[galaxy-dev] Galaxy pbs scripts and job_working_directory files

2012-04-24 Thread Josh Nielsen
Hello again, As I mentioned in a recent post I often find need to debug jobs running from our local Galaxy mirror and I often have the need to look at the script data files that the job is trying to use in order to figure out what is causing a problem. The directories containing those file are

Re: [galaxy-dev] Galaxy pbs scripts and job_working_directory files

2012-04-24 Thread Dannon Baker
Josh, Check out the cleanup_job setting in universe_wsgi.ini(and included below). It sounds like 'cleanup_job = onsuccess' is exactly what you're looking for. -Dannon # Clean up various bits of jobs left on the filesystem after completion. These # bits include the job working directory,

Re: [galaxy-dev] Galaxy pbs scripts and job_working_directory files

2012-04-24 Thread Josh Nielsen
Ah, so this would just betray my ignorance of current features. :-) I'll give that a try! Thanks, Josh On Tue, Apr 24, 2012 at 4:09 PM, Dannon Baker dannonba...@me.com wrote: Josh, Check out the cleanup_job setting in universe_wsgi.ini(and included below). It sounds like 'cleanup_job =