Roman Valls wrote:
Thanks indeed for the ~/.slurm_drmaa.conf hint Mariusz, very useful !
I wonder how this approach will work out when one runs galaxy as advised in a production setting:
http://usegalaxy.org/production
Together with the gordon patch to run drmaa as different users:
http://wiki.g2.bx.psu.edu/Events/GCC2011?action=AttachFile&do=get&ta...
My concern is that probably the SUID code will end up clearing up all the environment variables and/or ignoring the user's ~/.slurm_drmaa.conf as happened to me before with "screen":
http://superuser.com/questions/235760/ld-library-path-unset-by-screen
I'll jump in that Gordon patch/code eventually, but for now your insight/fixes have been very helpful from a galaxy developer instance perspective, thanks much again !
Hi Roman,
From the Galaxy side of things, you could add a new section to
universe_wsgi.ini as we do with tool_runners, and specify, perhaps, user_runners. This is parsed in lib/galaxy/config.py and implemented in lib/galaxy/tools/__init__.py. The correct place to do the per-user code might be in lib/galaxy/jobs/__init__.py itself, but I'm not sure how you'd resolve overlapping tool and user runners.
I'd also been working on more complex configuration of job parameters that would probably make what you want to do easier, but that work is stalled.
--nate
/Roman
On 2011-07-19 19:53, Mariusz MamoĊski wrote:
The general config file allows us to set a fixed project:
default_cluster_job_runner = drmaa://-A a2010002 -p core
And even set per-tool job settings. But we would like each user to have the ability to change those settings.
What is the least intrusive way to set per-user native (site-specific) job manager settings ?
you may try to use an user's local DRMAA configuration file:
~/.slurm_drmaa.conf
". If multiple configuration sources are present then all configurations are merged with values from user-defined files taking precedence (in following order: $SLURM_DRMAA_CONF, ~/.slurm_drmaa.conf, /etc/slurm_drmaa.conf)"
there you can put any user's specific settings, e.g.:
job_categories: { default: "-A a2010002 -p core", }
Cheers,
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