wikipathways-collection

WikiPathways WP2624

• WikiPathways: WP2624
• Scholia: WP2624

  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: 3
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .. all OK!
  • unknownTypes_Reactome: .. all OK!
• EnsemblTests: all 4 tests OK!
• GeneTests: all 4 tests OK!
• GeneralTests: all 13 tests OK!
• HMDBSecMetabolitesTests: all 3 tests OK!
• InteractionTests
  • noMetaboliteToNonMetaboliteConversions: .. all OK!
  • noNonMetaboliteToMetaboliteConversions: .. all OK!
  • noGeneProteinConversions: .. all OK!
  • nonNumericIDs: .. all OK!
  • interactionsWithLabels: .. all OK!
  • possibleTranslocations: .x we found 1 problem(s):
    • Interactions between identical nodes: 2
  • noProteinProteinConversions: .. all OK!
  • incorrectKEGGIdentifiers: .. all OK!
• KEGGMetaboliteTests: all 2 tests OK!
• LIPIDMAPSTests: all 1 tests OK!
• MetaboliteStructureTests: all 1 tests OK!
• MetabolitesTests: all 14 tests OK!
• OudatedDataSourcesTests: all 8 tests OK!
• PathwayTests: all 7 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests
  • nonNumericPubMedIDs: .. all OK!
  • unexpectedPubMedIdentifier: .. all OK!
  • zeroPubMedIDs: .. all OK!
  • atLeastOneReference: .x we found 1 problem(s):
    • Found 1 pathways with zero (PubMed) references
  • citesRetractedArticle: .. all OK!
  • outdatedPubMedIdentifiers: .. all OK!
• UniProtTests: all 5 tests OK!
• WikidataTests: all 4 tests OK!

Summary

• Number of test classes: 20
• Number of tests: 97
• Number of assertions: 196
• Number of fails: 3

Fails

DataNodesTests.dataNodesWithoutIdentifier

The following DataNodes have no identifier: 3

http://classic.wikipathways.org/instance/WP2624_rr123106 http://rdf.wikipathways.org/Pathway/WP2624_rr123106/DataNode/d2948 (Glutamate Biosynthesis)
http://classic.wikipathways.org/instance/WP2624_rr123106 http://rdf.wikipathways.org/Pathway/WP2624_rr123106/DataNode/f8a83 (H2O)
http://classic.wikipathways.org/instance/WP2624_rr123106 http://rdf.wikipathways.org/Pathway/WP2624_rr123106/DataNode/b1650 (Pi)

InteractionTests.possibleTranslocations

Interactions between identical nodes: 2

http://classic.wikipathways.org/instance/WP2624_rr123106 http://rdf.wikipathways.org/Pathway/WP2624_rr123106/WP/Interaction/id98e31c38 "2-oxoglutarate" (https://identifiers.org/kegg.compound/C00026) and 
2-oxoglutarate" (https://identifiers.org/kegg.compound/C00026)
http://classic.wikipathways.org/instance/WP2624_rr123106 http://rdf.wikipathways.org/Pathway/WP2624_rr123106/WP/Interaction/id3e0cb2a8 "isocitrate" (https://identifiers.org/kegg.compound/C00311) and 
isocitrate" (https://identifiers.org/kegg.compound/C00311)

More details at https://wikipathways.github.io/WikiPathwaysCurator/InteractionTests/possibleTranslocations

ReferencesTests.atLeastOneReference

Found 1 pathways with zero (PubMed) references

http://classic.wikipathways.org/instance/WP2624_rr123106 'TCA cycle (Krebs cycle)' in Arabidopsis thaliana has zero references; 

More details at https://wikipathways.github.io/WikiPathwaysCurator/ReferencesTests/atLeastOneReference