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- | Portals within WikiPathways serve as organizing points for communities with focused pathway interests. For example, a portal could organize pathways for a particular species or research area. The main advantages of portals include: | + | {| class="wikitable sortable" style="float:right; margin-left: 100px;" |
- | * Simplifying drawing and databasing of your pathways | + | |- |
| + | |<h2 class="frontPagePanel blueFg">Community Featured Pathways IEM</h2>{{ #pathwayOfTheDay: {{LOCALDAYNAME}} {{LOCALDAY}} {{LOCALMONTHNAME}} {{LOCALYEAR}} | Curation:IEM | true}} |
| + | |- |
| + | |<h2 class="frontPagePanel blueFg">Community Featured Pathways COVID-19</h2>{{ #pathwayOfTheDay: {{LOCALDAYNAME}} {{LOCALDAY}} {{LOCALMONTHNAME}} {{LOCALYEAR}} | Curation:COVID19 | true}} |
| + | |} |
| + | |
| + | Portals within WikiPathways serve as organizing points for communities with focused pathway interests. |
| + | For example, a portal could organize pathways for a particular species or research area. |
| + | |
| + | The main advantages of portals include: |
| + | * Simplified drawing and collecting your pathways |
| * Help to keep track of ‘works-in-progress’ with collaborators | | * Help to keep track of ‘works-in-progress’ with collaborators |
| * Help attribute credit for pathway authors and curators | | * Help attribute credit for pathway authors and curators |
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| * Help to define a community | | * Help to define a community |
| | | |
- | <br>Creating a portal is easy using existing templates available from WikiPathways. If you are interested, please [https://docs.google.com/document/d/176BshTLE97V-gjzWrt0cgZEpQwnGUI86NdTaatETeSU/edit?pli=1#heading=h.b85xd25jlcie consult the portal maintenance guide] and [[Contact_Us|contact us]] for assistance. | + | <br>Creating a portal is easy using existing templates available from WikiPathways. |
| + | |
| + | If you are interested, please [https://docs.google.com/document/d/176BshTLE97V-gjzWrt0cgZEpQwnGUI86NdTaatETeSU/edit?pli=1#heading=h.b85xd25jlcie consult the portal maintenance guide] and [[Contact_Us|contact us]] for assistance. |
| | | |
| <br>WikiPathways has a growing list of portals: | | <br>WikiPathways has a growing list of portals: |
| | | |
- | * [[Portal:Disease/COVIDPathways|COVID-19]]
| |
- | * [[Portal:Blau|Blau Pathways]]
| |
- | * [[Portal:SkeletalDysplasia|Skeletal Dysplasia]]
| |
- | * [[Portal:Lipids|Lipids Pathways]]
| |
| * [[Portal:AOP|Adverse Outcome Pathway]] | | * [[Portal:AOP|Adverse Outcome Pathway]] |
- | * [[Portal:CPTAC|Clinical Proteomic Tumor Analysis Consortium Pathway]] | + | * [[Portal:IEM|Inherited Metabolic Disorders (IMDs), or Inborn Errors of Metabolism (IEM)]] |
- | * [[Portal:RenalGenomics|Renal Genomics]] | + | * [[Portal:CIRM|California Institute for Regenerative Medicine, CIRM]] |
- | * [[Portal:Disease|Disease]] and [[Portal:RareDisease|Rare Disease]] | + | * [[Portal:Disease/COVIDPathways|COVID-19]] |
- | * [[Portal:ExRNA|ExRNA Pathway]] | + | * [[Portal:CPTAC|Clinical Proteomic Tumor Analysis Consortium, CPTAC]] |
| + | * [[Portal:Disease|Disease]] |
| + | * [[Portal:ExRNA|ExRNA]] |
| + | * [[Portal:Lipids|Lipids]] |
| * [[Portal:Micronutrient|Micronutrients]] | | * [[Portal:Micronutrient|Micronutrients]] |
- | * [[Portal:Nanomaterials|Nanomaterials Pathways]] | + | * [[Portal:Nanomaterials|Nanomaterials]] |
| * [[Portal:NetPath|NetPath]] | | * [[Portal:NetPath|NetPath]] |
| * [[Portal:Plants|Plant Pathways]] | | * [[Portal:Plants|Plant Pathways]] |
| + | * [[Portal:RareDisease|Rare Disease]] |
| + | * [[Portal:RenalGenomics|Renal Genomics]] |
| * [[Portal:Reactome|Reactome]] | | * [[Portal:Reactome|Reactome]] |
- | * [[Portal:WormBase|WormBase]] | + | * [[Portal:SkeletalDysplasia|Skeletal Dysplasia]] |
- | * [[Portal:CIRM|California Institute for Regenerative Medicine, CIRM]] | + | * [[Portal:WormBase|WormBase]] |
| | | |
| | | |
| [[Category:Portals]] | | [[Category:Portals]] |
Community Featured Pathways IEM
Ether lipid biosynthesis (Homo sapiens) invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/1/1b/WP5275_111607.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/1/1b/WP5275_111607.svg" 2>&1 ' in /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php:1255
Stack trace:
- 0 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1227): Pathway::convertWithPathVisio(false, '/var/www/wikipa...')
- 1 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1137): Pathway->saveConvertedByPathVisioCache('svg')
- 2 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1153): Pathway->updateCache('svg')
- 3 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(129): Pathway->getImage()
- 4 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(53): makeThumbLinkObj(Object(Pathway), 'Ether lipid bio...', 'https://classic...', 'Ether lipid bio...', 'center', 'pwthumb', '300')
- 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP5275', '300', 'center', 'Ether lipid bio...', 'pathway', 'Ether lipid bio...')
- 6 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('renderPathwayIm...', Array)
- 7 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPTemplateFrame_DOM))
- 8 /var/www/wikipathways/includes/parser/Parser.php(2986): PPFrame_DOM->expand(Object(PPNode_DOM))
- 9 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
- 10 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
- 11 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('{{Template:Toda...')
- 12 /var/www/wikipathways/includes/parser/Parser.php(439): Parser->internalParse('{{Template:Toda...')
- 13 /var/www/wikipathways/wpi/extensions/PathwayOfTheDay/PathwayOfTheDay.php(60): Parser->recursiveTagParse('{{Template:Toda...')
- 14 [internal function]: getPathwayOfTheDay(Object(Parser), 'Monday 6 May 20...', 'Curation:IEM', 'true')
- 15 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('getPathwayOfThe...', Array)
- 16 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
- 17 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
- 18 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('{| class="wikit...')
- 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('{| class="wikit...')
- 20 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('{| class="wikit...', Object(Title), Object(ParserOptions), true, true, 122535)
- 21 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('{| class="wikit...', Object(Title), true, true)
- 22 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('{| class="wikit...', Object(Title), true)
- 23 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('{| class="wikit...')
- 24 /var/www/wikipathways/includes/DifferenceEngine.php(271): DifferenceEngine->renderNewRevision()
- 25 /var/www/wikipathways/includes/Article.php(729): DifferenceEngine->showDiffPage(false)
- 26 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
- 27 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
- 28 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
- 29 {main}
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Community Featured Pathways COVID-19
Type I interferon induction and signaling during SARS-CoV-2 infection (Homo sapiens) invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/a/a8/WP4868_111607.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/a8/WP4868_111607.svg" 2>&1 ' in /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php:1255
Stack trace:
- 0 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1227): Pathway::convertWithPathVisio(false, '/var/www/wikipa...')
- 1 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1137): Pathway->saveConvertedByPathVisioCache('svg')
- 2 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1153): Pathway->updateCache('svg')
- 3 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(129): Pathway->getImage()
- 4 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(53): makeThumbLinkObj(Object(Pathway), 'Type I interfer...', 'https://classic...', 'Type I interfer...', 'center', 'pwthumb', '300')
- 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP4868', '300', 'center', 'Type I interfer...', 'pathway', 'Type I interfer...')
- 6 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('renderPathwayIm...', Array)
- 7 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPTemplateFrame_DOM))
- 8 /var/www/wikipathways/includes/parser/Parser.php(2986): PPFrame_DOM->expand(Object(PPNode_DOM))
- 9 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
- 10 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
- 11 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('{{Template:Toda...')
- 12 /var/www/wikipathways/includes/parser/Parser.php(439): Parser->internalParse('{{Template:Toda...')
- 13 /var/www/wikipathways/wpi/extensions/PathwayOfTheDay/PathwayOfTheDay.php(60): Parser->recursiveTagParse('{{Template:Toda...')
- 14 [internal function]: getPathwayOfTheDay(Object(Parser), 'Monday 6 May 20...', 'Curation:COVID1...', 'true')
- 15 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('getPathwayOfThe...', Array)
- 16 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
- 17 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
- 18 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('{| class="wikit...')
- 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('{| class="wikit...')
- 20 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('{| class="wikit...', Object(Title), Object(ParserOptions), true, true, 122535)
- 21 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('{| class="wikit...', Object(Title), true, true)
- 22 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('{| class="wikit...', Object(Title), true)
- 23 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('{| class="wikit...')
- 24 /var/www/wikipathways/includes/DifferenceEngine.php(271): DifferenceEngine->renderNewRevision()
- 25 /var/www/wikipathways/includes/Article.php(729): DifferenceEngine->showDiffPage(false)
- 26 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
- 27 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
- 28 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
- 29 {main}
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Portals within WikiPathways serve as organizing points for communities with focused pathway interests.
For example, a portal could organize pathways for a particular species or research area.