This was recently brought up in a related thread by Nate, the code is in a pull 
request on bitbucket.  Changing the subject to see if that rings any additional 
bells…

Here's the original post by John Chilton and link to the fork:

http://galaxy-development-list-archive.2308389.n4.nabble.com/Defining-Job-Runners-Dynamically-td4141945.html
https://bitbucket.org/galaxy/galaxy-central/pull-request/12/dynamic-job-runners

chris

On Feb 17, 2012, at 9:28 AM, Carlos Borroto wrote:

> Hi Tanguy,
> 
> L-A is correct in that you can set using the tool id different cluster
> options for different tools. For example I submit different tools to
> different queues:
> default_cluster_job_runner = drmaa://-q all.q -V/
> upload1 = drmaa://-q short.q -V/
> tophat = drmaa://-q long.q -V/
> cufflinks = drmaa://-q long.q -V/
> 
> But I don't think this is what you want, as this is an one time
> setting that you can't change at runtime. I think there was some talk
> about dynamic DRMAA options base on the input size and tool, but can't
> tell what is the status on that feature.
> 
> Hope it helps,
> Carlos
> 
> 2012/2/17 Louise-Amélie Schmitt <louise-amelie.schm...@embl.de>:
>> Hi Tanguy,
>> 
>> You can set that at the very bottom of your universe_wsgi.ini file. I did it
>> myself with Torque to set a different behavior for a couple of tools, it
>> works fine. The related Wiki page is here:
>> http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Cluster :)
>> 
>> Best,
>> L-A
>> 
>> Le 17/02/2012 09:43, Tanguy LE CARROUR a écrit :
>> 
>> Hi!
>> 
>> Is there a way to specify parameters for the job submission on the
>> cluster from the tool configuration file?
>> 
>> Let's say I want tool A to be submitted with "-pe smp 8" but tool B
>> submitted with "-l mem_free=500".
>> 
>> Is it already supported? I could not find it in the wiki.
>> ... or do I have to start digging in the code and try to implement it?!
>> ^_^'
>> 
>> Best regards,
>> Tanguy
>> 
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