On Wed, Nov 7, 2012 at 9:52 AM, Oleksandr Moskalenko om@hpc.ufl.edu wrote:
On Nov 7, 2012, at 9:47 AM, greg margeemail@gmail.com wrote:
Thanks, but I'm confused. How will the cluster jobs galaxy submits know to use the virtual env?
Or since all jobs are submitted as the galaxy user it will have the correct one?
-Greg
Greg,
You can configure the environment for batch jobs in the file specified in the "environment_setup_file =" configuration directive.
You can do this or at least for SGE you can also use '-V' while configuring your job runner URL. drmaa://-V -q all.q/
Hope it helps, Carlos