Thanks for your answer. I will try this.
But I must say I don't like this new style very much. I need to create an extra destination for
every paramater set. This blows up the configuration a lot.
regards, Andreas
On 21.05.2013 17:22, Björn Grüning wrote:
Hi Andreas,
try something like the following:
<destination id="20cores_10G" runner="drmaa">
<param id="nativeSpecification">-l h_vmem=10G -pe "*" 20</param>
</destination>
Hope that helps,
Björn
Hi,
I recently updated our local galaxy instance first time after a few month.
Afterwards I noticed that
the way to setup job runners has changed from single lines to an extra XML-file.
I now started to write a job_conf.xml but I don't understand where I put the
parameters for GridEngine.
I already read http://wiki.galaxyproject.org/Admin/Config/Jobs but seem to have
missed this info.
For example in the old style I have lines like
velveth = drmaa://-l h_vmem=25G/
In the new style I would write
"
...
<destinations>
<destination id="cluster" runner="drmaa"/>
</destinations>
<tools>
<tool id="velveth" destination="cluster"/>
</tools>
...
"
But where do I put the "-l h_vmem"?
regards, Andreas
--
Andreas Kuntzagk
SystemAdministrator
Berlin Institute for Medical Systems Biology at the
Max-Delbrueck-Center for Molecular Medicine
Robert-Roessle-Str. 10, 13125 Berlin, Germany
http://www.mdc-berlin.de/en/bimsb/BIMSB_groups/Dieterich
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