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biosimulations / biosimulations-physiome

Command-line application for publishing the Physiome model repository of physiological models to the BioSimulations repository for simulation projects
https://docs.biosimulations.org/repositories/physiome
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Investigate why project 440 Fails #2

Closed bilalshaikh42 closed 2 years ago

bilalshaikh42 commented 2 years ago

Verify if project 440 can be run

bilalshaikh42 commented 2 years ago

https://run.biosimulations.dev/simulations/61a7d3c791030018c8405ec4#tab=log

Simulation is invalid

jonrkarr commented 2 years ago

This may be because the model needs to import other files which aren't in the COMBINE archive. See <import ... in https://files-dev.biosimulations.org/s3/simulations/61a7d3c791030018c8405ec4/contents/HH-model/components/stimulated.xml

The validation is missing it this because the model uses CellML 1.1. We only have validation for CellML 2.0 and 1.0 because I couldn't figure out how to get validation to work for CellML 1.1. libCellML only covers 2.0, and validation for <2 is more primitive.

These errors can be explored further with biosimulators-opencor. The environment variables VERBOSE=1 and DEBUG=1 will generate more information.

jonrkarr commented 2 years ago

Missing imported model files

jonrkarr commented 2 years ago

Condensed this issue to #14 and #16