Knowledge-Graph-Hub/kg-covid-19

Issues

• Cached inputs are incongruent with what STRING transformer expects -> FileNotFoundError

  #473 opened a year ago by caufieldjh
  1

• Merge fails due to error tokenizing data

  #469 opened a year ago by caufieldjh
  2

• Transform fails due to ImportError

  #470 opened a year ago by caufieldjh
  0

• Bump `kgx` to 1.5.6

  #452 opened a year ago by caufieldjh
  1

• Verify single SOT for NCBI Taxon class relationships

  #464 opened 2 years ago by caufieldjh
  0

• Check on ingested CL terms and verify CP terms are not included

  #463 opened 2 years ago by caufieldjh
  0

• Knowledge source on edges is unclear

  #462 opened 2 years ago by caufieldjh
  0

• Update `OntologyClass` node categories

  #461 opened 2 years ago by caufieldjh
  0

• Resolve duplicated edge categories

  #460 opened 2 years ago by caufieldjh
  0

• Compressed graph incorrectly includes relative local path

  #459 opened 2 years ago by caufieldjh
  0

• 404 error on chembl_28_molecule data

  #458 opened 2 years ago by caufieldjh
  0

• Jenkins build fails after merge with JSONDecodeError

  #456 opened 2 years ago by caufieldjh
  1

• Track memory usage during build

  #454 opened 2 years ago by caufieldjh
  0

• Jenkins build failing in Blazegraph deploy stage

  #439 opened 2 years ago by justaddcoffee
  8

• Normalize Drug nodes to single prefix

  #437 opened 2 years ago by caufieldjh
  0

• Builds fail due to dependency conflict

  #444 opened 2 years ago by caufieldjh
  0

• Update TCRD / DrugCentral version

  #436 opened 2 years ago by caufieldjh
  1

• Rust/Cargo error causing ensmallen_graph package install to fail

  #441 opened 2 years ago by chuck-rosalind
  5

• Classifier

  #435 opened 3 years ago by shainaraza
  4

• Jenkins hanging while writing blazegraph journal from NT file

  #431 opened 3 years ago by justaddcoffee
  9

• Enhance and reorganize documentation

  #401 opened 3 years ago by cmungall
  2

• Filename error in transformed graphs

  #394 opened 3 years ago by LucaCappelletti94
  2

• Wrap calls to network in Jenkinsfile in retry() blocks

  #363 opened 3 years ago by justaddcoffee
  1

• Improve normalization of proteins

  #386 opened 3 years ago by justaddcoffee
  1

• Problem pushing blazegraph journal to SPARQL endpoint in Jenkins

  #422 opened 3 years ago by justaddcoffee
  9

• Make a docker image to facilitate development on all kg-* projects and KGX

  #410 opened 3 years ago by justaddcoffee
  13

• migrate to main KGX branch

  #381 opened 3 years ago by justaddcoffee
  3

• What is the zhou_host_protein transformed dataset?

  #403 opened 3 years ago by linikujp
  1

• Implement reaction ingests (Rhea, BioPAX, etc)

  #372 opened 4 years ago by cmungall
  6

• Installing the requirements file doesn't work

  #402 opened 3 years ago by Leoningel
  3

• in Sankey plot/dashboard transform node and edge category counts to log scale

  #397 opened 3 years ago by realmarcin
  0

• update SciBite ingest to version 1.6

  #387 opened 3 years ago by justaddcoffee
  1

• Two random data bugs

  #391 opened 3 years ago by justaddcoffee
  1

• convert example queries from bespoke yaml to garlic (grlc)

  #374 opened 3 years ago by cmungall
  1

• Add some kind of protection for accidental deletion of KG-COVID-19 builds

  #385 opened 4 years ago by justaddcoffee
  6

• Need to migrate from travis-ci.org to either GH actions or travis-ci.com

  #378 opened 4 years ago by justaddcoffee
  1

• ORF10 missing in GPI file source

  #379 opened 4 years ago by realmarcin
  0

• interactions disappeared between 20201001 and 20201101 nt files

  #376 opened 4 years ago by realmarcin
  1

• ACE2 interaction present in nt but missing in tsv (20201001 release)

  #375 opened 4 years ago by realmarcin
  3

• malformed index.html in build base directories

  #373 opened 4 years ago by justaddcoffee
  0

• URLs from http://identifiers.org/mesh are missing label

  #341 opened 4 years ago by kliegr
  1

• Consider moving curated GPI file to our data repo

  #371 opened 4 years ago by justaddcoffee
  1

• Updated ensmallen_graph causes panic in some unit tests

  #349 opened 4 years ago by justaddcoffee
  6

• how to incorporate/interface drug repurposing studies based on in silico screening?

  #366 opened 4 years ago by realmarcin
  0

• Ingest COVID antivirals from Czech Republic health ministry

  #365 opened 4 years ago by realmarcin
  0

• Add function in directory-indexer.py to add existing build

  #359 opened 4 years ago by justaddcoffee
  0

• Pipeline broken at blazegraph-runner stage

  #346 opened 4 years ago by justaddcoffee
  4

• All but one of the SPARQL queries are broken (for MS submission)

  #342 opened 4 years ago by justaddcoffee
  5

• KG-COVID-19 prediction evaluation dashboard by method

  #344 opened 4 years ago by realmarcin
  0

• downloadable files for KG-COVID-19 graph test/training sets

  #343 opened 4 years ago by realmarcin
  0