Re: [galaxy-dev] Test ToolShed repository_dependencies.xml processing
Peter, Thank you for reporting this issue, it has been fixed in 10253:27b458743a11, and the test tool shed has been updated to that revision. --Dave B. On 7/23/13 12:29:34.000, Peter Cock wrote: On Tue, Jul 23, 2013 at 5:20 PM, Peter Cock wrote: Hi Gred, I'm trying to update this repository (initially just to switch my README file to reStructuredText as the current plain text is not being rendered nicely): http://testtoolshed.g2.bx.psu.edu/view/peterjc/get_orfs_or_cdss Uploading my new tar-ball failed: Internal Server Error Galaxy was unable to sucessfully complete your request URL: http://testtoolshed.g2.bx.psu.edu/upload/upload?repository_id=8067bb858e9138ab ... Same again for http://testtoolshed.g2.bx.psu.edu/view/peterjc/seq_rename which uses the same repository_dependencies.xml file. Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] Test ToolShed repository_dependencies.xml processing
On Tue, Jul 23, 2013 at 5:20 PM, Peter Cock wrote: > Hi Gred, > > I'm trying to update this repository (initially just to switch my > README file to reStructuredText as the current plain text is > not being rendered nicely): > http://testtoolshed.g2.bx.psu.edu/view/peterjc/get_orfs_or_cdss > > Uploading my new tar-ball failed: > > Internal Server Error > Galaxy was unable to sucessfully complete your request > > URL: > http://testtoolshed.g2.bx.psu.edu/upload/upload?repository_id=8067bb858e9138ab > ... Same again for http://testtoolshed.g2.bx.psu.edu/view/peterjc/seq_rename which uses the same repository_dependencies.xml file. Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
[galaxy-dev] Test ToolShed repository_dependencies.xml processing
Hi Gred, I'm trying to update this repository (initially just to switch my README file to reStructuredText as the current plain text is not being rendered nicely): http://testtoolshed.g2.bx.psu.edu/view/peterjc/get_orfs_or_cdss Uploading my new tar-ball failed: Internal Server Error Galaxy was unable to sucessfully complete your request URL: http://testtoolshed.g2.bx.psu.edu/upload/upload?repository_id=8067bb858e9138ab Module galaxy.web.framework.middleware.error:149 in __call__ >> app_iter = self.application(environ, sr_checker) Module paste.debug.prints:106 in __call__ >> environ, self.app) Module paste.wsgilib:543 in intercept_output >> app_iter = application(environ, replacement_start_response) Module paste.recursive:84 in __call__ >> return self.application(environ, start_response) Module paste.httpexceptions:633 in __call__ >> return self.application(environ, start_response) Module galaxy.web.framework.base:132 in __call__ >> return self.handle_request( environ, start_response ) Module galaxy.web.framework.base:190 in handle_request >> body = method( trans, **kwargs ) Module galaxy.web.framework:98 in decorator >> return func( self, trans, *args, **kwargs ) Module galaxy.webapps.tool_shed.controllers.upload:120 in upload >> self.upload_tar( trans, repository, tar, uploaded_file, upload_point, >> remove_repo_files_not_in_tar, commit_message, new_repo_alert ) Module galaxy.webapps.tool_shed.controllers.upload:341 in upload_tar >> altered, root_elem = commit_util.handle_repository_dependencies_definition( >> trans, uploaded_file_name ) Module tool_shed.util.commit_util:243 in handle_repository_dependencies_definition >> raise Exception( exception_message ) Exception: The repository_dependencies.xml file contains an invalid tag. The tag is missing the required name attribute. The tag is missing the required owner attribute. The XML does have a name tag, it deliberately omits the ToolShed and revision as I want these fields to be auto-filled: $ more repository_dependencies.xml Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
