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Use Case: Use LinkML to define schemas #264
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Thanks for the suggestion! This fit well into what we're proposing for profiles https://www.researchobject.org/ro-crate/1.2-DRAFT/profiles as well. Bioschemas have tried using DDE https://github.com/BioSchemas/specifications/ which is also related. LinkML seems quite approachable to edit compared to SHACL and ShEX - see also some thoughts on those in ResearchObject/runcrate#17 As for |
You should also use the filename |
Thanks a lot for the feedback @stain I'll fix those (underscores are a typo on my part) I'll try to make some progress and come back here |
Hi, sorry for the stale issue. I posted a brief review of my attempt on forum.image.sc It's OK for me to close this if you feel it clutters your repo :), although I still feel something should be done but I have no clue how... |
As a research software engineers, I want to use LinkML so that I can use the tooling associated to maintain my RO-crate specification and automate data export.
Hi, I am working on the deployments of services to manage Microscopy images across institutions, we mainly use OMERO to manage the data, but we miss a common representation for microscopy (meta)data records, for interoperability with other tools.
Thus, I would like to use RO-crate to define the record structure.
On the other hand, the community is pushing on using linkML as a schema definition tool, with the hope it will ease the combination of various metadata recommendation sources.
It seems that using linkML to define / create the RO-Crate could be a good entry point, and benefit both communities.
Have someone done that already?
I am now trying to define the RO-Crate schema in linkml and use it to produce ro_crate_metadata.json (this is not working atm), with the command:
Here is what the inputs look like:
(incomplete) Ro-Crate schema in linkML (
ro-crate-schema.yml
):Example data (not working)
data.yml
:Any thought, pointer or hint on how to achieve that is welcome! (I am referencing this in a LinkML issue)
Thanks :)
Guillaume
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