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NCATSTranslator / Ordering-Organizing

ARS Level O&O
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Support Qualified Predicates for MVP 2 #16

Closed sharatisrani closed 1 year ago

sharatisrani commented 1 year ago

As reported at the 1/31/23 standup and 2/3/23 Recap, the following ARAs are working on support for MVP 2 qualified predicates: Unsecret @webyrd Explanatory @ehinderer @pg427 ImProving @suihuang-ISB @brettasmi

Qualified predicates are important to O&O at MVP 2, so this Issue is opened up as tracking issue. These issues are probably recorded somewhere else, will link there when found.

brettasmi commented 1 year ago

@sharatisrani , we deployed our changes on Friday. Here's how we are returning from the CI endpoint for the example CURIEs in the Github issue for each query:

Gene X - decreased by - chemical entity ``` NCBIGene:23162: Success. Returning 300 results... NCBIGene:7157: Success. Returning 300 results... NCBIGene:1594: Success. Returning 300 results... NCBIGene:7503: Success. Returning 0 results... NCBIGene:9383: Success. Returning 0 results... NCBIGene:23394: Success. Returning 300 results... NCBIGene:4318: Success. Returning 300 results... NCBIGene:4208: Success. Returning 300 results... NCBIGene:378938: Success. Returning 0 results... NCBIGene:1859: Success. Returning 300 results... NCBIGene:27344: Success. Returning 300 results... NCBIGene:7276: Success. Returning 300 results... NCBIGene:2778: Success. Returning 300 results... NCBIGene:2197: Success. Returning 300 results... NCBIGene:3375: Success. Returning 0 results... NCBIGene:6447: Success. Returning 300 results... NCBIGene:567: Success. Returning 300 results... NCBIGene:2597: Success. Returning 300 results... NCBIGene:4512: Success. Returning 0 results... NCBIGene:5950: Success. Returning 300 results... NCBIGene:55768: Success. Returning 300 results... NCBIGene:23221: Success. Returning 300 results... NCBIGene:23001: Success. Returning 300 results... NCBIGene:5530: Success. Returning 300 results... NCBIGene:57582: Success. Returning 0 results... NCBIGene:259232: Success. Returning 0 results... NCBIGene:773: Success. Returning 300 results... NCBIGene:22907: Success. Returning 300 results... NCBIGene:219285: Success. Returning 0 results... NCBIGene:23299: Success. Returning 300 results... NCBIGene:3075: Success. Returning 300 results... NCBIGene:467: Success. Returning 300 results... NCBIGene:26040: Success. Returning 300 results... NCBIGene:64772: Success. Returning 300 results... ```
Gene X - increased by - chemical entity ``` NCBIGene:23162: Success. Returning 300 results... NCBIGene:7157: Success. Returning 300 results... NCBIGene:1594: Success. Returning 300 results... NCBIGene:7503: Success. Returning 0 results... NCBIGene:9383: Success. Returning 0 results... NCBIGene:23394: Success. Returning 300 results... NCBIGene:4318: Success. Returning 300 results... NCBIGene:4208: Success. Returning 300 results... NCBIGene:378938: Success. Returning 0 results... NCBIGene:1859: Success. Returning 300 results... NCBIGene:27344: Success. Returning 300 results... NCBIGene:7276: Success. Returning 300 results... NCBIGene:2778: Success. Returning 300 results... NCBIGene:2197: Success. Returning 300 results... NCBIGene:3375: Success. Returning 0 results... NCBIGene:6447: Success. Returning 300 results... NCBIGene:567: Success. Returning 300 results... NCBIGene:2597: Success. Returning 300 results... NCBIGene:4512: Success. Returning 0 results... NCBIGene:5950: Success. Returning 300 results... NCBIGene:55768: Success. Returning 300 results... NCBIGene:23221: Success. Returning 300 results... NCBIGene:23001: Success. Returning 300 results... NCBIGene:5530: Success. Returning 300 results... NCBIGene:57582: Success. Returning 0 results... NCBIGene:259232: Success. Returning 0 results... NCBIGene:773: Success. Returning 300 results... NCBIGene:22907: Success. Returning 300 results... NCBIGene:219285: Success. Returning 0 results... NCBIGene:23299: Success. Returning 300 results... NCBIGene:3075: Success. Returning 300 results... NCBIGene:467: Success. Returning 300 results... NCBIGene:26040: Success. Returning 300 results... NCBIGene:64772: Success. Returning 300 results... ```
Chemical Entity X - decreases - gene ``` PUBCHEM.COMPOUND:3007: Success. Returning 0 results... PUBCHEM.COMPOUND:5826: Success. Returning 0 results... PUBCHEM.COMPOUND:44246724: Success. Returning 0 results... PUBCHEM.COMPOUND:4091: Success. Returning 300 results... PUBCHEM.COMPOUND:60823: Success. Returning 300 results... PUBCHEM.COMPOUND:88111: Success. Returning 0 results... PUBCHEM.COMPOUND:445354: Success. Returning 300 results... PUBCHEM.COMPOUND:54670067: Success. Returning 0 results... PUBCHEM.COMPOUND:5280795: Success. Returning 0 results... PUBCHEM.COMPOUND:79025: Success. Returning 0 results... PUBCHEM.COMPOUND:888: Success. Returning 0 results... PUBCHEM.COMPOUND:5881: Success. Returning 300 results... PUBCHEM.COMPOUND:6013: Success. Returning 300 results... PUBCHEM.COMPOUND:5991: Success. Returning 300 results... PUBCHEM.COMPOUND:16129681: No identifiers for qnodes {'chemical'} could be mapped to SPOKE; returning empty message... PUBCHEM.COMPOUND:2160: Success. Returning 300 results... PUBCHEM.COMPOUND:3446: Success. Returning 300 results... PUBCHEM.COMPOUND:4946: Success. Returning 300 results... PUBCHEM.COMPOUND:5358: Success. Returning 300 results... PUBCHEM.COMPOUND:12358543: No identifiers for qnodes {'chemical'} could be mapped to SPOKE; returning empty message... ```
Chemical Entity X - increases - gene ``` PUBCHEM.COMPOUND:3007: Success. Returning 0 results... PUBCHEM.COMPOUND:5826: Success. Returning 0 results... PUBCHEM.COMPOUND:44246724: Success. Returning 0 results... PUBCHEM.COMPOUND:4091: Success. Returning 300 results... PUBCHEM.COMPOUND:60823: Success. Returning 300 results... PUBCHEM.COMPOUND:88111: Success. Returning 0 results... PUBCHEM.COMPOUND:445354: Success. Returning 300 results... PUBCHEM.COMPOUND:54670067: Success. Returning 0 results... PUBCHEM.COMPOUND:5280795: Success. Returning 0 results... PUBCHEM.COMPOUND:79025: Success. Returning 0 results... PUBCHEM.COMPOUND:888: Success. Returning 0 results... PUBCHEM.COMPOUND:5881: Success. Returning 300 results... PUBCHEM.COMPOUND:6013: Success. Returning 300 results... PUBCHEM.COMPOUND:5991: Success. Returning 300 results... PUBCHEM.COMPOUND:16129681: No identifiers for qnodes {'chemical'} could be mapped to SPOKE; returning empty message... PUBCHEM.COMPOUND:2160: Success. Returning 300 results... PUBCHEM.COMPOUND:3446: Success. Returning 300 results... PUBCHEM.COMPOUND:4946: Success. Returning 300 results... PUBCHEM.COMPOUND:5358: Success. Returning 300 results... PUBCHEM.COMPOUND:12358543: No identifiers for qnodes {'chemical'} could be mapped to SPOKE; returning empty message... ```

Currently, we aren't able to score the results for the "Gene increased by" queries, but hopefully that will be resolved in the next month or so.

sharatisrani commented 1 year ago