Nice to see you over here :) I just managed to fix my own issues with
the "module system" this morning, maybe it'll be useful for you:
But that would probably require more work on your side (a.k.a, setting
$ module list
No Modulefiles Currently Loaded.
mkdir -p $HOME/opt/mypython/lib/python2.6/site-packages
easy_install-2.6 --prefix=~/opt/mypython pip
pip install virtualenvwrapper --install-option="--prefix=~/opt/mypython"
mkvirtualenv --python=python2.6 --no-site-packages galaxy_env
That should create an isolated python environment for you, hopefully not
affected by the environment pollution that the module system typically does.
Again, good job with the SLURM integration ! ;)
PD: Have a look at the message that appeared just after your's (Passing
username to drmaa.py) ;)
On 2011-06-15 13:16, Martin Dahlö wrote:
> Hello there
> I am working on getting galaxy to work with the slurm queuing system.
> I think i have solved the slurm part of the problem (submit, status,
> running etc), but some local problems still exist. Our site is using
> the modules system (http://modules.sourceforge.net/) to handle
> software, and there are some kinks to work out with that, but as far
> as i can see, the slurm is working.
> It is still a work in progress, but i think it could be useful for
> other people who are trying to do the same thing. All the adaptations
> are at the moment very specific for our site, but I hope to make it
> possible to integrate it with the vanilla galaxy.
> I have a short description of what i have done at this blog:
> A bitbucket for the code can be found here:
> Best regards
> Martin Dahlö
> Bioinformatic support
> +46 18 611 59 59
> +46 706 70 79 55
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Please keep all replies on the list by using "reply all"
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