Knowledge-Graph-Hub/kg-phenio

Issues

• KG build failing in transform step due to numpy issues

  #155 opened 2 months ago by caufieldjh
  3

• Always capture the ontology relation as original_predicate

  #154 opened 4 months ago by kevinschaper
  0

• Use CURIE as name when name is not available

  #153 opened 5 months ago by caufieldjh
  0

• Build fails due to writing `relation` value on `Association`

  #151 opened 7 months ago by caufieldjh
  0

• Ensure that associations between disease and phenotype get categorized as `DiseaseToPhenotypicFeatureAssociation`

  #148 opened 7 months ago by caufieldjh
  2

• Transforms fail due to missing `koza.cli_runner`

  #145 opened 7 months ago by caufieldjh
  0

• Update fields to align with Biolink Model 4.2.0

  #143 opened 7 months ago by caufieldjh
  1

• Re-add missing node xrefs

  #141 opened 9 months ago by caufieldjh
  3

• PHENIO node transform can't find infores for DDPHENO

  #138 opened 10 months ago by caufieldjh
  0

• Build fails due to `ModuleNotFoundError: No module named 'biolink'`

  #136 opened 10 months ago by caufieldjh
  0

• Build fails because it can't find `phenio-test.json`

  #134 opened 10 months ago by caufieldjh
  3

• URLs to KGX TSV `tar.gz` files in two builds are 404

  #132 opened a year ago by justaddcoffee
  1

• Transform stage of build fails due to `ImportError` in `sssom`

  #126 opened a year ago by caufieldjh
  3

• ImportError: cannot import name 'ensure_converter' from 'sssom.context'

  #130 opened a year ago by caufieldjh
  2

• Build fails during transform due to `ModuleNotFoundError: No module named 'biolink'`

  #128 opened a year ago by caufieldjh
  3

• Update `biolink-model` dependency to next release (3.5.5)

  #123 opened a year ago by caufieldjh
  0

• Build fails due to pydantic `ValidationError`

  #124 opened a year ago by caufieldjh
  1

• Use config file to specify transform parameters for kgx

  #120 opened a year ago by caufieldjh
  0

• MOD missing from infores sources

  #118 opened a year ago by caufieldjh
  0

• Node categories

  #95 opened 2 years ago by kevinschaper
  10

• Rewrite Koza ingest of PHENIO to use updated looping behavior

  #114 opened a year ago by caufieldjh
  0

• Synchronize with semsql build (i.e., do it here)

  #113 opened a year ago by caufieldjh
  0

• Transforms raise many Koza csv_reader warnings

  #110 opened a year ago by caufieldjh
  1

• Get synonyms in the output

  #111 opened a year ago by caufieldjh
  0

• Unexpected OMIT prefix breaks infores maps

  #106 opened a year ago by caufieldjh
  1

• Include xrefs

  #79 opened a year ago by caufieldjh
  2

• Adjust build schedule to capture updates

  #105 opened a year ago by caufieldjh
  1

• Expand node properties

  #90 opened 2 years ago by kevinschaper
  4

• Invalid predicates

  #103 opened 2 years ago by kevinschaper
  2

• Missing edge categories?

  #88 opened 2 years ago by caufieldjh
  6

• Build breaks due to HsapDv prefix not specified in source map

  #101 opened 2 years ago by caufieldjh
  0

• XPO to XPO edges have `infores:unknown`

  #97 opened 2 years ago by caufieldjh
  3

• Build error due to 404 error with LinkML schemaview

  #96 opened 2 years ago by caufieldjh
  4

• Include semsim in build process

  #78 opened 2 years ago by caufieldjh
  3

• Include EMAPA in kg-phenio

  #63 opened 2 years ago by kevinschaper
  3

• Build error: 'EnumDefinition' object has no attribute 'range'

  #93 opened 2 years ago by caufieldjh
  2

• Build error: category must be supplied in UphenoMapTransform

  #91 opened 2 years ago by caufieldjh
  0

• Nodes categorized as Occurrent

  #86 opened 2 years ago by caufieldjh
  0

• TypeError upon call to universalizer

  #83 opened 2 years ago by caufieldjh
  2

• Build error on Jenkins due to insufficient Python version

  #80 opened 2 years ago by caufieldjh
  1

• Include more Biolink categories

  #75 opened 2 years ago by caufieldjh
  14

• Verify and normalize prefixes with `prefixmaps`

  #65 opened 2 years ago by caufieldjh
  1

• Compressed graph incorrectly includes relative local path

  #77 opened 2 years ago by caufieldjh
  0

• No node types beyond NamedThing

  #58 opened 2 years ago by caufieldjh
  6

• Transform fails due to `KeyError: 'val'` with "synonyms"

  #73 opened 2 years ago by caufieldjh
  7

• Transform fails due to `IndexError` in middle of parsing

  #70 opened 2 years ago by caufieldjh
  3

• Jenkins build fails when trying to download `robot`

  #67 opened 2 years ago by caufieldjh
  1

• Include WBbt & FBbt anatomy ontologies

  #64 opened 2 years ago by kevinschaper
  7

• Stop removing obsoletes

  #61 opened 2 years ago by caufieldjh
  0

• Fixes for new `koza` ingest call behavior

  #59 opened 2 years ago by caufieldjh
  0