Template:PathwayPage:Bottom

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== Download files ==
== Download files ==
-
=== Image ===
+
=== Image formats ===
-
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=svg&type=png&oldid={{REVISIONID}}|_new svg]
+
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=pdf&oldid={{REVISIONID}}|_new pdf]
-
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=png&type=png&oldid={{REVISIONID}}|_new png]
+
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=svg&oldid={{REVISIONID}}|_new svg]
-
=== Data ===
+
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=png&oldid={{REVISIONID}}|_new png]
-
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=gpml&oldid={{REVISIONID}}|_new PathVisio (gpml)]
+
=== Data formats ===
 +
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=gpml&oldid={{REVISIONID}}|_new gpml] (PathVisio)
 +
** PathVisio is a standalone pathway editor and data analysis tool. For more information, see [http://pathvisio.org this website].
 +
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=launchGenMappConverter&pwTitle={{FULLPAGENAMEE}}&oldid={{REVISIONID}}|_new mapp] (GenMAPP)
 +
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=downloadFile&pwTitle={{FULLPAGENAMEE}}&type=pwf&oldid={{REVISIONID}}|_new pwf] (Eu.Gene)
 +
** Eu.Gene Analyzer is a tool for pathway statistics. For more information, see [http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=retrieve&db=pubmed&list_uids=17599938&dopt=AbstractPlus this article].
 +
 
 +
 
To obtain a pathway file that can be used in [http://www.genmapp.org GenMAPP], open the pathway in PathVisio (by clicking ''Edit pathway'' below the image) and go to ''File->export'' to save the pathway as .mapp file.
To obtain a pathway file that can be used in [http://www.genmapp.org GenMAPP], open the pathway in PathVisio (by clicking ''Edit pathway'' below the image) and go to ''File->export'' to save the pathway as .mapp file.
 +
 +
=== Actions ===
 +
* [{{SERVER}}{{SCRIPTPATH}}/wpi/wpi.php?action=launchCytoscape&pwTitle={{FULLPAGENAMEE}} Open in Cytoscape]
 +
=== Batch ===
=== Batch ===
Download all pathways as an archive of image or data files: [[Download_Pathways|Batch download page]]
Download all pathways as an archive of image or data files: [[Download_Pathways|Batch download page]]
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== Pathway Info ==
== Pathway Info ==
=== DataNodes ===
=== DataNodes ===
-
{{CheckAvailable|data={{ #pathwayInfo: {{PAGENAME}}|datanodes}}|msg=''No DataNodes in GPML file''}}
+
{{CheckAvailable|data={{ #pathwayInfo: {{PAGENAME}}|datanodes}}|msg=''No DataNodes''}}
-
 
+
-
<!-- don't show interactions for now
+
-
{{ #pathwayInfo: {{PAGENAME}}|interactions}}
+
-
-->
+

Revision as of 14:26, 7 January 2008

Contents

Download files

Image formats

Data formats

  • gpml (PathVisio)
    • PathVisio is a standalone pathway editor and data analysis tool. For more information, see this website.
  • mapp (GenMAPP)
  • pwf (Eu.Gene)
    • Eu.Gene Analyzer is a tool for pathway statistics. For more information, see this article.


To obtain a pathway file that can be used in GenMAPP, open the pathway in PathVisio (by clicking Edit pathway below the image) and go to File->export to save the pathway as .mapp file.

Actions

Batch

Download all pathways as an archive of image or data files: Batch download page

History

Error: exception 'Exception' with message 'Couldn't parse pathway identifier from title Template:PathwayPage:Bottom' in /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php:300 Stack trace:

  1. 0 /var/www/wikipathways/wpi/extensions/pathwayHistory.php(17): Pathway::newFromTitle(Object(Title))
  2. 1 [internal function]: history('', Array, Object(Parser))
  3. 2 /var/www/wikipathways/includes/parser/Parser.php(3287): call_user_func_array('history', Array)
  4. 3 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(982): Parser->extensionSubstitution(Array, Object(PPFrame_DOM))
  5. 4 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
  6. 5 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('== Download fil...')
  7. 6 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('== Download fil...')
  8. 7 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('== Download fil...', Object(Title), Object(ParserOptions), true, true, 9030)
  9. 8 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('== Download fil...', Object(Title), true, true)
  10. 9 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('== Download fil...', Object(Title), true)
  11. 10 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('== Download fil...')
  12. 11 /var/www/wikipathways/includes/DifferenceEngine.php(271): DifferenceEngine->renderNewRevision()
  13. 12 /var/www/wikipathways/includes/Article.php(729): DifferenceEngine->showDiffPage(false)
  14. 13 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
  15. 14 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
  16. 15 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
  17. 16 {main}

Pathway Info

DataNodes

Error: exception 'Exception' with message 'Couldn't parse pathway identifier from title PathwayPage:Bottom' in /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php:300 Stack trace:

  1. 0 /var/www/wikipathways/wpi/extensions/pathwayInfo.php(26): Pathway::newFromTitle('PathwayPage:Bot...')
  2. 1 [internal function]: getPathwayInfoText(Object(Parser), 'PathwayPage:Bot...', 'datanodes')
  3. 2 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('getPathwayInfoT...', Array)
  4. 3 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
  5. 4 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(1239): PPFrame_DOM->expand(Object(DOMElement), 4)
  6. 5 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(1247): PPTemplateFrame_DOM->getNamedArgument('data')
  7. 6 /var/www/wikipathways/includes/parser/Parser.php(3201): PPTemplateFrame_DOM->getArgument('data')
  8. 7 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(934): Parser->argSubstitution(Array, Object(PPTemplateFrame_DOM))
  9. 8 /var/www/wikipathways/includes/parser/Parser.php(2760): PPFrame_DOM->expand(Object(PPNode_DOM))
  10. 9 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPTemplateFrame_DOM))
  11. 10 /var/www/wikipathways/includes/parser/Parser.php(2986): PPFrame_DOM->expand(Object(PPNode_DOM))
  12. 11 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
  13. 12 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
  14. 13 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('== Download fil...')
  15. 14 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('== Download fil...')
  16. 15 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('== Download fil...', Object(Title), Object(ParserOptions), true, true, 9030)
  17. 16 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('== Download fil...', Object(Title), true, true)
  18. 17 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('== Download fil...', Object(Title), true)
  19. 18 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('== Download fil...')
  20. 19 /var/www/wikipathways/includes/DifferenceEngine.php(271): DifferenceEngine->renderNewRevision()
  21. 20 /var/www/wikipathways/includes/Article.php(729): DifferenceEngine->showDiffPage(false)
  22. 21 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
  23. 22 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
  24. 23 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
  25. 24 {main}
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