Source URL for CDE Browser obsolete

[vthorsson]

Proposed change

Replace URIs containing cdebrowser with currently valid strings

Discussion link

Initial discussion on https://htanworkspace.slack.com/archives/C03E345AMLK/p1690227558135099

How important is this feature?

• 🌗 Medium - can do work without it; but it's important (e.g. to save time or for convenience)

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When will use cases depending on this become relevant?

• Mid-term - 2-4 months

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Additional context

In the data model, external database references in Source that point to cdebrowser (CDE Browser) are now invalid. E.g. The current row “Primary Diagnosis” has https://cdebrowser.nci.nih.gov/cdebrowserClient/cdeBrowser.html#/search?publicId=6161032&version=1.0 as the Source. That now leads to a Retirement notice for the CDE Browser. They also provide a link format . For the above, this seems to be the valid replacement https://cadsr.cancer.gov/onedata/dmdirect/NIH/NCI/CO/CDEDD?filter=CDEDD.ITEM_ID=6161032%20and%20ver_nr=1.0

Need to replace https://cdebrowser.nci.nih.gov/cdebrowserClient/cdeBrowser.html#/search?publicId={CDE_ID}&version={CDE_VERSION} with https://cadsr.cancer.gov/onedata/dmdirect/NIH/NCI/CO/CDEDD?filter=CDEDD.ITEM_ID={CDE_ID}%20and%20ver_nr={CDE_VERSION}

Implementation checklist

• [ ] Branch created
• [ ] HTAN.model.csv editied and pushed
• [ ] HTAN.model.jsonld validated and created by Github action
• [ ] PR opened
• [ ] PR approved
• [ ] PR merged into main
• [ ] New Component added to ncihtan/HTAN-data-curator (if required)
• [ ] DCA update requested
• [ ] DCA updated

[aclayton555]

Should be able to find and replace

[aclayton555]

Need to re-do after merging this PR: https://github.com/ncihtan/data-models/pull/292

[adamjtaylor]

We should open a FAIR data ticket on source not being included in the JSON-LD