Do you have some process that restarts Galaxy if it dies? It should not do
this itself. Is there anything being logged right before the server restarts
that indicates the problem?
On Oct 16, 2013, at 4:10 AM, Rémy Dernat wrote:
> About the last updates on DRMAA: now the job is submitted, it seems to work.
> However, galaxy is "restarting" constantly... So it became very unusable.
> 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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