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#!/bin/bash -
#===============================================================================
#
# FILE: submit_jobs.sh
#
# USAGE: ./submit_jobs.sh
#
# DESCRIPTION:
#
# OPTIONS: ---
# REQUIREMENTS: ---
# BUGS: ---
# NOTES: ---
# AUTHOR: Tung Nguyen
# ORGANIZATION:
# CREATED: 02/06/2015 02:21:40 PM CET
# REVISION: ---
#===============================================================================
set -o nounset # Treat unset variables as an error
if [ $# -ne 4 ]
then
echo "USAGE: $0 <number_of_threads> <cmd_file> <aln_dir> <out_dir>"
exit 1
fi
numThreads=$1
cmd_file=$2
aln_dir=$3
out_dir=$4
if [ -d $out_dir ]
then
rm -rf $out_dir
fi
mkdir $out_dir
cp ${aln_dir}/* $out_dir
cp $cmd_file $out_dir
cd $out_dir
submitCMD="submit2sge -N iqtree_system_test -s $numThreads \"../jobmanager.py -f $cmd_file -c $numThreads\""
#echo "../jobmanager.py -f $cmd_file -c $numThreads" | qsub -V -S /bin/bash -cwd -j y -r y -N iqtree_system_test -l zuseX -l cluster -pe threads 16 -q q.norm@zuse02
$submitCMD
cd ..
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