I copied the HTML into a new document, opened it, and copied the stacktrace produced by Galaxy - it looks like this: Internal Server Error Galaxy was unable to successfully complete your request URL: http://galaxy.web.pasteur.fr/api/tools?key=c23d8cb98671911813305051710d4ae1 Module galaxy.web.framework.middleware.error:149 in __call__
app_iter = self.application(environ, sr_checker) Module paste.recursive:84 in __call__ return self.application(environ, start_response) Module galaxy.web.framework.middleware.remoteuser:96 in __call__ return self.app( 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:201 in decorator log.exception( 'Uncaught exception in exposed API method:'+ str(err),exc_info=True) TypeError: exception() got an unexpected keyword argument 'exc_info'
So what is happening here is and error is occurring when Galaxy is trying to log another error - causing the API to break down. I don't think the newest release of Galaxy has this line: log.exception( 'Uncaught exception in exposed API method:'+ str(err),exc_info=True) I am not sure what exc_info is - but it looks like it shouldn't be there. You may want to remove that and see if you get a cleaner error message that is easier to interpret. Hope this helps. -John On Fri, Feb 21, 2014 at 3:50 AM, Olivia Doppelt <olivia.doppelt@pasteur.fr> wrote:
Dear Developers,
I would like to use bioblend to export the result of a galaxy workflow.
To do that, we want to use an implemented tool called export_data; which enables the copy of a result file from galaxy arborescence to a local directory which belong to the user making the analysis and the export.
We tried to launch this tool using the run_tool function but it doesn't work.
giOlivia.tools.run_tool(history_id='xxxxxxxxxxx',tool_id='yyyyyyyy/export_data/export/2.2',tool_inputs={'input':'id_data','name':"data"})
I get an error message which is very long and attached to this email.
Please help me on that it is the final step of several ones using bioblend.
Have a nice day,
-- Olivia Doppelt-Azeroual, PhD Tel: 92 15 CIB - Institut Pasteur
___________________________________________________________ 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/