On Fri, Apr 8, 2011 at 10:26 AM, Nate Coraor <n...@bx.psu.edu> wrote: > Assaf Gordon wrote: > >> Forgot to mention SGE/PBS: you definitely want to use them (even if you're >> using a single machine), >> because the local job runner doesn't take into account multi-threaded >> programs when scheduling jobs. >> So another core is needed for the SGE scheduler daemons (sge_qmaster and >> sge_execd). > > I haven't tested, but it's entirely possible that the SGE daemons could > happily share cores with other processes. I'd be surprised if they > spent a whole lot of time on-CPU.
We run SGE for NGS and do not find a need to set aside cores for the daemons. That said, if you do have an active cluster (more than a couple of machines), the SGE master node does benefit from having a core set aside. Sean > A cluster runner is recommended for other reasons, too - restartability > of the Galaxy process is one of the big ones. > > --nate > ___________________________________________________________ > 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/ > ___________________________________________________________ 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/
