[GE users] merging stdout

magawake magawake at gmail.com
Wed Nov 12 11:56:39 GMT 2008


Basically,

when I do qsub -t 1000-1049 main.sh
(50 array jobs)

I also need to do a

$ ./combine (PREVIOUS_JOB_ID)

And I would like to do this once main.sh is completed and all in one shot.




On Wed, Nov 12, 2008 at 5:51 AM, reuti <reuti at staff.uni-marburg.de> wrote:
> Am 12.11.2008 um 04:17 schrieb magawake:
>
>> I have an array job which basically creates 10 separate outputs foo.
>> ($SGE_JOB).($TASK_ID)
>>
>> What I do after the job is, "./combine $SGE_JOB"
>
> What about submitting this as a followup job:
>
> qsub -hold_jid <JOB_ID_OF_THE_ARRAY_JOB> combine
>
> It will wait (i.e. being on hold), until all tasks have finished.
>
> -- Reuti
>
>
>> WHich basically, take all the TASK_ID in order and then merges them
>> in order. Order is important.
>>
>>
>> But I have to have a separate script in "combine". I would instead
>> just like to do a taskwait, on ./combine process but I would like
>> to preserver the $SGE_JOB on a separate process. Is that possible
>> to do? Is there any example anywhere?
>>
>> TIA
>>
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