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Assets 52-54: adjust ID for hookworm infectious disease #92

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colleenXu opened this issue Jul 2, 2024 · 1 comment
Open

Assets 52-54: adjust ID for hookworm infectious disease #92

colleenXu opened this issue Jul 2, 2024 · 1 comment

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@colleenXu
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In Translator Slack, @maximusunc @gaurav and I agreed on changing the input disease ID for hookworm infectious disease. This affects assets 52-54.

We'd like to change it to MESH:D006725, which is a clique with more equivalent IDs.

The current ID, MONDO:0005799, doesn't have any equivalent IDs. Gaurav is going to manually connect this clique to the MESH one, but it'll take time to deploy. Gaurav said it'll deploy to CI ~ July 19th as part of Fugu.

See TranslatorSRI/Babel#249

This may positively affect BTE's performance, but I'm not sure of the effect on any ARA that's currently passing those tests.
@isbluis
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isbluis commented Jul 2, 2024

For future reference, only Aragorn is currently passing the Tests associated with these assets; all other ARAs return no results:
image

gaurav added a commit to TranslatorSRI/Babel that referenced this issue Jul 13, 2024
@gaurav
Added manual concord from MONDO:0005799 to MESH:D006725.
9db116d 
As per NCATSTranslator/Tests#92
gaurav added a commit to TranslatorSRI/Babel that referenced this issue Jul 13, 2024
@gaurav
Added manual concord from MONDO:0005799 to MESH:D006725.
6655a6b 
As per NCATSTranslator/Tests#92
@gaurav gaurav mentioned this issue Aug 13, 2024
Merged
gaurav added a commit to TranslatorSRI/Babel that referenced this issue Sep 23, 2024
@gaurav
Merge pull request #279 from TranslatorSRI/babel-1.6
02505bb 
This PR collects some changes that were necessary for the Translator "Fugu" release.
* Upgraded:
  * Biolink Model: 4.1.6 -> 4.2.1
  * UMLS version: 2023AB -> 2024AA
  * RxNorm version: 03042024 -> 07012024
  * PANTHER sequence: PANTHER_Sequence_Classification_files/PTHR18.0_human -> PANTHER_Sequence_Classification_files/PTHR19.0_human
  * PANTHER pathways: SequenceAssociationPathway3.6.7 -> SequenceAssociationPathway3.6.8
* Added a manual Disease concord connecting MONDO:0005799 "hookworm infectious disease" and MESH:D006725 "Hookworm Infections" (as per NCATSTranslator/Tests#92)
* Reduced the number of warnings generated by the Publications compendium generator, so that we only warn of a duplicate title for a publication if the subsequent title actually differs from the original one.
* Added a check for the disease manual concord: an error is raised if a file does not have three tab-separated columns (such as if the tabs were silently converted into spaces).
* Fixed bug in FRINK call, added improved error checking.
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@isbluis @colleenXu