Last Modified: Wednesday, 03-Dec-2008 16:50:12 EST

Using CSB Batch Queues with SnB (provisional)

Fill out the name prefix and the number of processes to run. For example, the name prefix may be prot_xx and the number of trials 16.

Under Local, click Process Trials.

The result will be 16 files, prot_xx_0.dat thru prot_xx_15.dat. These are input files to the SnB executable, /srv/local/snb/new/linux/bin/snb.exe.

Create a command file to run these, eg, snb.com, and submit it with a command like

qsub -q medium -S /bin/bash snb.com

A sample snb.com file:

#!/bin/bash
exe="/srv/local/snb/new/linux/bin/snb.exe"
cd /path/to/your/snb/directory
for i in $(seq 0 15); do
   d=`date`
   f="prot_xx_"$i.dat
   echo "$d -- Starting process $i"
   $exe < $f
done
echo "SnB job is complete."

Last Modified: Wednesday, 03-Dec-2008 16:50:12 EST