Looks like I'll have to try again. Maybe with a more general question (?)
When you're debugging tools, how do you get Galaxy to tell you what the tool is doing? My tool doesn't work properly, but paster.log just shows a line for the request. It doesn't say anything about what tool_runner is trying to do.
In short, how do you debug tools?
Thanks
--Mark Johnson NCBI
Mark,
Do you have 'use_interactive' enabled (set to 'True') in universe_wsgi.ini? Also, have you clicked on the the bug icon? This shows the STDOUT and STDERR of the tool, if it was not redirected.
David Hoover Helix Systems, CIT, NIH
On Mar 23, 2012, at 2:16 PM, David Hoover wrote:
Mark,
Do you have 'use_interactive' enabled (set to 'True') in universe_wsgi.ini? Also, have you clicked on the the bug icon? This shows the STDOUT and STDERR of the tool, if it was not redirected.
If the tool doesn't fail but produces incorrect results (i.e. isn't red), the first 32K of the STDOUT and STDERR are also available on the dataset's information page (the 'i' icon in a history dataset).
--nate
David Hoover Helix Systems, CIT, NIH ___________________________________________________________ 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:
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Nate Coraor