Hi Peter, Thanks for your answer. No the galaxy machine is not a submitting node of the cluster. 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? Thanks. Anne. On 2 May 2012, at 21:26, Peter Cock wrote:
On Wed, May 2, 2012 at 7:18 PM, Anne Pajon <Anne.Pajon@cancer.org.uk> wrote:
Hi,
I am struggling at integrating galaxy with our cluster. I am currently running galaxy on a separate server machine from our LSF cluster. The DRMAA library has been installed on the cluster and I've re-installed galaxy into a shared file system visible and accessible from both the server and the cluster.
That's good - the shared file system is highly recommended.
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Am I right to think that there is no way to make the system works because I cannot currently configure galaxy to ssh into the cluster head node for submitting jobs to the scheduler?
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Is the Galaxy machine considered a submit node of the cluster? i.e. Can you submit/query/kill cluster jobs at the command line from the Galaxy server?
Peter
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