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[Feature Request] ontology source references #202

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andreaschrader opened this issue Aug 10, 2023 · 2 comments
Open

[Feature Request] ontology source references #202

andreaschrader opened this issue Aug 10, 2023 · 2 comments
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Type: Feature Request This item is confirmed by the maintainers to be a request for a new feature

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@andreaschrader
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v0.4.0-osx.x64

Is your feature request related to a problem? Please describe.
Hope not having overseen this:
I am missing an option to pass ontology source references to isa.investiagtion.

Describe the solution you'd like
Add an option to pass the respective arguments.

Describe alternatives you've considered
Adding these manually in the file which is only a workaround.
It would be good if the arcCommander could support in filling all fields via command line.

@HLWeil
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HLWeil commented Aug 11, 2023

We're planning on working on this in an automated way. E.g. getting the ontology source info when collecting terms using SWATE and ARCitect.
Don't expect anything user-facing soon though.

@cmohl2013
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How about that: If new source references are added, e.g.

arc study factor register --study-identifier my-study --typetermaccessionnumber something --typertermsourceref somethingelse

the ontology source reference in the isa.investigation file ist updated automatically.

@omaus omaus added the Type: Feature Request This item is confirmed by the maintainers to be a request for a new feature label Jun 5, 2024
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Labels
Type: Feature Request This item is confirmed by the maintainers to be a request for a new feature
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4 participants