Hi,
I'm using pbs/torque with galaxy, without any issues. However, I'm not using the drmaa interface, but the pbs-egg. Have you tried that one?
See: http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Cluster#pbs_python_egg
after scrambling, I just set the following in universe: start_job_runners = pbs default_cluster_job_runner = pbs:///
and optionally per tool configurations: bowtie_wrapper = pbs:///batch/-l nodes=1:ppn=8,mem=2700mb/ bowtie_color_wrapper = pbs:///batch/-l nodes=1:ppn=8,mem=2700mb/ bowtie2 = pbs:///batch/-l nodes=1:ppn=8,mem=2700mb/ tophat = pbs:///batch/-l nodes=1:ppn=8,mem=2700mb/ bwa_wrapper = pbs:///batch/-l nodes=1:ppn=8,mem=3500mb/
I did not set any drmaa-settings !
I also made sure that the galaxy-user was able to submit jobs from the commandline using qsub.
geert
On 06/01/2012 09:52 AM, Marc Bras wrote:
Hi !!
I've got a problem with PBS when I want to submit a job to our cluster with Galaxy. Every time, PBS says me /*"pbs_submit failed, PBS error 15023: Bad user - no password entry".*/
Indeed, Galaxy uses my email address (used in Galaxy) as user by default ! But, before, when I used SGE on my previous lab, Galaxy used the galaxy owner user and not my email...
Is it possible to set the owner user as previous Galaxy version ? (I found the */"drmaa_external_*"/* session in universe but I don't really understand how to configure this part...).
Thanks a lot,
Best Regards
BRAS Marc
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