setting up Galaxy for torque pbs

classic Classic list List threaded Threaded
1 message Options
| Threaded
Open this post in threaded view
|

setting up Galaxy for torque pbs

Ketan Maheshwari
Hi,

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/libtorque.so.2 python scripts/scramble.py -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?

Thanks,
--
Ketan


___________________________________________________________
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/