lipidmaps-wp-curation

WikiPathways WP4545

• WikiPathways: WP4545
• Scholia: WP4545
• WPRDF file: wp/Human/WP4545.ttl
• GPMLRDF file: wp/gpml/Human/WP4545.ttl
• SBML file: sbml/WP4545.sbml (SVG) (conversion notes)

Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 4 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .. all OK!
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 1
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 13 tests OK!
• HMDBMetabolitesTests: all 1 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .x we found 1 problem(s):
    • Interactions found that involve Labels: 1
  • possibleTranslocations: .. all OK!
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests
  • retiredIdentifiers: .. all OK!
  • onlyLIPIDMAPS: .x we found 1 problem(s):
    • Expected a LIPID MAPS identifier, but found other identifiers: 2
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 7 tests OK!
• PathwayTests: all 7 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 6 tests OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 14 tests OK!

Summary

• Number of test classes: 21
• Number of tests: 109
• Number of assertions: 220
• Number of fails: 3

Fails

DataNodesTests.unknownTypes

The following DataNodes have Unknown @Type: 1

http://classic.wikipathways.org/instance/WP4545_r126793 http://rdf.wikipathways.org/Pathway/WP4545_r126793/DataNode/d17dd (3beta-hydroxy-7beta-N-acetylglucosaminyl
chol-5-en-24-oylglycine)

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 1

http://classic.wikipathways.org/instance/WP4545_r126793 "CD4+ Th17 cells" with graphId c67d5

LIPIDMAPSTests.onlyLIPIDMAPS

Expected a LIPID MAPS identifier, but found other identifiers: 2

http://classic.wikipathways.org/instance/WP4545_r126793 7α−Hydroxycholest -4-en-3-one has CHEBI:17899 from ChEBI but expected a LIPID MAPS identifier
http://classic.wikipathways.org/instance/WP4545_r126793 histamine has Q61233 from Wikidata but expected a LIPID MAPS identifier

More details at https://wikipathways.github.io/WikiPathwaysCurator/LIPIDMAPSTests/onlyLIPIDMAPS