About the last updates on DRMAA: now the job is submitted, it seems to
work. However, galaxy is "restarting" constantly... So it became very
I hope you will fix this.
2013/10/14 Rémy Dernat <remy...@gmail.com>
> After a big upgrade, I have an error when I submit job to SGE through drmaa
> Here is the error I get:
> galaxy.jobs.runners.drmaa WARNING 2013-10-14 11:26:08,075 (15615/68154)
> job check resulted in InvalidJobException: code 18: The job specified by
> the 'jobid' does not exist.
> The job is launch to sge because I see it with "qstat" SGE command. On the
> galaxy Web interface, the job is stuck in yellow (running state), although
> it is finished.
> When I submit job by using "local" destination it works fine.
> Here is my job_conf.xml file :
> <?xml version="1.0"?>
> <!-- A sample job config that explicitly configures job running the way it
> is configured by default (if there is no explicit config). -->
> <plugin id="drmaa" type="runner"
> <plugin id="local" type="runner"
> load="galaxy.jobs.runners.local:LocalJobRunner" workers="4"/>
> <handler id="main"/>
> <destinations default="sge_default">
> <!--destination id="big_jobs" runner="drmaa">
> <param id="nativeSpecification">-P bignodes -R y -pe threads
> <destination id="sge_default" runner="drmaa">
> <param id="nativeSpecification">-q all.q -V</param>
> <destination id="local" runner="local"/>
> Any help would be usefull.
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