WikiPathways

Today's Featured Pathway

Glioblastoma signaling pathways (Homo sapiens)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/a/a0/WP2261_91210.svg:
Status:1
Message:Exception in thread "main" java.lang.NullPointerException at org.pathvisio.core.Engine.getPathwayImporters(Unknown Source) at org.pathvisio.core.Engine.importPathway(Unknown Source) at org.pathvisio.core.util.Converter.main(Unknown Source)

Command:java -Xmx1024M -jar /var/www/wikipathways/wpi/bin/pathvisio_core.jar "/var/www/wikipathways" "/var/www/wikipathways/images/a/a0/WP2261_91210.svg" 2>&1
' in /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php:1255 Stack trace:

1. 0 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1227): Pathway::convertWithPathVisio(false, '/var/www/wikipa...')
2. 1 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1137): Pathway->saveConvertedByPathVisioCache('svg')
3. 2 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1153): Pathway->updateCache('svg')
4. 3 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(129): Pathway->getImage()
5. 4 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(53): makeThumbLinkObj(Object(Pathway), 'Glioblastoma si...', 'https://classic...', 'Glioblastoma si...', 'center', 'pwthumb', '300')
6. 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP2261', '300', 'center', 'Glioblastoma si...', 'pathway', 'Glioblastoma si...')
7. 6 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('renderPathwayIm...', Array)
8. 7 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPTemplateFrame_DOM))
9. 8 /var/www/wikipathways/includes/parser/Parser.php(2986): PPFrame_DOM->expand(Object(PPNode_DOM))
10. 9 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
11. 10 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
12. 11 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('{{Template:Toda...')
13. 12 /var/www/wikipathways/includes/parser/Parser.php(439): Parser->internalParse('{{Template:Toda...')
14. 13 /var/www/wikipathways/wpi/extensions/PathwayOfTheDay/PathwayOfTheDay.php(60): Parser->recursiveTagParse('{{Template:Toda...')
15. 14 [internal function]: getPathwayOfTheDay(Object(Parser), 'Friday 3 May 20...', 'Curation:Featur...', 'true')
16. 15 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('getPathwayOfThe...', Array)
17. 16 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
18. 17 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
19. 18 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('__NOEDITSECTION...')
20. 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('__NOEDITSECTION...')
21. 20 /var/www/wikipathways/includes/Article.php(3406): Parser->parse('__NOEDITSECTION...', Object(Title), Object(ParserOptions), true, true, 91210)
22. 21 /var/www/wikipathways/includes/Article.php(875): Article->outputWikiText('__NOEDITSECTION...', false)
23. 22 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
24. 23 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
25. 24 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
26. 25 {main}

Updates

• January 2017 Update: 25 new human pathways with 181 new genes. Download
• December 22: Blog post about our translation of mouse pathways
• December Update: 201 edits by 15 contributors this month
• November 11: Enrichment analysis of single-cell dataset on differentiation
• November Update: 143 new human genes added to pathways this month
• October Update: 12 new human pathways contributed this month
• Sept 30: New pathways featured in blog post
• September Update: 42 new human genes added this month
• August Update: 60 genes and 10 new human pathways added this month
• June 23: Our Resource Description Framework API is described in PLOS Comp Bio
• May 20: Read about the Reactome pathways on this site in PLOS Comp Bio
• Check our TissueAnalyzer page to study pathway activity in different tissues
• Want to add your ORCID id to your WikiPathways account? Find out how to do it!
• Embed an interactive pathway display on your own website

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