Jillian, We've connected our Galaxy instance to a slurm cluster via slurm-drmaa [1], and use the DRMAAJobRunner plugin configured according to the Galaxy admin wiki [2]. It works pretty well, but it should be noted that the nativeSpecification options slurm-drmaa makes available to you (that is, options like those you'd pass to sbatch) are *not* complete. For example, one of our IT guys just patched slurm-drmaa to add support for the --cpus-per-task option, which wasn't present in slurm-drmaa 1.0.7.
[1] http://apps.man.poznan.pl/trac/slurm-drmaa [2] https://wiki.galaxyproject.org/Admin/Config/Performance/Cluster#DRMAA On Mon, Mar 10, 2014 at 5:33 AM, Jillian Rowe <jir2...@qatar-med.cornell.edu> wrote: > Hello all, > > I would like to get galaxy to submit jobs to slurm using the drmaa. Galaxy > exists on its own machine, and slurm is run on a cluster. > > I am at a bit of a lose as to how to do this. I have galaxy installed and > working fine, and slurm works fine on its own. I saw a blog post detailing > how to get the two connected, but it seems like maybe it was outdated. > > Any tips? > > Best, > Jillian > ___________________________________________________________ > 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/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ -- Brian Claywell, Systems Analyst/Programmer Fred Hutchinson Cancer Research Center bclay...@fhcrc.org ___________________________________________________________ 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/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
