geneontology/biolink-api

Issues

• Default closure relation should be isa/partof

  #30 opened a year ago by kltm
  3

• [Proposal] Integrate GO-CAM routes in the GO API

  #5 opened a year ago by lpalbou
  2

• Merge GO API and GO-CAM API

  #24 opened a year ago by kltm
  2

• update rdf url in ontobio to reflect the path to the go RDF/SPARQL endpoint

  #33 opened 2 years ago by sierra-moxon
  0

• Create a modern test battery for the GO API that increases coverage

  #20 opened 2 years ago by kltm
  1

• Remove non-GO code and unecessary routes from the API

  #21 opened 2 years ago by kltm
  0

• Create a minimal working setup

  #19 opened 2 years ago by kltm
  0

• add battery of ribbon and slimmer tests.

  #43 opened 2 years ago by sierra-moxon
  0

• add README to go-fastapi implementation

  #40 opened 2 years ago by sierra-moxon
  0

• add makefile for launching go-fastapi

  #41 opened 2 years ago by sierra-moxon
  0

• support autocomplete endpoint - bring it back from obsoletion.

  #39 opened 2 years ago by sierra-moxon
  0

• dockerize fastapi version of GO-API

  #36 opened 2 years ago by sierra-moxon
  1

• add back in bioentity/{id} endpoint

  #38 opened 2 years ago by sierra-moxon
  0

• migrate to fastapi

  #35 opened 2 years ago by sierra-moxon
  1

• Seth should be able to follow the recipe and spin up a local copy of the API.

  #28 opened 2 years ago by sierra-moxon
  0

• migrate to poetry

  #34 opened 2 years ago by sierra-moxon
  0

• handle itsdangerous errors from recent release

  #25 opened 2 years ago by sierra-moxon
  0

• get rid of the dependency on Monarch Solr instance.

  #27 opened 2 years ago by sierra-moxon
  2

• return obsolete status and id replaced by fields in the ontology/term/ endpoint

  #18 opened 2 years ago by sierra-moxon
  0

• upgrade to python 3.7+, fix tests

  #16 opened 2 years ago by sierra-moxon
  0

• migrate go-fastapi to geneontology organization: currently I do not have permissions.

  #46 opened 2 years ago by sierra-moxon
  0

• support both https and http on the landing page (currently swagger and the link on the landing page show localhost and fail respectively).

  #32 opened 2 years ago by sierra-moxon
  3

• remove barista dependency in GO-CAM api (replace with a solr index, blazegraph, filesystem JSON output, lots of options here).

  #45 opened 2 years ago by sierra-moxon
  3

• migrate run_sparql_query calls to OAK - currently these calls are bypassing the class hierarchy in ontobio and instead calling a hardcoded SPARQL endpoint that we'd like to get rid of. (spoke to Chris about this dependency 1:1 and confirmed we want to migrate either to use the class hierarchy in ontobio, but since Oak is the next gen, it might be better just to use Oak).

  #47 opened 2 years ago by sierra-moxon
  0

• add utils tests

  #48 opened 2 years ago by sierra-moxon
  0

• test out root-path for configuring /api prefix & prepping for possible v1/v2 support in the URL.

  #44 opened 2 years ago by sierra-moxon
  1

• Remove hard-coded goslim_agr in favor of dynamic creation

  #42 opened 2 years ago by kltm
  0

• refactor ribbon call to slimmer by breaking out shared code into functions instead of calling one endpoint to another.

  #37 opened 3 years ago by sierra-moxon
  0

• Floating invocation variables can prevent GO API from reinstantiating itself

  #31 opened 3 years ago by kltm
  2

• Route to resolve multiple genes meta in a single query

  #13 opened 4 years ago by lpalbou
  1

• Deploy the refresh of the GO API into production

  #23 opened 3 years ago by kltm
  0

• Clean and moderninze the GO API codebase

  #22 opened 3 years ago by kltm
  0

• Consider more proactive sanitizing of inputs and output in API

  #12 opened 4 years ago by kltm
  2

• Unblock queries from api.geneontology.org to golr-aux.geneontology.io

  #11 opened 4 years ago by lpalbou
  14

• SSL certificate renewal

  #9 opened 4 years ago by lpalbou
  1

• [Proposal] Merge back possible routes to master biolink-api

  #6 opened 5 years ago by lpalbou
  1

• [Proposal] HTTPS instance of the API reroutes swagger docs URL to localhost

  #8 opened 5 years ago by deepakunni3
  0

• [Proposal] Create a docker image of the API + Scalability (low priority)

  #7 opened 5 years ago by lpalbou
  0

• [Proposal] Mechanism to have implementation-specific route/parameters description and examples

  #4 opened 5 years ago by lpalbou
  0