Feb 2024 - Remove overrides/changes that are no longer needed

[colleenXu]

Now that the code for the following issues has been deployed in Prod (Feb Translator release), I've merged the SmartAPI yaml changes into the master branch (registered yamls).

• update ORPHANET -> orphanet NCATS-Tangerine/translator-api-registry#136 for SmartAPI annotation + bug-chasing: ORPHANET -> orphanet #640 (comment)
• ctd: adjust operations for batch-query NCATS-Tangerine/translator-api-registry#134 for CTD processing 2: batch-queries #584 (comment)
• mychem: edit fda-orphan-data operations NCATS-Tangerine/translator-api-registry#138 for update source of FDA orphan drug data #709 (comment)

We can now go through the process of removing the overrides biothings/bte-server#4 and biothings/bte-server@28e5b58

[colleenXu]

We should be able to add the removal of the v3 Monarch API override biothings/bte-server#16 to this issue + PR.

It depends on how the timeline of the v3 Monarch API special deployment goes, VS the next release's deployments.

[colleenXu]

Adding the revert of biothings/bte_trapi_query_graph_handler#178, which is no longer needed due to the changes in biothings/api-respone-transform.js#63. See #783 (comment)

[colleenXu]

So right now we have two PRs to address this issue:

• fix: remove overrides from feb 2024 release bte-server#17
• Revert "Merge pull request #178 from biothings/fix-775" bte_trapi_query_graph_handler#180

[colleenXu]

The v3 Monarch changes have been deployed to BTE prod and the yaml/registration has been updated. So we can continue the plan to remove the override with this PR. biothings/bte-server#17

However, I've added an additional chore to this PR: updating name of API in API_LIST biothings/bte-server@067b820: from "Biolink API" -> "Monarch API" to reflect the SmartAPI yaml update

[colleenXu]

Note that we basically probably remove these overrides just to replace them with new overrides for #788

[tokebe]

This issue may as well stay open as a rolling issue-- we'll almost constantly have a stream of new overrides that need to be removed as releases make it to Prod.

[colleenXu]

Jackson and I discussed this and decided to close this. I'll make another issue for removing the temporary changes and we'll see if the "rolling" format works.

[colleenXu]

Now that this is deployed to Prod, I went through and deleted the old SmartAPI yaml branches that were used for overrides.