You can submit a job that has a hold placed on it based on your pipeline, whose only purpose is to email you when your pipeline finishes.
qsub -m e -M <user-email> -hold_jid $(qsub -terse pipeline_job) completion_job or, with an array job, which submits job ids as <jobid>.1-<array_size>:?, you can hold on the whole array job qsub -m e -M <user-email> -hold_jid $(qsub -terse -t 1-<pipeline #> pipeline_job | cut -d'.' -f1) completion_job I often do clean up and check for error files in the completion_job. John. On Wed, Jul 16, 2014 at 6:05 AM, Paolo Di Tommaso <paolo.ditomm...@gmail.com> wrote: > Hi Txema, > > My point is not to disable them but how to get the notification by using a > different "transport" other than email. I would like that information to a > file or a socket. > > p > > > On Wed, Jul 16, 2014 at 11:55 AM, Txema Heredia <txema.llis...@gmail.com> > wrote: >> >> Hi Paolo, >> >> you can disable mails on all but the very last job of the pipeline by >> using -m b|e|a|s|n. >> >> There has been discussions on the list on mechanisms to send all emails to >> the local linux user (not an email address) and send "packages of mails" >> every day or so, but I can't remember any definitive way to work this out. >> >> Txema >> >> El 16/07/14 11:30, Paolo Di Tommaso escribió: >> >> Hi, >> >> SGE can send job notification via email by using the -M command line >> option. >> >> This useful when you are submitting few jobs but not for complex pipeline >> crunching thousand of jobs. >> >> I'm wondering if SGE can send these notifications by using other mechanism >> e.g. writing to a file, socket, http, etc. >> >> >> Thanks, >> Paolo >> >> >> >> _______________________________________________ >> users mailing list >> users@gridengine.org >> https://gridengine.org/mailman/listinfo/users >> >> >> >> _______________________________________________ >> users mailing list >> users@gridengine.org >> https://gridengine.org/mailman/listinfo/users >> > > > _______________________________________________ > users mailing list > users@gridengine.org > https://gridengine.org/mailman/listinfo/users > _______________________________________________ users mailing list users@gridengine.org https://gridengine.org/mailman/listinfo/users
