Cluster:Using the F@C PBS script

From Earlham CS Department
Revision as of 14:10, 20 July 2005 by Skylar (talk | contribs)
Jump to navigation Jump to search
  • The F@C PBS script lives in /cluster/generic/bin/fatc_pbs.sh. To use it, you have to specify the number of nodes, the processors per node, the molecule, the database table name, and the test set label. You should also set redirection files for STDOUT and STDERR. Do so like this:

qsub -l nodes=n:ppn=m -v MOLECULE=molecule_name,TABLE_NAME=table,TEST_SET_LABEL=label -o out.txt -e err.txt /cluster/generic/bin/fatc_pbs.sh

  • Make the submission from the head node (probably a0, b0, or c0) of that cluster. Make sure that your current working directory is inside a fatc directory.
  • The log parsing is done from within the submission script, and is stuck in the fatc-testing database.
Retrieved from "https://wiki.cs.earlham.edu/index.php?title=Cluster:Using_the_F@C_PBS_script&oldid=406"