On May 12, 2011, at 3:43 PM, Nate Coraor wrote:

> Shantanu Pavgi wrote:
>> 
>> I need some help in configuring galaxy with SGE scheduler using unified 
>> method. The galaxy is running on a system distinct from SGE scheduler 
>> install. The cluster nodes can access galaxy install, galaxy-tools and 
>> dataset files using NFS. I am not sure how drmaa works and how galaxy 
>> submits jobs to the cluster/scheduler. Do we need specify some type of 
>> connection string or ssh-config to connect with the cluster/scheduler? Does 
>> it need any configuration changes on the SGE scheduler side? Any explanation 
>> regarding this will be really helpful. 
> 
> Hi Shantanu,
> 
> You'll need to locate your drmaa library, it can be found wherever SGE
> is installed.  For example, if SGE is installed for 64-bit Linux in
> /galaxy/sge, then the drmaa library should be located at:
> 
>  /galaxy/sge/lib/lx24-amd64/libdrmaa.so.1.0
> 
> Once you have the path, do the following (adjusting the value for the
> path to libdrmaa.so.1.0 at your site):
> 
>  export DRMAA_LIBRARY_PATH=/galaxy/sge/lib/lx24-amd64/libdrmaa.so.1.0
> 
> Then in universe_wsgi.ini, set:
> 
>  start_job_runners = drmaa
>  default_cluster_job_runner = drmaa:///
> 
> This should be all you need.
> 


Just want to confirm SGE configuration again. As mentioned earlier we started 
with a separate galaxy VM without any SGE installation. The SGE master node is 
installed on a separate system altogether. As I understand from your reply, we 
will need to install SGE on the galaxy VM first and configure it as a submit 
host with the main SGE master node. Is that correct? Are their any alternative 
approaches?  

--
Thanks,
Shantanu.


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