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.pa...@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. > >> ... >> >> 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? >> >> ... > > 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 -- 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 NOTICE AND DISCLAIMER This e-mail (including any attachments) is intended for the above-named person(s). If you are not the intended recipient, notify the sender immediately, delete this email from your system and do not disclose or use for any purpose. We may monitor all incoming and outgoing emails in line with current legislation. We have taken steps to ensure that this email and attachments are free from any virus, but it remains your responsibility to ensure that viruses do not adversely affect you. Cancer Research UK Registered in England and Wales Company Registered Number: 4325234. Registered Charity Number: 1089464 and Scotland SC041666 Registered Office Address: Angel Building, 407 St John Street, London EC1V 4AD. ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/