Error trying to see the installed dependency in Galaxy for PICARD
Hi, I installed PICARD from the main tool shed in the latest update from galaxy-dist and when I clicked on the picard installed dependency link in the admin tool, I got this... Error Traceback: View as: Interactive | Text | XML (full) ⇝ TypeError: 'NoneType' object is not iterable URL: http://srv151/admin_toolshed/browse_tool_dependency?repository_id=a799d38679e985db&id=f597429621d6eb2b Module weberror.evalexception.middleware:364 in respond view
app_iter = self.application(environ, detect_start_response) Module paste.debug.prints:98 in __call__ view environ, self.app) Module paste.wsgilib:539 in intercept_output view app_iter = application(environ, replacement_start_response) Module paste.recursive:80 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.middleware.remoteuser:91 in __call__ view return self.app( environ, start_response ) Module paste.httpexceptions:632 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.base:160 in __call__ view body = method( trans, **kwargs ) Module galaxy.web.framework:206 in decorator view return func( self, trans, *args, **kwargs ) Module galaxy.webapps.galaxy.controllers.admin_toolshed:422 in browse_tool_dependency view tool_dependency.error_message = suc.to_safe_string( tool_dependency.error_message ) Module galaxy.util.shed_util_common:2138 in to_safe_string view for c in text: TypeError: 'NoneType' object is not iterable
Extra Features
Display the lines of code near each part of the traceback Show a debug prompt to allow you to directly debug the code at the traceback
I also found I always have to restart GALAXY after I install something from the toolshed otherwise I get this: Tool 'toolshed.g2.bx.psu.edu/repos/brad-chapman/bam_to_bigwig/bam_to_bigwig/0.1.0' does not exist, kwd={} I have to restart galaxy (updating the metadata in the admin does not fix this..) Any ideas? Thon
Hello Thon, Thanks for reporting this. This issue was corrected 2 weeks ago, but unfortunately just missed the cutoff for the last Galaxy release. It will be available in the next release currently planned for next week. Greg Von Kuster On Jan 3, 2013, at 6:18 PM, Anthonius deBoer wrote:
Hi,
I installed PICARD from the main tool shed in the latest update from galaxy-dist and when I clicked on the picard installed dependency link in the admin tool, I got this...
Error Traceback: View as: Interactive | Text | XML (full) ⇝ TypeError: 'NoneType' object is not iterable URL: http://srv151/admin_toolshed/browse_tool_dependency?repository_id=a799d38679e985db&id=f597429621d6eb2b Module weberror.evalexception.middleware:364 in respond view
app_iter = self.application(environ, detect_start_response) Module paste.debug.prints:98 in __call__ view environ, self.app) Module paste.wsgilib:539 in intercept_output view app_iter = application(environ, replacement_start_response) Module paste.recursive:80 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.middleware.remoteuser:91 in __call__ view return self.app( environ, start_response ) Module paste.httpexceptions:632 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.base:160 in __call__ view body = method( trans, **kwargs ) Module galaxy.web.framework:206 in decorator view return func( self, trans, *args, **kwargs ) Module galaxy.webapps.galaxy.controllers.admin_toolshed:422 in browse_tool_dependency view tool_dependency.error_message = suc.to_safe_string( tool_dependency.error_message ) Module galaxy.util.shed_util_common:2138 in to_safe_string view for c in text: TypeError: 'NoneType' object is not iterable
Extra Features
Display the lines of code near each part of the traceback Show a debug prompt to allow you to directly debug the code at the traceback
I also found I always have to restart GALAXY after I install something from the toolshed otherwise I get this:
Tool 'toolshed.g2.bx.psu.edu/repos/brad-chapman/bam_to_bigwig/bam_to_bigwig/0.1.0' does not exist, kwd={}
I have to restart galaxy (updating the metadata in the admin does not fix this..)
Any ideas?
Thon ___________________________________________________________ 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:
participants (2)
-
Anthonius deBoer -
Greg Von Kuster