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Species names in Initial Conditions #250

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Merged
briandrawert merged 1 commit into from
Apr 13, 2022
Merged

Species names in Initial Conditions #250

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12 changes: 12 additions & 0 deletions spatialpy/core/initialcondition.py
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Original file line number Diff line number Diff line change
Expand Up @@ -63,6 +63,10 @@ def apply(self, model):
:param model: Model contianing the target species.
:type model: spatialpy.core.model.Model
"""
if isinstance(self.species, str):
if self.species not in model.listOfSpecies:
raise InitialConditionError(f"Species {self.species} does not exist in the model.")
self.species = model.listOfSpecies[self.species]
spec_name = self.species.name
spec_ndx = None
for index, spec_name in enumerate(model.listOfSpecies.keys()):
Expand Down Expand Up @@ -106,6 +110,10 @@ def apply(self, model):
:param model: Model contianing the target species.
:type model: spatialpy.core.model.Model
"""
if isinstance(self.species, str):
if self.species not in model.listOfSpecies:
raise InitialConditionError(f"Species {self.species} does not exist in the model.")
self.species = model.listOfSpecies[self.species]
spec_name = self.species.name
spec_ndx = None
for index, spec_name in enumerate(model.listOfSpecies.keys()):
Expand Down Expand Up @@ -158,6 +166,10 @@ def apply(self, model):
:param model: Model contianing the target species.
:type model: spatialpy.core.model.Model
"""
if isinstance(self.species, str):
if self.species not in model.listOfSpecies:
raise InitialConditionError(f"Species {self.species} does not exist in the model.")
self.species = model.listOfSpecies[self.species]
spec_name = self.species.name
spec_ndx = None
for index, spec_name in enumerate(model.listOfSpecies.keys()):
Expand Down