfutqaca_/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -833,12 +833,12 @@ "libsbmlsim": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/libsbmlsim' returned non-zero exit status 1", "log_yml": { - "duration": 0.133337, + "duration": 0.191633, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpd_i8q2kk/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpx2ir8bdn/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -848,12 +848,12 @@ "masspy": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/masspy' returned non-zero exit status 1", "log_yml": { - "duration": 0.147529, + "duration": 0.244506, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmpj1b6_q1e/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mSedmlFeatureNotSupportedWarning\u001b[0m: \u001b[33m`/tmp/tmpo4db4a2w/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31 \u001b[1;31mBioSimulatorsWarning\u001b[0m: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Task `task2` has warnings.\r\n - Changes has warnings.\r\n - Change 1 has warnings.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` has warnings.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` has warnings.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` has warnings.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` has warnings.\r\n - Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` has warnings.\r\n - Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` has warnings.\r\n - Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` has warnings.\r\n - Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` has warnings.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` has warnings.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` has warnings.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` has warnings.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` has warnings.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` has warnings.\r\n - Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` has warnings.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` has warnings.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` has warnings.\r\n - Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` has warnings.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` has warnings.\r\n - Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` has warnings.\r\n - Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` has warnings.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` has warnings.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` has warnings.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` has warnings.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` has warnings.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` has warnings.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` has warnings.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` has warnings.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` has warnings.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` has warnings.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` has warnings.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` has warnings.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` has warnings.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` has warnings.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` has warnings.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` has warnings.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` has warnings.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` has warnings.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` has warnings.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` has warnings.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` has warnings.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` has warnings.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` has warnings.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` has warnings.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -863,7 +863,7 @@ "netpyne": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/netpyne' returned non-zero exit status 1", "log_yml": { - "duration": 0.047935, + "duration": 0.059109, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -878,12 +878,12 @@ "neuron": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/neuron' returned non-zero exit status 1", "log_yml": { - "duration": 0.078667, + "duration": 0.070425, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpo50398u3/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpmr8xigoq/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -893,12 +893,12 @@ "opencor": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/opencor' returned non-zero exit status 1", "log_yml": { - "duration": 0.059243, + "duration": 0.069249, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp6cnr7usi/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp3441tg_n/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -908,12 +908,12 @@ "pyneuroml": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/pyneuroml' returned non-zero exit status 1", "log_yml": { - "duration": 0.062084, + "duration": 0.055369, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpdc7w6h6b/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpe7esdvd2/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -923,15 +923,15 @@ "pysces": { "exception_message": "", "log_yml": { - "duration": 1.887471, + "duration": 2.14298, "exception": null, - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp0yy6362g/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp0yy6362g/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp4l7x1lu0/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmp4l7x1lu0/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [ { - "duration": 1.366739, + "duration": 1.659067, "exception": null, "location": "Adlung2021 _model_jakstat_pa.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmpxfkiprz9.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmphekv5vll.xml\r\nout: /tmp/tmpxfkiprz9.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmpxfkiprz9.psc loading ..... \r\nParsing file: /tmp/tmpxfkiprz9.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.0694129467010498\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmpg_9gc_pa.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmp5v3c22wm.xml\r\nout: /tmp/tmpg_9gc_pa.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmpg_9gc_pa.psc loading ..... \r\nParsing file: /tmp/tmpg_9gc_pa.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.027132749557495117\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmp52j24h4u.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpkpo18lvp.xml\r\nout: /tmp/tmp52j24h4u.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmp52j24h4u.psc loading ..... \r\nParsing file: /tmp/tmp52j24h4u.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.11591196060180664\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmpunb6fss9.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmp8ka1kca8.xml\r\nout: /tmp/tmpunb6fss9.psc\r\nUsing model directory: /Pysces/psc\r\n/tmp/tmpunb6fss9.psc loading ..... \r\nParsing file: /tmp/tmpunb6fss9.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.03559994697570801\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", "outputs": [ { "curves": [ @@ -944,7 +944,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.261819, + "duration": 0.337374, "exception": null, "id": "plot_2_task2", "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", @@ -1238,7 +1238,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.24901, + "duration": 0.266283, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1251,10 +1251,10 @@ "tasks": [ { "algorithm": null, - "duration": 0.568385, + "duration": 0.766741, "exception": null, "id": "task2", - "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", + "output": "/usr/local/lib/python3.10/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.10/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning: \u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n warnings.warn(termcolor.colored(msg, 'yellow'), AlgorithmSubstitutedWarning)\r\n", "simulatorDetails": null, "skipReason": null, "status": "SUCCEEDED" @@ -1270,12 +1270,12 @@ "rbapy": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/rbapy' returned non-zero exit status 1", "log_yml": { - "duration": 0.147269, + "duration": 0.183107, "exception": { "message": "`/root/in/Adlung2021__model_jakstat_pa.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpac35die7/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpd2o9_oy0/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` may be invalid.\r\n - Model `model` may be invalid.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` may be invalid.\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_SHP1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_STAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression '0' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'epo_level' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'STAT5 + pSTAT5 + 0.275 * npSTAT5' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'pSTAT5 / Total_STAT5 * 100' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_0(Epo, EpoRJAK2, JAK2ActEpo, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_1(DeaEpoRJAKActSHP1, EpoRpJAK2, SHP1Act, SHP1ActEpoR)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_2(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_3(EpoRActJAK2, EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_4(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_5(EpoRActJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_6(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_7(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_8(DeaEpoRJAKActSHP1, SHP1Act, SHP1ActEpoR, p12EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_11(EpoRpJAK2, SHP1, SHP1ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SHP1Dea * SHP1Act' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_13(EpoRpJAK2, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActJAK2, p12EpoRpJAK2, p1EpoRpJAK2, p2EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_14(CIS, CISEqc, CISInh, SOCS3, SOCS3Eqc, SOCS3Inh, STAT5, STAT5ActEpoR, p12EpoRpJAK2, p1EpoRpJAK2)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_15(STAT5Imp, cyt, pSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_16(STAT5Exp, npSTAT5, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * Function_for_v_17(ActD, CISRNAEqc, CISRNATurn, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'nuc * CISRNADelay * CISnRNA1' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_19(CISRNADelay, CISnRNA2, nuc)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISRNATurn * CISRNA' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_21(CISEqc, CISRNA, CISTurn)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * CISTurn * CIS' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'Function_for_v_23(ActD, SOCS3Eqc, SOCS3Turn, cyt, npSTAT5)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * SOCS3Turn * SOCS3' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'cyt * Function_for_v_25(SOCS3Eqc, SOCS3EqcOE, SOCS3Turn, SOCS3oe)' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISInh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNADelay' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNAEqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISRNATurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'CISTurn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'DeaEpoRJAKActSHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'EpoRActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'JAK2ActEpo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SHP1Dea' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Eqc' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3EqcOE' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Inh' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3Turn' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'SOCS3oe' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActEpoR' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5ActJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Exp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'STAT5Imp' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'epo_level' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_EpoRJAK2' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_SHP1' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'init_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Epo' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'Total_STAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'measuralbe_pSTAT5' does not have a 'units' attribute.\r\n \r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id '_pSTAT5_Total_STAT5' does not have a 'units' attribute.\r\n \r\n - Task `task2` may be invalid.\r\n - Changes may be invalid.\r\n - Change 1 may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `measuralbe_pSTAT5_1_task2` may be invalid.\r\n - Variable `p1_measuralbe_pSTAT5_1_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `_pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - Variable `p1__pSTAT5_Total_STAT5_2_task2` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p1EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p1EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p2EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p2EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_p12EpoRpJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_p12EpoRpJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Act` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Act__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_pSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_pSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_npSTAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_npSTAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA1` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISnRNA2` may be invalid.\r\n - Variable `auto_dg_for_task2_CISnRNA2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNA` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNA__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CIS` may be invalid.\r\n - Variable `auto_dg_for_task2_CIS__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_ActD` may be invalid.\r\n - Variable `auto_dg_for_task2_ActD__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISInh` may be invalid.\r\n - Variable `auto_dg_for_task2_CISInh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNADelay` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNADelay__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNAEqc` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNAEqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISRNATurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISRNATurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_CISTurn` may be invalid.\r\n - Variable `auto_dg_for_task2_CISTurn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_DeaEpoRJAKActSHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_EpoRActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_EpoRActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_JAK2ActEpo` may be invalid.\r\n - Variable `auto_dg_for_task2_JAK2ActEpo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SHP1Dea` may be invalid.\r\n - Variable `auto_dg_for_task2_SHP1Dea__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Eqc` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Eqc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3EqcOE` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3EqcOE__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Inh` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Inh__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3Turn` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3Turn__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_SOCS3oe` may be invalid.\r\n - Variable `auto_dg_for_task2_SOCS3oe__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActEpoR` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActEpoR__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5ActJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5ActJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Exp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Exp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_STAT5Imp` may be invalid.\r\n - Variable `auto_dg_for_task2_STAT5Imp__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_epo_level` may be invalid.\r\n - Variable `auto_dg_for_task2_epo_level__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_EpoRJAK2` may be invalid.\r\n - Variable `auto_dg_for_task2_init_EpoRJAK2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_SHP1` may be invalid.\r\n - Variable `auto_dg_for_task2_init_SHP1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_init_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_init_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Epo` may be invalid.\r\n - Variable `auto_dg_for_task2_Epo__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_Total_STAT5` may be invalid.\r\n - Variable `auto_dg_for_task2_Total_STAT5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_cyt` may be invalid.\r\n - Variable `auto_dg_for_task2_cyt__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_nuc` may be invalid.\r\n - Variable `auto_dg_for_task2_nuc__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v1_v_0` may be invalid.\r\n - Variable `auto_dg_for_task2_v1_v_0__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v2_v_1` may be invalid.\r\n - Variable `auto_dg_for_task2_v2_v_1__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v3_v_2` may be invalid.\r\n - Variable `auto_dg_for_task2_v3_v_2__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v4_v_3` may be invalid.\r\n - Variable `auto_dg_for_task2_v4_v_3__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v5_v_4` may be invalid.\r\n - Variable `auto_dg_for_task2_v5_v_4__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v6_v_5` may be invalid.\r\n - Variable `auto_dg_for_task2_v6_v_5__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v7_v_6` may be invalid.\r\n - Variable `auto_dg_for_task2_v7_v_6__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v8_v_7` may be invalid.\r\n - Variable `auto_dg_for_task2_v8_v_7__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v9_v_8` may be invalid.\r\n - Variable `auto_dg_for_task2_v9_v_8__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v12_v_11` may be invalid.\r\n - Variable `auto_dg_for_task2_v12_v_11__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v13_v_12` may be invalid.\r\n - Variable `auto_dg_for_task2_v13_v_12__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v14_v_13` may be invalid.\r\n - Variable `auto_dg_for_task2_v14_v_13__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v15_v_14` may be invalid.\r\n - Variable `auto_dg_for_task2_v15_v_14__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v16_v_15` may be invalid.\r\n - Variable `auto_dg_for_task2_v16_v_15__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v17_v_16` may be invalid.\r\n - Variable `auto_dg_for_task2_v17_v_16__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v18_v_17` may be invalid.\r\n - Variable `auto_dg_for_task2_v18_v_17__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v19_v_18` may be invalid.\r\n - Variable `auto_dg_for_task2_v19_v_18__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v20_v_19` may be invalid.\r\n - Variable `auto_dg_for_task2_v20_v_19__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v21_v_20` may be invalid.\r\n - Variable `auto_dg_for_task2_v21_v_20__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v22_v_21` may be invalid.\r\n - Variable `auto_dg_for_task2_v22_v_21__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v23_v_22` may be invalid.\r\n - Variable `auto_dg_for_task2_v23_v_22__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v24_v_23` may be invalid.\r\n - Variable `auto_dg_for_task2_v24_v_23__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v25_v_24` may be invalid.\r\n - Variable `auto_dg_for_task2_v25_v_24__x` may be invalid.\r\n - XPath could not be validated.\r\n - Data generator `auto_dg_for_task2_v26_v_25` may be invalid.\r\n - Variable `auto_dg_for_task2_v26_v_25__x` may be invalid.\r\n - XPath could not be validated.\r\n - Output `plot_2_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\r\n - Output `autogen_report_for_task2` may be invalid.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1290,12 +1290,12 @@ "tellurium": { "exception_message": "", "log_yml": { - "duration": 2.251039, + "duration": 1.907736, "exception": null, - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmp4j4t4e5h/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmp4j4t4e5h/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpcaxl3art/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe COMBINE/OMEX archive has warnings.\r\n - OMEX manifests should not contain content entries for themselves.\r\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` has warnings.\r\n - Model `model` has warnings.\r\n - The model file `Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning:\r\n\r\n\u001b[33m`/tmp/tmpcaxl3art/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mThe SED document is potentially incorrect.\r\n - Output `plot_2_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\r\n - Output `autogen_report_for_task2` has warnings.\r\n - Some simulation tools will not be able to generate this output because it uses data from repeated tasks, which some simulation tools do not have the capability to execute.\u001b[0m\r\n\r\n", "sedDocuments": [ { - "duration": 1.408548, + "duration": 1.402256, "exception": null, "location": "Adlung2021 _model_jakstat_pa.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", @@ -1311,7 +1311,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.348285, + "duration": 0.483663, "exception": null, "id": "plot_2_task2", "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning:\r\n\r\n\u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n\r\n", @@ -1605,7 +1605,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.344205, + "duration": 0.334936, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1618,10 +1618,10 @@ "tasks": [ { "algorithm": null, - "duration": 0.16194, + "duration": 0.311352, "exception": null, "id": "task2", - "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmp4j4t4e5h/./Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mAlgorithm parameter with KiSAO id 'KISAO_0000216' was ignored because it is not supported. Parameter must have one of the following KiSAO ids:\r\n - KISAO_0000209: relative_tolerance (relative tolerance)\r\n - KISAO_0000211: absolute_tolerance (absolute tolerance)\r\n - KISAO_0000571: absolute_tolerance_adjustment_factor (absolute tolerance adjustment factor)\r\n - KISAO_0000220: maximum_bdf_order (Maximum Backward Differentiation Formula (BDF) order)\r\n - KISAO_0000219: maximum_adams_order (Maximum Adams order)\r\n - KISAO_0000415: maximum_num_steps (Maximum number of steps)\r\n - KISAO_0000467: maximum_time_step (Maximum time step)\r\n - KISAO_0000485: minimum_time_step (Minimum time step)\r\n - KISAO_0000559: initial_time_step (Initial time step)\r\n - KISAO_0000671: stiff (Stiff)\r\n - KISAO_0000670: multiple_steps (Multiple steps)\u001b[0m\r\n\r\n", + "output": "/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33m- Variable `auto_dg_for_task2_SHP1Act__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_epo_level__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISTurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Exp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3EqcOE__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1__pSTAT5_Total_STAT5_2_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_DeaEpoRJAKActSHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5Imp__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v16_v_15__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v8_v_7__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p2EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v19_v_18__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Inh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v24_v_23__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v21_v_20__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_cyt__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Eqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v18_v_17__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v12_v_11__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_pSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_nuc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v4_v_3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CIS__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_JAK2ActEpo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Epo__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p1EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v1_v_0__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNA__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v23_v_22__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v6_v_5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v17_v_16__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v3_v_2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v20_v_19__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v14_v_13__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISnRNA2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v9_v_8__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_ActD__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v26_v_25__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v15_v_14__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_npSTAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1Dea__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v2_v_1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActEpoR__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_Total_STAT5__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISInh__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3oe__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_init_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNAEqc__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRActJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v22_v_21__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNADelay__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v7_v_6__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_p12EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v13_v_12__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `p1_measuralbe_pSTAT5_1_task2` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_CISRNATurn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SHP1__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v5_v_4__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_SOCS3Turn__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_EpoRpJAK2__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_v25_v_24__x` has warnings.\r\n - XPath could not be validated.\r\n- Variable `auto_dg_for_task2_STAT5ActJAK2__x` has warnings.\r\n - XPath could not be validated.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mModel `model` may be invalid.\r\n - The model file `/tmp/tmpcaxl3art/./Adlung2021 _model_jakstat_pa.xml` has warnings.\r\n - 43 warnings of type SBML unit consistency (99505). The following is the first warning at line 1388, column 6:\r\n - In situations where a mathematical expression contains literal numbers or parameters whose units have not been declared, it is not possible to verify accurately the consistency of the units in the expression. \r\n The units of the expression 'init_EpoRJAK2' cannot be fully checked. Unit consistency reported as either no errors or further unit errors related to this object may not be accurate.\r\n - 29 warnings of type Modeling practice (80701). The following is the first warning at line 1357, column 6:\r\n - As a principle of best modeling practice, the units of a should be declared rather than be left undefined. Doing so improves the ability of software to check the consistency of units and helps make it easier to detect potential errors in models.\r\n The with the id 'ActD' does not have a 'units' attribute.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/kisao/utils.py:518: AlgorithmSubstitutedWarning:\r\n\r\n\u001b[33m'CVODE' (KISAO_0000019) will be substituted for 'ODE solver' (KISAO_0000694) at substitution policy 'SIMILAR_VARIABLES'.\u001b[0m\r\n\r\n/usr/local/lib/python3.11/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning:\r\n\r\n\u001b[33mAlgorithm parameter with KiSAO id 'KISAO_0000216' was ignored because it is not supported. Parameter must have one of the following KiSAO ids:\r\n - KISAO_0000209: relative_tolerance (relative tolerance)\r\n - KISAO_0000211: absolute_tolerance (absolute tolerance)\r\n - KISAO_0000571: absolute_tolerance_adjustment_factor (absolute tolerance adjustment factor)\r\n - KISAO_0000220: maximum_bdf_order (Maximum Backward Differentiation Formula (BDF) order)\r\n - KISAO_0000219: maximum_adams_order (Maximum Adams order)\r\n - KISAO_0000415: maximum_num_steps (Maximum number of steps)\r\n - KISAO_0000467: maximum_time_step (Maximum time step)\r\n - KISAO_0000485: minimum_time_step (Minimum time step)\r\n - KISAO_0000559: initial_time_step (Initial time step)\r\n - KISAO_0000671: stiff (Stiff)\r\n - KISAO_0000670: multiple_steps (Multiple steps)\u001b[0m\r\n\r\n", "simulatorDetails": null, "skipReason": null, "status": "SUCCEEDED" @@ -1637,7 +1637,7 @@ "vcell": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/vcell' returned non-zero exit status 1", "log_yml": { - "duration": 6, + "duration": 8, "exception": null, "output": "Processing Adlung2021 _model_jakstat_pa.sedml. Done", "sedDocuments": [ @@ -2000,12 +2000,12 @@ "xpp": { "exception_message": "Command '-i '/root/in/Adlung2021__model_jakstat_pa.omex' -o /root/out' in image 'ghcr.io/biosimulators/xpp' returned non-zero exit status 1", "log_yml": { - "duration": 0.112935, + "duration": 0.055261, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpp0y6u9k5/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", + "output": "/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpsvf82s9f/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only a few features introduced after L1V3 are supported. Most newer features, such as finer stylistic control of plots and parameter estimation, are not yet supported.\u001b[0m\r\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" diff --git a/BioModels/BIOMD0000001077/tests/results_remote.json b/BioModels/BIOMD0000001077/tests/results_remote.json index f11ed86d..7bb6570c 100644 --- a/BioModels/BIOMD0000001077/tests/results_remote.json +++ b/BioModels/BIOMD0000001077/tests/results_remote.json @@ -1,11 +1,11 @@ { "amici": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599aaec3054f763d585a9a", - "download": "https://api.biosimulations.org/results/67599aaec3054f763d585a9a/download", - "logs": "https://api.biosimulations.org/logs/67599aaec3054f763d585a9a?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864faa167dc18b5b2478d5", + "download": "https://api.biosimulations.org/results/67864faa167dc18b5b2478d5/download", + "logs": "https://api.biosimulations.org/logs/67864faa167dc18b5b2478d5?includeOutput=true", "log_yml": { - "duration": 27.545858, + "duration": 25.866522, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element", "type": "CombineArchiveExecutionError" @@ -13,7 +13,7 @@ "output": "", "sedDocuments": [ { - "duration": 27.158161, + "duration": 25.453396, "exception": { "message": "The SED document did not execute successfully:\n\n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element", "type": "SedmlExecutionError" @@ -32,7 +32,7 @@ "status": "SKIPPED" } ], - "duration": 0.226673, + "duration": 0.220631, "exception": null, "id": "plot_2_task2", "output": "", @@ -326,7 +326,7 @@ "status": "SKIPPED" } ], - "duration": 0.054884, + "duration": 0.048798, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -339,7 +339,7 @@ "tasks": [ { "algorithm": "KISAO_0000496", - "duration": 26.262648, + "duration": 24.543269, "exception": null, "id": "task1", "output": "", @@ -362,7 +362,7 @@ }, { "algorithm": null, - "duration": 0.035781, + "duration": 0.037726, "exception": { "message": "target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] is not a valid XPath to an attribute of a model element", "type": "ValueError" @@ -382,11 +382,11 @@ }, "brian2": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ab09fa297efdca4d483", - "download": "https://api.biosimulations.org/results/67599ab09fa297efdca4d483/download", - "logs": "https://api.biosimulations.org/logs/67599ab09fa297efdca4d483?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fac1f52f47f628b595c", + "download": "https://api.biosimulations.org/results/67864fac1f52f47f628b595c/download", + "logs": "https://api.biosimulations.org/logs/67864fac1f52f47f628b595c?includeOutput=true", "log_yml": { - "duration": 0.052158, + "duration": 0.056735, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -399,11 +399,11 @@ }, "bionetgen": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ab2707aa64104620e78", - "download": "https://api.biosimulations.org/results/67599ab2707aa64104620e78/download", - "logs": "https://api.biosimulations.org/logs/67599ab2707aa64104620e78?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fadba5a3f02b9f2f3c5", + "download": "https://api.biosimulations.org/results/67864fadba5a3f02b9f2f3c5/download", + "logs": "https://api.biosimulations.org/logs/67864fadba5a3f02b9f2f3c5?includeOutput=true", "log_yml": { - "duration": 0.192577, + "duration": 0.19595, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -416,11 +416,11 @@ }, "boolnet": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ab5707aa64104620e7b", - "download": "https://api.biosimulations.org/results/67599ab5707aa64104620e7b/download", - "logs": "https://api.biosimulations.org/logs/67599ab5707aa64104620e7b?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fafba5a3f02b9f2f3c8", + "download": "https://api.biosimulations.org/results/67864fafba5a3f02b9f2f3c8/download", + "logs": "https://api.biosimulations.org/logs/67864fafba5a3f02b9f2f3c8?includeOutput=true", "log_yml": { - "duration": 0.215529, + "duration": 0.194237, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -433,11 +433,11 @@ }, "cbmpy": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ab7707aa64104620e80", - "download": "https://api.biosimulations.org/results/67599ab7707aa64104620e80/download", - "logs": "https://api.biosimulations.org/logs/67599ab7707aa64104620e80?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fb1167dc18b5b2478dc", + "download": "https://api.biosimulations.org/results/67864fb1167dc18b5b2478dc/download", + "logs": "https://api.biosimulations.org/logs/67864fb1167dc18b5b2478dc?includeOutput=true", "log_yml": { - "duration": 0.291428, + "duration": 0.280652, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -450,11 +450,11 @@ }, "cobrapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599abac3054f763d585aa0", - "download": "https://api.biosimulations.org/results/67599abac3054f763d585aa0/download", - "logs": "https://api.biosimulations.org/logs/67599abac3054f763d585aa0?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fb31f52f47f628b5962", + "download": "https://api.biosimulations.org/results/67864fb31f52f47f628b5962/download", + "logs": "https://api.biosimulations.org/logs/67864fb31f52f47f628b5962?includeOutput=true", "log_yml": { - "duration": 0.200488, + "duration": 0.192863, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -467,16 +467,16 @@ }, "copasi": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599abdc3054f763d585aa4", - "download": "https://api.biosimulations.org/results/67599abdc3054f763d585aa4/download", - "logs": "https://api.biosimulations.org/logs/67599abdc3054f763d585aa4?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fb51f52f47f628b5965", + "download": "https://api.biosimulations.org/results/67864fb51f52f47f628b5965/download", + "logs": "https://api.biosimulations.org/logs/67864fb51f52f47f628b5965?includeOutput=true", "log_yml": { - "duration": 1.737705, + "duration": 1.725625, "exception": null, "output": "", "sedDocuments": [ { - "duration": 1.36317, + "duration": 1.332249, "exception": null, "location": "Adlung2021 _model_jakstat_pa.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...woohoo!\r\nwoohoo!\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", @@ -492,7 +492,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.438701, + "duration": 0.429027, "exception": null, "id": "plot_2_task2", "output": "", @@ -786,7 +786,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.300754, + "duration": 0.327593, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -799,7 +799,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.449412, + "duration": 0.406749, "exception": null, "id": "task2", "output": "", @@ -816,11 +816,11 @@ }, "gillespy2": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599abf9fa297efdca4d491", - "download": "https://api.biosimulations.org/results/67599abf9fa297efdca4d491/download", - "logs": "https://api.biosimulations.org/logs/67599abf9fa297efdca4d491?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fb7ba5a3f02b9f2f3ce", + "download": "https://api.biosimulations.org/results/67864fb7ba5a3f02b9f2f3ce/download", + "logs": "https://api.biosimulations.org/logs/67864fb7ba5a3f02b9f2f3ce?includeOutput=true", "log_yml": { - "duration": 0.214277, + "duration": 0.202093, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -833,11 +833,11 @@ }, "ginsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ac29fa297efdca4d496", - "download": "https://api.biosimulations.org/results/67599ac29fa297efdca4d496/download", - "logs": "https://api.biosimulations.org/logs/67599ac29fa297efdca4d496?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fb91f52f47f628b596b", + "download": "https://api.biosimulations.org/results/67864fb91f52f47f628b596b/download", + "logs": "https://api.biosimulations.org/logs/67864fb91f52f47f628b596b?includeOutput=true", "log_yml": { - "duration": 0.196684, + "duration": 0.187235, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -850,11 +850,11 @@ }, "libsbmlsim": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ac4c3054f763d585ab7", - "download": "https://api.biosimulations.org/results/67599ac4c3054f763d585ab7/download", - "logs": "https://api.biosimulations.org/logs/67599ac4c3054f763d585ab7?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fbb1f52f47f628b596e", + "download": "https://api.biosimulations.org/results/67864fbb1f52f47f628b596e/download", + "logs": "https://api.biosimulations.org/logs/67864fbb1f52f47f628b596e?includeOutput=true", "log_yml": { - "duration": 0.220112, + "duration": 0.189568, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -867,11 +867,11 @@ }, "masspy": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ac79fa297efdca4d4ac", - "download": "https://api.biosimulations.org/results/67599ac79fa297efdca4d4ac/download", - "logs": "https://api.biosimulations.org/logs/67599ac79fa297efdca4d4ac?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fbdba5a3f02b9f2f3d7", + "download": "https://api.biosimulations.org/results/67864fbdba5a3f02b9f2f3d7/download", + "logs": "https://api.biosimulations.org/logs/67864fbdba5a3f02b9f2f3d7?includeOutput=true", "log_yml": { - "duration": 1.634359, + "duration": 1.559867, "exception": { "message": "The COMBINE/OMEX did not execute successfully:\n\n The SED document did not execute successfully:\n \n Could not load MassModel 'Adlung2021___Cell_to_cell_variability_in_JAK2_STAT5_pathway'\n \n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] cannot be changed by XML manipulation, as the target is not an attribute of a model element", "type": "CombineArchiveExecutionError" @@ -879,7 +879,7 @@ "output": "", "sedDocuments": [ { - "duration": 1.14293, + "duration": 1.060146, "exception": { "message": "The SED document did not execute successfully:\n\n Could not load MassModel 'Adlung2021___Cell_to_cell_variability_in_JAK2_STAT5_pathway'\n\n target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] cannot be changed by XML manipulation, as the target is not an attribute of a model element", "type": "SedmlExecutionError" @@ -898,7 +898,7 @@ "status": "SKIPPED" } ], - "duration": 0.114204, + "duration": 0.101407, "exception": null, "id": "plot_2_task2", "output": "", @@ -1192,7 +1192,7 @@ "status": "SKIPPED" } ], - "duration": 0.054267, + "duration": 0.047828, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1205,7 +1205,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.295311, + "duration": 0.27758, "exception": { "message": "Could not load MassModel 'Adlung2021___Cell_to_cell_variability_in_JAK2_STAT5_pathway'", "type": "MassSimulationError" @@ -1218,7 +1218,7 @@ }, { "algorithm": null, - "duration": 0.040358, + "duration": 0.036698, "exception": { "message": "target /sbml:sbml/sbml:model/sbml:listOfParameters/sbml:parameter[@id='epo_level'] cannot be changed by XML manipulation, as the target is not an attribute of a model element", "type": "NotImplementedError" @@ -1238,11 +1238,11 @@ }, "netpyne": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ac99fa297efdca4d4b9", - "download": "https://api.biosimulations.org/results/67599ac99fa297efdca4d4b9/download", - "logs": "https://api.biosimulations.org/logs/67599ac99fa297efdca4d4b9?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fbf1f52f47f628b5975", + "download": "https://api.biosimulations.org/results/67864fbf1f52f47f628b5975/download", + "logs": "https://api.biosimulations.org/logs/67864fbf1f52f47f628b5975?includeOutput=true", "log_yml": { - "duration": 0.070045, + "duration": 0.057351, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1255,11 +1255,11 @@ }, "neuron": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599acc9fa297efdca4d4ca", - "download": "https://api.biosimulations.org/results/67599acc9fa297efdca4d4ca/download", - "logs": "https://api.biosimulations.org/logs/67599acc9fa297efdca4d4ca?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fc01f52f47f628b599a", + "download": "https://api.biosimulations.org/results/67864fc01f52f47f628b599a/download", + "logs": "https://api.biosimulations.org/logs/67864fc01f52f47f628b599a?includeOutput=true", "log_yml": { - "duration": 0.050918, + "duration": 0.10428, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1272,16 +1272,16 @@ }, "opencor": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599acfc3054f763d585ae9", - "download": "https://api.biosimulations.org/results/67599acfc3054f763d585ae9/download", - "logs": "https://api.biosimulations.org/logs/67599acfc3054f763d585ae9?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fc2ba5a3f02b9f2f3eb", + "download": "https://api.biosimulations.org/results/67864fc2ba5a3f02b9f2f3eb/download", + "logs": "https://api.biosimulations.org/logs/67864fc2ba5a3f02b9f2f3eb?includeOutput=true", "log_yml": { - "duration": 0.033878, + "duration": 0.03535, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" }, - "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpblkh9ofw/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", + "output": "/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: SedmlFeatureNotSupportedWarning: \u001b[33m`/tmp/tmpofnddlgu/./Adlung2021 _model_jakstat_pa.sedml` is encoded using L1V4. Only features available in L1V3 are supported. Newer features such as simple repeated tasks are not yet supported.\u001b[0m\n warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n", "sedDocuments": [], "skipReason": null, "status": "FAILED" @@ -1289,11 +1289,11 @@ }, "pyneuroml": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ad1c3054f763d585aef", - "download": "https://api.biosimulations.org/results/67599ad1c3054f763d585aef/download", - "logs": "https://api.biosimulations.org/logs/67599ad1c3054f763d585aef?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fc3167dc18b5b247904", + "download": "https://api.biosimulations.org/results/67864fc3167dc18b5b247904/download", + "logs": "https://api.biosimulations.org/logs/67864fc3167dc18b5b247904?includeOutput=true", "log_yml": { - "duration": 0.051678, + "duration": 0.051503, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1306,19 +1306,19 @@ }, "pysces": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ad39fa297efdca4d4df", - "download": "https://api.biosimulations.org/results/67599ad39fa297efdca4d4df/download", - "logs": "https://api.biosimulations.org/logs/67599ad39fa297efdca4d4df?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fc5167dc18b5b247911", + "download": "https://api.biosimulations.org/results/67864fc5167dc18b5b247911/download", + "logs": "https://api.biosimulations.org/logs/67864fc5167dc18b5b247911?includeOutput=true", "log_yml": { - "duration": 1.931887, + "duration": 1.877943, "exception": null, "output": "libtk8.6.so: cannot open shared object file: No such file or directory\r\n\r\nPySCeS defaults to matplotlib's TKagg backend if not specified in the user configuration file, set \"matplotlib_backend = \" \r\nMatplotlib interface loaded (pysces.plt.m)\r\nPitcon routines available\r\nNLEQ2 routines available\r\nSBML support available\r\nYou are using NumPy (2.1.2) with SciPy (1.14.1)\r\nAssimulo CVode available\r\nRateChar is available\r\nParallel scanner is available\r\n\r\nPySCeS environment\r\n******************\r\npysces.model_dir = /home/FCAM/crbmapi/Pysces/psc\r\npysces.output_dir = /home/FCAM/crbmapi/Pysces\r\n\r\n\r\n***********************************************************************\r\n* Welcome to PySCeS (1.2.2) - Python Simulator for Cellular Systems *\r\n* http://pysces.sourceforge.net *\r\n* Copyright(C) B.G. Olivier, J.M. Rohwer, J.-H.S. Hofmeyr, 2004-2024 *\r\n* Triple-J Group for Molecular Cell Physiology *\r\n* Stellenbosch University, ZA and VU University Amsterdam, NL *\r\n* PySCeS is distributed under the PySCeS (BSD style) licence, see *\r\n* LICENCE.txt (supplied with this release) for details *\r\n* Please cite PySCeS with: doi:10.1093/bioinformatics/bti046 *\r\n***********************************************************************\r\n", "sedDocuments": [ { - "duration": 1.557796, + "duration": 1.513974, "exception": null, "location": "Adlung2021 _model_jakstat_pa.sedml", - "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmptelviber.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpepd0wri6.xml\r\nout: /tmp/tmptelviber.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmptelviber.psc loading ..... \r\nParsing file: /tmp/tmptelviber.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.10172271728515625\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmp9fsi8kio.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpacmt7gzo.xml\r\nout: /tmp/tmp9fsi8kio.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmp9fsi8kio.psc loading ..... \r\nParsing file: /tmp/tmp9fsi8kio.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.03294992446899414\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", + "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 1 tasks and 2 outputs:\r\n Tasks:\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task2`\r\n Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmpxstw78ty.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpx_lr7g_4.xml\r\nout: /tmp/tmpxstw78ty.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpxstw78ty.psc loading ..... \r\nParsing file: /tmp/tmpxstw78ty.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.10404205322265625\r\nCheck SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: multiple compartments defined but reaction v1_v_0 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v2_v_1 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v3_v_2 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v4_v_3 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v5_v_4 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v6_v_5 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v7_v_6 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v8_v_7 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v9_v_8 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v12_v_11 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v13_v_12 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v14_v_13 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v15_v_14 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v16_v_15 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v17_v_16 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v18_v_17 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v19_v_18 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v20_v_19 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v21_v_20 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v22_v_21 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v23_v_22 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v24_v_23 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v25_v_24 is not located in any of them.\r\nInfo: multiple compartments defined but reaction v26_v_25 is not located in any of them.\r\nWriting file: /tmp/tmp7g8p1g12.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpgr_2odvi.xml\r\nout: /tmp/tmp7g8p1g12.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmp7g8p1g12.psc loading ..... \r\nParsing file: /tmp/tmp7g8p1g12.psc\r\nInfo: No reagents have been fixed\r\nInfo: \"epo_level\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_EpoRJAK2\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_SHP1\" has been initialised but does not occur in a rate equation\r\nInfo: \"init_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"Total_STAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"measuralbe_pSTAT5\" has been initialised but does not occur in a rate equation\r\nInfo: \"_pSTAT5_Total_STAT5\" has been initialised but does not occur in a rate equation\r\n \r\nCalculating L matrix . . . . . . . . . done.\r\nCalculating K matrix . . . . . . . . . . . done.\r\n \r\n\r\nAssignment rule(s) detected.\r\nINFO: Assignment Rules detected and Assimulo installed,\r\nswitching to CVODE (mod.mode_integrator='CVODE').\r\n\r\nCVODE time for 301 points: 0.03676605224609375\r\n \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", "outputs": [ { "curves": [ @@ -1331,7 +1331,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.33374, + "duration": 0.321344, "exception": null, "id": "plot_2_task2", "output": "", @@ -1625,7 +1625,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.277968, + "duration": 0.264701, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -1638,7 +1638,7 @@ "tasks": [ { "algorithm": null, - "duration": 0.76111, + "duration": 0.770728, "exception": null, "id": "task2", "output": "", @@ -1655,11 +1655,11 @@ }, "rbapy": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ad69fa297efdca4d4eb", - "download": "https://api.biosimulations.org/results/67599ad69fa297efdca4d4eb/download", - "logs": "https://api.biosimulations.org/logs/67599ad69fa297efdca4d4eb?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fc6ba5a3f02b9f2f410", + "download": "https://api.biosimulations.org/results/67864fc6ba5a3f02b9f2f410/download", + "logs": "https://api.biosimulations.org/logs/67864fc6ba5a3f02b9f2f410?includeOutput=true", "log_yml": { - "duration": 0.196313, + "duration": 0.200788, "exception": { "message": "`/root/archive.omex` is not a valid COMBINE/OMEX archive.\n - The SED-ML file at location `./Adlung2021 _model_jakstat_pa.sedml` is invalid.\n - Simulation `sim1` is invalid.\n - Algorithm has an invalid KiSAO id `KISAO_0000694`.", "type": "ValueError" @@ -1672,11 +1672,11 @@ }, "smoldyn": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ad8707aa64104620ee3", - "download": "https://api.biosimulations.org/results/67599ad8707aa64104620ee3/download", - "logs": "https://api.biosimulations.org/logs/67599ad8707aa64104620ee3?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fc81f52f47f628b59c8", + "download": "https://api.biosimulations.org/results/67864fc81f52f47f628b59c8/download", + "logs": "https://api.biosimulations.org/logs/67864fc81f52f47f628b59c8?includeOutput=true", "log_yml": { - "duration": 0.050916, + "duration": 0.050565, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" @@ -1689,16 +1689,16 @@ }, "tellurium": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599adbc3054f763d585b17", - "download": "https://api.biosimulations.org/results/67599adbc3054f763d585b17/download", - "logs": "https://api.biosimulations.org/logs/67599adbc3054f763d585b17?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fca167dc18b5b247934", + "download": "https://api.biosimulations.org/results/67864fca167dc18b5b247934/download", + "logs": "https://api.biosimulations.org/logs/67864fca167dc18b5b247934?includeOutput=true", "log_yml": { - "duration": 1.948321, + "duration": 1.90943, "exception": null, "output": "", "sedDocuments": [ { - "duration": 1.49288, + "duration": 1.436238, "exception": null, "location": "Adlung2021 _model_jakstat_pa.sedml", "output": "Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n Adlung2021 _model_jakstat_pa.sedml:\r\n Tasks (2):\r\n task1\r\n task2\r\n Reports (1):\r\n autogen_report_for_task2: 71 data sets\r\n Plots (1):\r\n plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n Found 2 tasks and 2 outputs:\r\n Tasks:\r\n `task1`\r\n `task2`\r\n Outputs:\r\n `autogen_report_for_task2`\r\n `plot_2_task2`\r\n Executing task 1: `task1`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[36mqueued\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ... \u001b[36mqueued\u001b[0m\r\n Executing task 2: `task2`\r\n Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n Generating 2 outputs ...\r\n Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n Generating output 2: `autogen_report_for_task2` ...", @@ -1714,7 +1714,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.161037, + "duration": 0.143698, "exception": null, "id": "plot_2_task2", "output": "", @@ -2008,7 +2008,7 @@ "status": "SUCCEEDED" } ], - "duration": 0.279788, + "duration": 0.266575, "exception": null, "id": "autogen_report_for_task2", "output": "", @@ -2021,7 +2021,7 @@ "tasks": [ { "algorithm": "KISAO_0000019", - "duration": 0.240213, + "duration": 0.237241, "exception": null, "id": "task1", "output": "", @@ -2088,7 +2088,7 @@ }, { "algorithm": null, - "duration": 0.183423, + "duration": 0.17253, "exception": null, "id": "task2", "output": "", @@ -2105,9 +2105,9 @@ }, "vcell": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ae09fa297efdca4d51c", - "download": "https://api.biosimulations.org/results/67599ae09fa297efdca4d51c/download", - "logs": "https://api.biosimulations.org/logs/67599ae09fa297efdca4d51c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fcd1f52f47f628b59e2", + "download": "https://api.biosimulations.org/results/67864fcd1f52f47f628b59e2/download", + "logs": "https://api.biosimulations.org/logs/67864fcd1f52f47f628b59e2?includeOutput=true", "log_yml": { "duration": 9, "exception": null, @@ -2464,11 +2464,11 @@ }, "xpp": { "response": 201, - "view": "https://api.biosimulations.org/runs/67599ae3c3054f763d585b3c", - "download": "https://api.biosimulations.org/results/67599ae3c3054f763d585b3c/download", - "logs": "https://api.biosimulations.org/logs/67599ae3c3054f763d585b3c?includeOutput=true", + "view": "https://api.biosimulations.org/runs/67864fcf167dc18b5b247948", + "download": "https://api.biosimulations.org/results/67864fcf167dc18b5b247948/download", + "logs": "https://api.biosimulations.org/logs/67864fcf167dc18b5b247948?includeOutput=true", "log_yml": { - "duration": 0.0681, + "duration": 0.048144, "exception": { "message": "No module named 'libsbml'", "type": "ModuleNotFoundError" diff --git a/BioModels/test_biomodels_compatibility_biosimulators.py b/BioModels/test_biomodels_compatibility_biosimulators.py index a75bb1a9..695c2953 100644 --- a/BioModels/test_biomodels_compatibility_biosimulators.py +++ b/BioModels/test_biomodels_compatibility_biosimulators.py @@ -165,7 +165,6 @@ def main(): print(f"Changed to {new_directory}") engine_ids = list(engines.keys()) - # engine_ids = engine_list if engine_list is not None else engine_ids test_folder = "tests" utils.run_biosimulators_remotely_and_locally( @@ -181,7 +180,7 @@ def main(): if __name__ == "__main__": - use_original_files = True + use_original_files = False biomodel_id_list = [ "BIOMD0000000001", "BIOMD0000000138", diff --git a/utils/__init__.py b/utils/__init__.py index caec12dc..81116597 100644 --- a/utils/__init__.py +++ b/utils/__init__.py @@ -696,7 +696,7 @@ def run_biosimulators_remote(engine, sedml_filepath, sbml_filepath): engine_version = biosimulations.get_simulator_versions(engine) sim_dict = { - "name": "test", + "name": omex_file_name, "simulator": engine, "simulatorVersion": engine_version[engine][-1], # get the latest version "cpus": 1, @@ -1587,7 +1587,7 @@ def create_combined_results_table( # Save the results to a Markdown file with utf-8 encoding path_to_results = os.path.join( - test_folder, "results_compatibility_biosimulators.md" + test_folder, f"results_{sedml_file_name.split('.')[0].replace(' ', '')}.md" ) print("Saving results to:", path_to_results) with open(path_to_results, "w", encoding="utf-8") as f: