Ndv dmel run embryo data #72
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…nto ndv_dmel_run * 'master' of github.com:simonsfoundation/inferelator_ng: fixed variable names mismatch in bbsr_python and test tfa on mouse th17 runs unittests easily for mock kvs python 3 doesn't have the message attribute on Exception import utils explicitly with local dir make python3 compatible skipping these tests on Travis deliberately proper failure when not running a KVS client kvs now has a tear down function in utils attempting to debug removed redundant lines of code, like X=X test the kvs implementation of bbsr
…nto ndv_dmel_run * 'master' of github.com:simonsfoundation/inferelator_ng: Update README.md running unittest and inferelator bash scripts are documented fix incorrect markdown link import from module as installed by setup.py typo add support for skipping/not skipping kvs tests outside of travis and relsted developer documentation. Use kvs module as installed by setup script and add kvs to requirements. add comment to init file
* ndv_teardown_timely: teardown after collecting in rank 0
…tor_ng into ndv_dmel_run * 'ndv_teardown_timely' of github.com:nickdeveaux/inferelator_ng: Update and rename bsubtilis_bbsr_workflow_runner_with_imports.sh to workflow_runner_with_imports.sh an issue I had was that the worker machines in the parallelization step were not setting their R env correctly. This fixes that
…tor_ng into ndv_dmel_run
…tor_ng into ndv_dmel_run
…dv_dmel_run * 'master' of github.com:nickdeveaux/inferelator_ng: added missing import
…relator_ng into ndv_dmel_run * 'ndv_split_prior_into_gs' of github.com:nickdeveaux/inferelator_ng: use next() on the generator to be python3 compatible relative import of workflow for tests to pass in py3 test case for splitting prior into gs and prior New workflow for making the gold standard from a 50/50 split in the prior
…into ndv_dmel_run * 'ndv_dmel_run' of github.com:nickdeveaux/inferelator_ng: runner for the TF cells with knn smoothing
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Added logging directories to mi_R.py in order to combat issue of racing when using inferelator on the cluster. Logs track the progress of bootstraps and displays this as an ouput.