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Pride cross-references on beta protein pages #1684

Open katewarner opened 2 weeks ago

katewarner commented 2 weeks ago

I can't see the pride cross references in the cross-references section of the protein page or on the api.

For examples, in /data/projects/glygen/generated/datasets/unreviewed/human_protein_xref_pride.csv it looks like this accession should have a pride xref:

"P55795-1","protein_xref_pride","P55795",""

But I can't find in on the protein detail page (https://beta.glygen.org/protein/P55795-1#Cross-References) or on the api: https://[api.tst.glygen.org/protein/detail/P55795-1](https://api.tst.glygen.org/protein/detail/P55795-1)

rykahsay commented 2 weeks ago

Someone turn it off in misc/xref_info.csv. I don't know what the reason was but if you think it should be on, please uncomment and let me know

$ grep protein_xref_pride generated/misc/xref_info.csv
#protein_xref_pride,PRIDE,https://www.ebi.ac.uk/pride/searchSummary.do?queryTypeSelected=identification accession number&identificationAccessionNumber=%s,
katewarner commented 2 weeks ago

Apologies, I have no idea why it was inactivated. I've asked the rest of the team if they know why it was commented, but I'm sure it was just a mistake. I think it should be activated so I've uncommented the line, please re-integrate the dataset.

rykahsay commented 2 weeks ago

Link does not seem to work:

https://www.ebi.ac.uk/pride/searchSummary.do?queryTypeSelected=identification accession number&identificationAccessionNumber=P02511

katewarner commented 2 weeks ago

Apologies, I've updated the xref info link to protein_xref_pride,PRIDE,https://www.ebi.ac.uk/pride/peptidome/peptidesearch?keyword=%s,

Please check to see if I've fixed it.