-
Notifications
You must be signed in to change notification settings - Fork 1
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
- Loading branch information
Showing
8 changed files
with
215 additions
and
1 deletion.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
|
|
@@ -1748,6 +1748,7 @@ WP5473 | |
| WP5474 | ||
| WP547 | ||
| WP5485 | ||
| WP5489 | ||
| WP548 | ||
| WP54 | ||
| WP550 | ||
|
|
||
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,6 @@ | ||
| { | ||
| "schemaVersion": 1, | ||
| "label": "curation", | ||
| "message": "1 issue", | ||
| "color": "red" | ||
| } |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,55 @@ | ||
| <img style="float: right; width: 200px" src="https://upload.wikimedia.org/wikipedia/commons/thumb/8/83/Wplogo_with_text_500.png/640px-Wplogo_with_text_500.png" /> | ||
| # WikiPathways WP392 | ||
|
|
||
| * WikiPathways: [WP392](https://wikipathways.org/pathways/WP392) ([classic](https://classic.wikipathways.org/instance/WP392)) | ||
| * Species: Saccharomyces cerevisiae | ||
| ## Tests | ||
| * CASMetabolitesTests: all 2 tests OK! | ||
| * ChEBIMetabolitesTests: all 5 tests OK! | ||
| * ChemSpiderTests: all 2 tests OK! | ||
| * DataNodesTests: all 5 tests OK! | ||
| * EnsemblTests: all 4 tests OK! | ||
| * GeneTests: all 4 tests OK! | ||
| * GeneralTests: all 15 tests OK! | ||
| * HMDBSecMetabolitesTests: all 3 tests OK! | ||
| * 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 24 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](#d0a459f0) | ||
| * 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: 117 | ||
| * Number of assertions: 235 | ||
| * Number of fails: 1 | ||
|
|
||
| ## Fails | ||
|
|
||
| <a name="d0a459f0" /> | ||
|
|
||
| ## At least one reference | ||
|
|
||
| Found 1 pathways with zero (PubMed) references | ||
|
|
||
| * [http://classic.wikipathways.org/instance/WP392_r135469](http://classic.wikipathways.org/instance/WP392_r135469) 'Glutathione-glutaredoxin redox reaction' in Saccharomyces cerevisiae has zero references; | ||
|
|
||
|
|
||
| More details at [https://www.wikipathways.org/WikiPathwaysCurator/ReferencesTests/atLeastOneReference](https://www.wikipathways.org/WikiPathwaysCurator/ReferencesTests/atLeastOneReference) | ||
|
|
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,6 @@ | ||
| { | ||
| "schemaVersion": 1, | ||
| "label": "curation", | ||
| "message": "1 issue", | ||
| "color": "red" | ||
| } |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,64 @@ | ||
| <img style="float: right; width: 200px" src="https://upload.wikimedia.org/wikipedia/commons/thumb/8/83/Wplogo_with_text_500.png/640px-Wplogo_with_text_500.png" /> | ||
| # WikiPathways WP479 | ||
|
|
||
| * WikiPathways: [WP479](https://wikipathways.org/pathways/WP479) ([classic](https://classic.wikipathways.org/instance/WP479)) | ||
| * Species: Saccharomyces cerevisiae | ||
| ## Tests | ||
| * CASMetabolitesTests: all 2 tests OK! | ||
| * ChEBIMetabolitesTests: all 5 tests OK! | ||
| * ChemSpiderTests: all 2 tests OK! | ||
| * DataNodesTests: all 5 tests OK! | ||
| * EnsemblTests: all 4 tests OK! | ||
| * GeneTests: all 4 tests OK! | ||
| * GeneralTests: all 15 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: 4](#1c118209) | ||
| * 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 24 tests OK! | ||
| * PathwayTests: all 7 tests OK! | ||
| * ProteinsTests: all 2 tests OK! | ||
| * PubChemMetabolitesTests: all 3 tests OK! | ||
| * ReferencesTests: all 6 tests OK! | ||
| * UniProtTests: all 5 tests OK! | ||
| * WikidataTests: all 4 tests OK! | ||
|
|
||
|
|
||
| ## Summary | ||
|
|
||
| * Number of test classes: 20 | ||
| * Number of tests: 117 | ||
| * Number of assertions: 235 | ||
| * Number of fails: 1 | ||
|
|
||
| ## Fails | ||
|
|
||
| <a name="1c118209" /> | ||
|
|
||
| ## Possible MIM translocation | ||
|
|
||
| Interactions between identical nodes: 4 | ||
| ``` | ||
| http://classic.wikipathways.org/instance/WP479_r135465 http://rdf.wikipathways.org/Pathway/WP479_r135465/WP/Interaction/idbd38b42e "shikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) and | ||
| shikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) | ||
| http://classic.wikipathways.org/instance/WP479_r135465 http://rdf.wikipathways.org/Pathway/WP479_r135465/WP/Interaction/idbd38b42e "shikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) and | ||
| 5-enolypyruvylshikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) | ||
| http://classic.wikipathways.org/instance/WP479_r135465 http://rdf.wikipathways.org/Pathway/WP479_r135465/WP/Interaction/idbd38b42e "5-enolypyruvylshikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) and | ||
| shikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) | ||
| http://classic.wikipathways.org/instance/WP479_r135465 http://rdf.wikipathways.org/Pathway/WP479_r135465/WP/Interaction/idbd38b42e "5-enolypyruvylshikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) and | ||
| 5-enolypyruvylshikimate-3-phosphate" (https://identifiers.org/chebi/CHEBI:57701) | ||
| ``` | ||
|
|
||
| More details at [https://www.wikipathways.org/WikiPathwaysCurator/InteractionTests/possibleTranslocations](https://www.wikipathways.org/WikiPathwaysCurator/InteractionTests/possibleTranslocations) | ||
|
|
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,6 @@ | ||
| { | ||
| "schemaVersion": 1, | ||
| "label": "curation", | ||
| "message": "2 issues", | ||
| "color": "red" | ||
| } |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,72 @@ | ||
| <img style="float: right; width: 200px" src="https://upload.wikimedia.org/wikipedia/commons/thumb/8/83/Wplogo_with_text_500.png/640px-Wplogo_with_text_500.png" /> | ||
| # WikiPathways WP5489 | ||
|
|
||
| * WikiPathways: [WP5489](https://wikipathways.org/pathways/WP5489) ([classic](https://classic.wikipathways.org/instance/WP5489)) | ||
| * Species: Homo sapiens | ||
| * Scholia: [WP5489](https://scholia.toolforge.org/wikipathways/WP5489) | ||
| ## Tests | ||
| * CASMetabolitesTests: all 2 tests OK! | ||
| * ChEBIMetabolitesTests: all 5 tests OK! | ||
| * ChemSpiderTests: all 2 tests OK! | ||
| * DataNodesTests: all 5 tests OK! | ||
| * EnsemblTests: all 4 tests OK! | ||
| * GeneTests | ||
| * entrezGeneIdentifiersNotNumber: .. all OK! | ||
| * affyProbeIdentifiersNotCorrect: .. all OK! | ||
| * outdatedIdentifiers: ...x we found 1 problem(s): | ||
| * [Found integer HGNC symbols (did you mean 'HGNC Accession number'?): 2](#7c6b1fb1) | ||
| * nonNumericHGNCAccessionNumbers: .. all OK! | ||
| * GeneralTests: all 15 tests OK! | ||
| * HMDBSecMetabolitesTests: all 3 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: 1](#630d2678) | ||
| * 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 24 tests OK! | ||
| * PathwayTests: all 7 tests OK! | ||
| * ProteinsTests: all 2 tests OK! | ||
| * PubChemMetabolitesTests: all 3 tests OK! | ||
| * ReferencesTests: all 6 tests OK! | ||
| * UniProtTests: all 5 tests OK! | ||
| * WikidataTests: all 4 tests OK! | ||
|
|
||
|
|
||
| ## Summary | ||
|
|
||
| * Number of test classes: 20 | ||
| * Number of tests: 117 | ||
| * Number of assertions: 235 | ||
| * Number of fails: 2 | ||
|
|
||
| ## Fails | ||
|
|
||
| <a name="7c6b1fb1" /> | ||
|
|
||
| ## GeneTests.outdatedIdentifiers | ||
|
|
||
| Found integer HGNC symbols (did you mean 'HGNC Accession number'?): 2 | ||
| ``` | ||
| http://classic.wikipathways.org/instance/WP5489_r135477 TRA has 12027 | ||
| http://classic.wikipathways.org/instance/WP5489_r135477 TRB has 12155 | ||
| ``` | ||
|
|
||
| <a name="630d2678" /> | ||
|
|
||
| ## InteractionTests.interactionsWithLabels | ||
|
|
||
| Interactions found that involve Labels: 1 | ||
| ``` | ||
| http://classic.wikipathways.org/instance/WP5489_r135477 "Memory Cell | ||
| Persistance" with graphId bc3d7 | ||
| ``` | ||
|
|