hi,
can you paste the configuration from your *universe_wsgi.ini* file.
With Regards,
----------------
Ambarish Biswas,
University of Otago
Department of Biochemistry,
Dunedin, New Zealand,
Tel: +64(22)0855647
Fax: +64(0)3 479 7866
On Fri, Jul 29, 2011 at 12:31 PM, Shantanu Pavgi <pavgi(a)uab.edu> wrote:
Thanks for the reply Ambarish. We are using SGE cluster and job submission
is done using drmaa.
--
Shantanu.
On Jul 28, 2011, at 7:24 PM, ambarish biswas wrote:
Hi,
you didn't specify what clustering method u r using. Are u using drmaa
or pbs?
With Regards,
----------------
Ambarish Biswas,
University of Otago
Department of Biochemistry,
Dunedin, New Zealand,
Tel: +64(22)0855647
Fax: +64(0)3 479 7866
On Fri, Jul 29, 2011 at 10:03 AM, Shantanu Pavgi <pavgi(a)uab.edu> wrote:
>
> We experienced an issue where some of the galaxy jobs were sitting in the
> 'new' state for a quite long time. They were not waiting for cluster
> resources to become available, but haven't been even queued up through
> DRMAA. We are currently using non-debug mode and following were my
> observations:
> * No indication of new jobs in paster.log file
> * database/pbs script didn't contain any associated job scripts
> * in backend database - job table contained their galaxy job id but no
> command_line input was recorded
>
> Also, not all the jobs are waiting in the 'new' state. Many jobs submitted
> after above waiting jobs got completed successfully on the cluster. Is there
> any job submission logic within galaxy which is being used for submitting
> jobs? Any clues on how to debug this issue will be really helpful.
>
> --
> Thanks,
> Shantanu.
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