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. Anne. 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 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/