On May 10, 2012, at 11:02 AM, Nate Coraor wrote:

> On May 3, 2012, at 3:42 PM, Dorset, Daniel C wrote:
> 
>> I have had Galaxy running on a local BAS, and after success with that we’re 
>> ready to create an instance on our local cluster computing service. The 
>> local cluster uses PBS/Torque.
>> 
>> I’m familiar with the basics of configuration, but our particular scheduler 
>> rewards those who specify accurate walltimes. I would like to be able to 
>> define specific walltimes for each tool. I’m mapping out a strategy for how 
>> best to specify accurate walltimes. For instance, if someone is running 
>> tophat, it will take longer if they’re mapping against a complex reference 
>> genome like human, as opposed to nematode. I’d like to use different 
>> walltimes to account for that.
>> 
>> Is there anyone who has tackled this and would be willing to share their 
>> approach with me?
> 
> Hi Dan,
> 
> This doesn't currently exist in Galaxy, but John Chilton at UMN has written 
> enhancements that do what you're looking for:
> 
>  
> https://bitbucket.org/galaxy/galaxy-central/pull-request/12/dynamic-job-runners
> 
> Unfortunately the patches no longer apply cleanly against galaxy-central, but 
> I will work on getting them integrated soon.
> 
> --nate

That would be really nice for our local users as well.  I think the current 
hack around this was to have two versions of the same tools, configured 
differently, which is definitely suboptimal.

chris
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