Hi!
This might be helpful: http://wiki.g2.bx.psu.edu/Admin/Config/Tool%20Dependencies Cheers, Sascha Original Message processed by CONSOLIDATE Subject: [galaxy-dev] How to configure samtools in galaxy on cluster Sent: Montag, 6. August 2012 19:39 From: michael xu (michael040...@gmail.com) Recently, I am trying to configure our galaxy on our cluster with PBS submission. I run galaxy locally very well on the head node, but I met one issue when I tried to configure galaxy on our cluster. In universe_wsgi.ini file, I added the following entries, start_job_runners = pbs default_cluster_job_runner = pbs:/// And then I run the command to generate an egg, LIBTORQUE_DIR=/usr/lib64/libtorque python scripts/scramble.py -e pbs_python --config=universe_wsgi.ini Then I run galaxy and submitted two jobs into the PBS queue. I checked the galaxy log and PBS queue and found these two jobs were submitted successfully. But after a while, galaxy told me that the two jobs were failed. I suspected I did not modify the galaxy:tool_runners section in the universe_wsgi.ini file. The node machines cannot find the 3rd party tools. Can anyone give me some advices? Thanks a lot!
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