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biosimulations
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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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Dependency Dashboard
#54
renovate[bot]
opened
2 years ago
0
Open Issue regarding incorrect CellML schema
#53
bilalshaikh42
closed
2 years ago
1
Annotate that generated SED-ML files were computationally-generated from CellML files
#52
jonrkarr
closed
2 years ago
2
Change `tags` key to `keywords`
#51
jonrkarr
closed
2 years ago
1
Remove Bilal Shaikh to last in list of curators
#50
jonrkarr
closed
2 years ago
0
Add creation date to metadata
#49
jonrkarr
closed
2 years ago
0
Remove tables with figures from descriptions
#48
jonrkarr
closed
2 years ago
0
Strip beginning and trailing white space from project descriptions
#47
jonrkarr
closed
2 years ago
2
Remove figure captions from description text
#46
bilalshaikh42
closed
2 years ago
1
Separate figure captions from project descriptions
#45
jonrkarr
closed
2 years ago
1
Investigate e08bd642df06eb59404c8e46afbb04a4
#44
bilalshaikh42
closed
2 years ago
2
Investigate 1a
#43
bilalshaikh42
closed
2 years ago
1
Handle cases where models use unsupported CellML features
#42
bilalshaikh42
closed
2 years ago
1
Improve sedml generation when multiple CellML files are present
#41
bilalshaikh42
closed
2 years ago
5
Handle CellML files that use .xml extension
#40
bilalshaikh42
closed
2 years ago
1
Clean up, document, and publish this repository
#39
jonrkarr
opened
2 years ago
0
File GitHub issues for errors with Physiome projects
#38
jonrkarr
closed
2 years ago
1
`e/f4` is not the id of a Physiome project
#37
jonrkarr
closed
2 years ago
1
Remove duplicate entry with location `metadata.rdf` in COMBINE archive for `e/4c8`
#36
jonrkarr
closed
2 years ago
3
Work with the released changeset of each Physiome workspace
#35
jonrkarr
closed
2 years ago
0
Store correspondence between Physiome projects and runBioSimulations runs within repository
#34
jonrkarr
closed
2 years ago
0
Ignore some files from COMBINE archives
#33
jonrkarr
closed
2 years ago
2
Skip plots that require marker style or encode OpenCOR's custom style annotations into L1V4
#32
jonrkarr
opened
2 years ago
0
Configure Renovate
#31
renovate[bot]
closed
2 years ago
1
Polish metadata
#30
jonrkarr
closed
2 years ago
1
Add model changes for all possible parameters
#29
jonrkarr
opened
2 years ago
0
Add reports for all possible observables
#28
jonrkarr
opened
2 years ago
0
Deal with cases where JSON request is redirected to"document_view" rather than "exposure_info"
#27
bilalshaikh42
closed
2 years ago
1
Deal with cases where experiments are encoded as Python scripts
#26
bilalshaikh42
opened
2 years ago
1
Deal with cases where exposure contains "components"
#25
bilalshaikh42
closed
2 years ago
2
Deal with cases when SED-ML is saved with extension `.xml`
#24
bilalshaikh42
closed
2 years ago
2
Preserve some formatting of project descriptions
#23
jonrkarr
closed
2 years ago
2
Expand labels for PMR identifiers
#22
jonrkarr
closed
2 years ago
1
Folders are not preserved when adding files to COMBINE archives
#21
bilalshaikh42
closed
2 years ago
1
Adding CombineArchiveConent with path to existing metadata file creates new file in archive
#20
bilalshaikh42
closed
2 years ago
4
Create and publish documentation
#19
jonrkarr
opened
2 years ago
1
Modify BioSimulators-utils to allow metadata with no author
#18
jonrkarr
closed
2 years ago
1
Improve error messages for missing imported model files
#17
jonrkarr
closed
2 years ago
1
Switch to download files via .tar.gz export or Git repository
#16
jonrkarr
closed
2 years ago
2
Remove COMBINE archives nested in archives
#15
jonrkarr
closed
2 years ago
4
Create file (e.g. YAML) to keep track of bad projects that cannot be published and the reasons why
#14
jonrkarr
closed
2 years ago
1
Gather more descriptive descriptions for metadata
#13
jonrkarr
closed
2 years ago
1
Correct identifiers in metadata
#12
jonrkarr
closed
2 years ago
0
Track namespace (`e` or `exposure`) of each project
#11
jonrkarr
closed
2 years ago
1
Create SED-ML files for Physiome projects that don't have them and annotate that these were computationally-generated from CellML files
#10
jonrkarr
closed
2 years ago
0
Git Submodules are incorrectly initialized
#9
bilalshaikh42
closed
2 years ago
0
Thumnail urls are incorrect
#8
bilalshaikh42
closed
2 years ago
1
Remove manifest entry from manifest
#7
bilalshaikh42
closed
2 years ago
1
Investigate why run Project 5f3 failed
#6
bilalshaikh42
closed
2 years ago
3
Investigate why project 49f Fails
#5
bilalshaikh42
closed
2 years ago
4
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