setting up Galaxy for torque pbs

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setting up Galaxy for torque pbs

Ketan Maheshwari

I am trying to set up Galaxy to interface with a Cray system which runs Torque/PBS.

I was able to scramble torque egg with the following command:

LIBTORQUE_DIR=/opt/torque/2.4.11/lib/ python scripts/ -e pbs_python

I do not fully understand the "parameters and configuration" part in PBS section of the wiki page. Where exactly the "runner" XML snippet with <plugin> and <destinations> should be placed? 

Also wondering if the snippet will be required for all tools that I want to run on compute nodes or is it a global setting? Can I tell existing tools to use this setup? 

Another question is, can I configure Galaxy to submit jobs to compute cluster as a mortal user and not an admin of the system?


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