Add qualifiers

[tokebe]

Update broken tests, smartapi spec, hard-cached specs to support qualifiers and biolink 3.1.1

Related PRs:

• Add qualifiers api-respone-transform.js#41
• Add qualifiers call-apis.js#63
• Add qualifiers bte_trapi_query_graph_handler#129
• Add qualifiers smartapi-kg.js#63
• Add qualifiers biolink-model.js#32

[codecov]

Codecov Report

Merging #535 (f7da069) into main (a2b807e) will not change coverage.
The diff coverage is n/a.

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[colleenXu]

@tokebe Does this PR need the custom https://github.com/biothings/BioThings_Explorer_TRAPI/blob/dev/src/config/smartapi_overrides.json that's on dev right now?

Also, I made PRs for the x-bte annotation. However, I suggest waiting to merge them until all instances are ready to move to qualifiers/biolink3...

• qualifiers / biolink3 update NCATS-Tangerine/translator-api-registry#106 for ours
• qualifiers / biolink3 for text mining NCATS-Tangerine/translator-api-registry#107 and Updating version and adding several contributes_to triples NCATS-Tangerine/translator-api-registry#105 for Text mining.

[tokebe]

I don't think we need the overrides, as these PR branches are merged into dev, which has the overrides. Once we start deploying to CI/Test/Prod, then we'll want to just update the annotations I think. Unless you mean that should wait until other ARAs and KPs are ready to move this feature to Prod?

[colleenXu]

@tokebe

Okay, it sounds like for the overrides...

• we'll have to be careful merging to dev, since we'll want to keep the overrides currently in dev
• we plan to deploy to ci/test/prod instances all at once, so around that time, we'll merge the PRs for the registry and refresh the registry.

I think we're waiting to deploy to ci/test/prod until Translator tells us it's okay to do so?

[colleenXu]

Addresses #512 and #514