Hi,
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). --> <job_conf> <plugins> <plugin id="drmaa" type="runner" load="galaxy.jobs.runners.drmaa:DRMAAJobRunner"/> <plugin id="local" type="runner" load="galaxy.jobs.runners.local:LocalJobRunner" workers="4"/> </plugins> <handlers> <handler id="main"/> </handlers> <destinations default="sge_default"> <!--destination id="big_jobs" runner="drmaa"> <param id="nativeSpecification">-P bignodes -R y -pe threads 8</param> </destination--> <destination id="sge_default" runner="drmaa"> <param id="nativeSpecification">-q all.q -V</param> </destination> <destination id="local" runner="local"/> </destinations> </job_conf>
Any help would be usefull.
Regards, Rem