lipidmaps-wp-curation

WikiPathways WP5311

• WikiPathways: WP5311 (classic)
• Species: Homo sapiens
• Scholia: WP5311
• WPRDF file: wp/Human/WP5311.ttl
• GPMLRDF file: wp/gpml/Human/WP5311.ttl
• SBML file: sbml/WP5311.sbml (SVG) (conversion notes)

Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 5 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 8
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
  • otherDataSource: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 5 tests OK!
• GeneralTests: all 15 tests OK!
• HMDBMetabolitesTests: all 1 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests: all 9 tests 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: 1
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 9 tests OK!
• PathwayTests: all 11 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: 120
• Number of assertions: 241
• Number of fails: 2

Fails

Data nodes without an identifier

The following DataNodes have no identifier: 8

• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/b0c4b (417)
• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/fa256 (428)
• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/c914d (431)
• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/bd8dc (432)
• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/dc15b (433)
• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/b1175 (435)
• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/ae978 (α1–3GalT)
• http://classic.wikipathways.org/instance/WP5311_r137661 http://rdf.wikipathways.org/Pathway/WP5311_rr137661/DataNode/e1aa4 (β3GalNAcT)

More details at https://www.wikipathways.org/WikiPathwaysCurator/DataNodesTests/dataNodesWithoutIdentifier

Only LIPID MAPS identifiers

Expected a LIPID MAPS identifier, but found other identifiers: 1

http://classic.wikipathways.org/instance/WP5311_rr137661 LacCer has CHEBI:17950 from ChEBI but expected a LIPID MAPS identifier

More details at https://www.wikipathways.org/WikiPathwaysCurator/LIPIDMAPSTests/onlyLIPIDMAPS