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 <pa...@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 <pa...@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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>
>
>
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