On Feb 6, 2012, at 1:05 PM, Nate Coraor wrote:
On Feb 3, 2012, at 7:30 AM, Peter Cock wrote:
On Fri, Feb 3, 2012 at 11:55 AM, Ryan Golhar <ngsbioinformatics@gmail.com> wrote:
'qstat -f | grep jobname' will give you the full jobname without truncation.
Sadly not on our version of SGE - which appears to be SGE 6.2u5 - you get a bit more information but the job name is still truncated as before.
Personally, I think the qstat reporting gives too little information.
I agree.
Try qstat -j <job_id>
I've written a perl script to parse the output of qstat -f to give a bit more information. So truncation of jobnames for qstat shouldn't be an issue.
Maybe you're right that it is possible to interrogate SGE for the full name, but I still think Galaxy's job names could be more informative.
This was implemented for the PBS runner, I've carried over the format from that to the DRMAA runner in e4d1dd3bdd0d. The format is:
g<job_id>_<tool_id>_<user_email>
Correction, you'll need 74b6319b38b4 since the only valid characters in a DRMAA job name are alphanumeric or underscores.
--nate
Regards,
Peter
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