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Align support for SED-ML with SED-ML files exported by pyNeuroML #1

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jonrkarr opened this issue May 28, 2021 · 2 comments
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@jonrkarr
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PyNeuroML can convert LEMS files to SED-ML L1V1

Example:

pip install pyneuroml
pynml tests/fixtures/LEMS_NML2_Ex5_DetCell.xml -sedml

This creates a file in the same folder as the LEMs file with the .sedml extension ( tests/fixtures/LEMS_NML2_Ex5_DetCell.sedml).

I don't think PyNeuroML can read these files.

We should try to align our usage of NeuroML/SED-ML with this (specifically targets for model elements).

@jonrkarr
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jonrkarr commented Jun 4, 2021

This package is aligned with the SED-ML exported by pyNeuroML with the one exception that pyNeuroML uses urn:sedml:language:neuroml2 rather than a URN for LEMS. See also NeuroML/org.neuroml.export#113.

urn:sedml:language:neuroml2 doesn't make sense to me because the direct model file is a LEMS file. Also the URN for NeuroML 2 should be urn:sedml:language:neuroml.version-2_1.

@jonrkarr jonrkarr changed the title Assess consistency with SED-ML files exported by jNeuroML Align support for SED-ML with SED-ML files exported by pyNeuroML Jun 4, 2021
@jonrkarr jonrkarr self-assigned this Nov 25, 2021
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Reported as NeuroML/org.neuroml.export#76

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