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.
> ___________________________________________________________
> Please keep all replies on the list by using "reply all"
> in your mail client.  To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>
>  http://lists.bx.psu.edu/
>
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

  http://lists.bx.psu.edu/

Reply via email to