On Fri, Nov 16, 2012 at 2:35 PM, Joshua Orvis <jor...@gmail.com> wrote:
> If I removed that line how is it still part of the call? Is Galaxy caching
> the xml tool files?
Did you restart Galaxy? Tool configuration files are read at startup.
You can also force a tool to be reloaded in the admin interface.
> Also, is there a way to see the precise commands being
> executed by Galaxy for any particular tool?
These are logged at the debug level, either to the console or
paster.log depending on how you start Galaxy.
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