#!/bin/bash
#
# Script Name : ssub
# Purpose : PBS serial batch job submission with command line input executables
#           generated with default compiler. On our system, gcc is the 
#           system default compiler. User may use "module" to choose
#           the default compiler. ( a companion jsubi is written 
#           specifically for executables created with Intel compiler;
#           if intel compiler is chosen as default compiler via "module",
#           jsub and jsubi would be fully equivalent)
#           The problem with directly submitting a batch job thru PBS qsub
#           is the fact that qsub does not accept command line input other
#           than a run script. As a result, unless you always runs the same
#           executable with same runtime and same number of processors, you
#           will inevitably have to create many runscripts to cater to 
#           different situations.
#           This script circumvene that by acting as an interface. Running of
#           this script, which accepts command line input, such as exec name,
#           number of processors, etc., and generate a temp script that 
#           include all those command line input into the script and submit 
#           it via qsub. This temp script is called "ssub.USERID", where USERID
#           is the user's own ID.
# Usage:
# cootie % ssub exec-name [-l walltime=xx:xx:xx ...]
# 
# Example:
# cootie % ssub ../../a.out '-l walltime=00:30:00'
#
# The output files from using this script are:
# 1) ssub.USERID -- the temp script 
# 2) ssub.USERID.ennnnn -- PBS error file
# 3) ssub.USERID.onnnnn -- PBS output file
# 4) ssub.USERID.out -- stdout file (output to "terminal")
#
# Author : Kadin Tseng, SCV, Boston University
# Date   : April 23, 2005

if [ $# -ge 1 ] 
then
script="ssub.${USER}"
MYCODE=$1
echo "#!/bin/bash" > $script
echo "cd \$PBS_O_WORKDIR" >> $script
echo "$MYCODE > ssub.${USER}.out" >> $script
echo "exit 0" >> $script
chmod +x $script
qsub $script $2
else
  echo "Usage: ssub a.out ['optional PBS parameters']"
fi