imd-pathway-curation

WikiPathways WP4292

• WikiPathways: WP4292
• Scholia: WP4292
• WPRDF file: wp/Human/WP4292.ttl
• GPMLRDF file: wp/gpml/Human/WP4292.ttl
• SBML file: sbml/WP4292.sbml (SVG) (conversion notes)

Tests

• CASMetabolitesTests: all 2 tests OK!
• ChEBIMetabolitesTests: all 4 tests OK!
• ChemSpiderTests: all 2 tests OK!
• DataNodesTests
  • dataNodesWithoutIdentifier: .x we found 1 problem(s):
    • The following DataNodes have no identifier: 1
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 3 tests OK!
• GeneralTests: all 13 tests OK!
• HMDBMetabolitesTests: all 1 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• IEMPathwayTests
  • allMetabolitesInteract: .x we found 1 problem(s):
    • Found metabolites without interaction: 4
  • metabolicConversions: .. all OK!
  • catalystsWithCommonDataSource: .. all OK!
  • metabolicConversionIdentifiersCommon: .. all OK!
  • diseasesHaveIdentifiers: .. all OK!
  • omimIdentifiers: .x we found 1 problem(s):
    • OMIM links should start with “https://omim.org/entry/”: 1
• InteractionTests: all 8 tests OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 7 tests OK!
• PathwayTests: all 6 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests: all 4 tests OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 15 tests OK!

Summary

• Number of test classes: 22
• Number of tests: 110
• Number of assertions: 220
• Number of fails: 3

Fails

DataNodesTests.dataNodesWithoutIdentifier

The following DataNodes have no identifier: 1

http://www.wikipathways.org/instance/WP4292_r124957 http://rdf.wikipathways.org/Pathway/WP4292_r124957/DataNode/b5879 (X-MT)

IEMPathwayTests.allMetabolitesInteract

Found metabolites without interaction: 4

https://identifiers.org/wikipathways/WP4292 has an metabolite not linked to an interaction: Phosphate ion
https://identifiers.org/wikipathways/WP4292 has an metabolite not linked to an interaction: ATP
https://identifiers.org/wikipathways/WP4292 has an metabolite not linked to an interaction: Diphosphate ion
https://identifiers.org/wikipathways/WP4292 has an metabolite not linked to an interaction: H2O

IEMPathwayTests.omimIdentifiers

OMIM links should start with “https://omim.org/entry/”: 1

https://identifiers.org/wikipathways/WP4292 "MAT deficiency" has unexpected OMIM href: http://omim.org/entry/250850