Hello
Using the previous version of Galaxy (before the 16.01) we were able to use PBS Pro as job management system.
It was ok using PBS (/opt/pbs/12.2.4.142262) and DRMAA (pbs-drmaa-1.0.17). This only thing to do was to truncate the job name that Galaxy send to PBS. Indeed, in the file lib/galaxy/jobs/runners/__init__.py you need to add : self.job_name = self.job_name[:15] in the AsynchronousJobState class otherwise PBS will reject the job.
Using the current version of Galaxy, this is not enough. You will need to change another file : lib/galaxy/jobs/runners/drmaa.py
And change jt.jobName = ajs.job_name to jt.jobName = ajs.job_name[:15] in the DRMAAJobRunner class (around line 140)
You will then avoid this error :
galaxy.jobs.runners.drmaa ERROR 2016-03-24 15:23:23,880 (18) drmaa.Session.runJob() failed unconditionally Traceback (most recent call last): File "/softs/bioinfo/galaxy-prod/lib/galaxy/jobs/runners/drmaa.py", line 181, in queue_job external_job_id = self.ds.runJob(jt) File "/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/site-packages/drmaa/session.py", line 314, in runJob c(drmaa_run_job, jid, sizeof(jid), jobTemplate) File "/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/site-packages/drmaa/helpers.py", line 299, in c return f(*(args + (error_buffer, sizeof(error_buffer)))) File "/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/site-packages/drmaa/errors.py", line 151, in error_check raise _ERRORS[code - 1](error_string) InvalidAttributeValueException: code 14: Illegal attribute or resource value: Illegal attribute or resource value galaxy.jobs.runners.drmaa ERROR 2016-03-24 15:23:23,883 (18) All attempts to submit job failed
I hope this will help if you plan to use Galaxy over PBS Pro. We currently used PBS 12.2.4.142262, DRMAA 1.0.19 and the latest galaxy (after a git pull command)
Fred
--- Frederic Sapet Bioinformatics Research Engineer BIOGEMMA - Upstream Genomics Group Centre de Recherche de Chappes CS 90126 63720 CHAPPES FRANCE Tel : +33 (0)4 73 67 88 54 Fax : +33 (0)4 73 67 88 99 E-mail : frederic.sapet@biogemma.commailto:frederic.sapet@biogemma.com