Hi Peter,

Thanks for the clarification, it is really helpful.

Would you mind sharing what needs to be done in term of configuration and 
instalation to transform the galaxy server into a submitting job to the 
cluster? Thanks.


On 2 May 2012, at 21:51, Peter Cock wrote:

> On Wed, May 2, 2012 at 9:40 PM, Anne Pajon <anne.pa...@cancer.org.uk> wrote:
>> Hi Peter,
>> Thanks for your answer.
>> No the galaxy machine is not a submitting node of the cluster.
> That's probably the problem then :)
>> So I suppose I do have those two options:
>> (1) making the galaxy server a submitting node to the cluster
>> or
>> (2) install and run galaxy on a cluster node
>> What would be best? Any suggestions? If (1), any ideas on
>> what needs to be installed?
> We went with (1), partly for historical admin reasons of
> machine ownership - but also this avoided having a single
> critical point with one machine running both Galaxy and
> being our cluster head node (since the cluster isn't just
> used for Galaxy jobs).
> Regarding (2), I don't think you want Galaxy running on a
> cluster compute node - Galaxy isn't that computationally
> demanding but I wouldn't want the same machine to also
> be running general cluster jobs. Consider a rogue job
> submitted to the cluster which consumes too much RAM
> and brings the node down - that can be annoying, but it
> would be painful if this also killed your Galaxy server.
> It might make sense to put Galaxy on your cluster head
> node - which might make sharing the data drive simpler
> too, depending on how your cluster is setup.
> Peter

Anne Pajon, Ph.D.
Cancer Research UK - Cambridge Research Institute
Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE
anne.pa...@cancer.org.uk | +44 (0)7958 511 353

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