imd-pathway-curation

WikiPathways WP5189

• WikiPathways: WP5189
• Scholia: WP5189
• WPRDF file: wp/Human/WP5189.ttl
• GPMLRDF file: wp/gpml/Human/WP5189.ttl
• SBML file: sbml/WP5189.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: 2
  • unknownTypes_knownDatasource: .. all OK!
  • unknownTypes: .x we found 1 problem(s):
    • The following DataNodes have Unknown @Type: 2
  • 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: all 6 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: 5
  • possibleTranslocations: .. all OK!
  • 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 7 tests OK!
• PathwayTests: all 6 tests OK!
• ProteinsTests: all 2 tests OK!
• PubChemMetabolitesTests: all 3 tests OK!
• ReferencesTests
  • nonNumericPubMedIDs: .. all OK!
  • zeroPubMedIDs: .. all OK!
  • atLeastOneReference: .x we found 1 problem(s):
    • Found 1 pathways with zero (PubMed) references
  • citesRetractedArticle: .. all 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: 4

Fails

DataNodesTests.dataNodesWithoutIdentifier

The following DataNodes have no identifier: 2

http://www.wikipathways.org/instance/WP5189_r122491 http://rdf.wikipathways.org/Pathway/WP5189_r122491/DataNode/cb8d9 (Reductase)
http://www.wikipathways.org/instance/WP5189_r122491 http://rdf.wikipathways.org/Pathway/WP5189_r122491/DataNode/fbedb (Reductase)

DataNodesTests.unknownTypes

The following DataNodes have Unknown @Type: 2

http://www.wikipathways.org/instance/WP5189_r122491 http://rdf.wikipathways.org/Pathway/WP5189_r122491/DataNode/cb8d9 (Reductase)
http://www.wikipathways.org/instance/WP5189_r122491 http://rdf.wikipathways.org/Pathway/WP5189_r122491/DataNode/fbedb (Reductase)

InteractionTests.interactionsWithLabels

Interactions found that involve Labels: 5

http://www.wikipathways.org/instance/WP5189_r122491 "Wilson disease" with graphId c84f9
http://www.wikipathways.org/instance/WP5189_r122491 "X-linked distal spinal 
muscular atrophy" with graphId a0156
http://www.wikipathways.org/instance/WP5189_r122491 "Menkes disease" with graphId dfcfd
http://www.wikipathways.org/instance/WP5189_r122491 "Occipital horn syndrome" with graphId f0f37
http://www.wikipathways.org/instance/WP5189_r122491 "MEDNIKs disease
" with graphId f1b13

ReferencesTests.atLeastOneReference

Found 1 pathways with zero (PubMed) references

http://www.wikipathways.org/instance/WP5189_r122491 'Copper metabolism' in Homo sapiens has zero references; 

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