New validation results

wikipathways · Jan 22, 2025 · c8313ed · c8313ed
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diff --git a/index2.md b/index2.md
diff --git a/reports/WP1.md b/reports/WP1.md
@@ -9,7 +9,7 @@
 * ChemSpiderTests: all 2 tests OK!
 * DataNodesTests: all 5 tests OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -29,8 +29,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 0
 
 ## Fails

diff --git a/reports/WP10.md b/reports/WP10.md
@@ -9,7 +9,7 @@
 * ChemSpiderTests: all 2 tests OK!
 * DataNodesTests: all 5 tests OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -29,8 +29,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 0
 
 ## Fails

diff --git a/reports/WP100.json b/reports/WP100.json
@@ -1,6 +1,6 @@
 {
   "schemaVersion": 1,
   "label": "curation",
-  "message": "success",
-  "color": "brightgreen"
+  "message": "1 issue",
+  "color": "yellow"
 }
diff --git a/reports/WP100.md b/reports/WP100.md
@@ -10,7 +10,13 @@
 * ChemSpiderTests: all 2 tests OK!
 * DataNodesTests: all 5 tests OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests
+    * entrezGeneIdentifiersNotNumber: .. all OK!
+    * affyProbeIdentifiersNotCorrect: .. all OK!
+    * outdatedIdentifiers: .... all OK!
+    * nonNumericHGNCAccessionNumbers: .. all OK!
+    * genesWithoutEnsemblMapping: .x we found 1 problem(s):
+        * [The following genes with an identifier have been found but that do not have a mapping to Ensembl: 18](#c4e54315)
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -30,9 +36,37 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
-* Number of fails: 0
+* Number of tests: 118
+* Number of assertions: 237
+* Number of fails: 1
 
 ## Fails
 
+<a name="c4e54315" />
+
+## Genes with identifier but no Ensembl identifier mapping
+
+The following genes with an identifier have been found but that do not have a mapping to Ensembl: 18
+```
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.4.1 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 6.3.1.8 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.1.1.43 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.3.3 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 3.4.11.4 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 GSTT1 with datasource Entrez Gene
+http://classic.wikipathways.org/instance/WP100_r128959 1.11.1.12 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.4.7 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.5.1 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 2.8.1.3 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 2.3.1.80 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 3.5.1.78 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.4.4 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.1.13 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.4.2 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.5.4.1 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 2.3.2.4 with datasource Enzyme Nomenclature
+http://classic.wikipathways.org/instance/WP100_r128959 1.8.4.3 with datasource Enzyme Nomenclature
+```
+
+More details at [https://www.wikipathways.org/WikiPathwaysCurator/GeneTests/genesWithoutEnsemblMapping](https://www.wikipathways.org/WikiPathwaysCurator/GeneTests/genesWithoutEnsemblMapping)
+
diff --git a/reports/WP1000.md b/reports/WP1000.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1001.md b/reports/WP1001.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1002.md b/reports/WP1002.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1004.md b/reports/WP1004.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1005.md b/reports/WP1005.md
@@ -9,7 +9,7 @@
 * ChemSpiderTests: all 2 tests OK!
 * DataNodesTests: all 5 tests OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -29,8 +29,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 0
 
 ## Fails

diff --git a/reports/WP1006.md b/reports/WP1006.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1007.md b/reports/WP1007.md
@@ -9,7 +9,7 @@
 * ChemSpiderTests: all 2 tests OK!
 * DataNodesTests: all 5 tests OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -29,8 +29,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 0
 
 ## Fails

diff --git a/reports/WP1008.md b/reports/WP1008.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP101.md b/reports/WP101.md
@@ -9,7 +9,7 @@
 * ChemSpiderTests: all 2 tests OK!
 * DataNodesTests: all 5 tests OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -29,8 +29,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 0
 
 ## Fails

diff --git a/reports/WP1010.md b/reports/WP1010.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1011.md b/reports/WP1011.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1012.md b/reports/WP1012.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1013.md b/reports/WP1013.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails

diff --git a/reports/WP1014.md b/reports/WP1014.md
@@ -15,7 +15,7 @@
     * unknownTypes_Reactome: .. all OK!
     * otherDataSource: .. all OK!
 * EnsemblTests: all 4 tests OK!
-* GeneTests: all 4 tests OK!
+* GeneTests: all 5 tests OK!
 * GeneralTests: all 15 tests OK!
 * HMDBSecMetabolitesTests: all 3 tests OK!
 * InteractionTests: all 8 tests OK!
@@ -35,8 +35,8 @@
 ## Summary
 
 * Number of test classes: 20
-* Number of tests: 117
-* Number of assertions: 235
+* Number of tests: 118
+* Number of assertions: 237
 * Number of fails: 1
 
 ## Fails