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Copy pathrun_script_library.sh
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run_script_library.sh
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#!/bin/sh
MOTIFS="SMAD3_02"
COUNTER="1"
for run_counter in {1..10}
do
COUNTER="$run_counter"
for motif_name in $MOTIFS
do
cat <<EOS | msub -
#!/bin/bash
#MSUB -A p20519
#MSUB -M [email protected]
#MSUB -e seqGen_error_file.err
#MSUB -o seqGen_log_file.log
#MSUB -l walltime=24:00:00
#MSUB -l nodes=1:ppn=1
#MSUB -j oe
#MSUB -m bae
#MSUB -V
#MSUB -N ${motif_name}_${COUNTER}
module load boost
module load gcc
module load utilities
/home/jjw036/SequenceGenerator/bin/seqGen /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_10000000.txt /home/jjw036/SequenceGenerator/TRANSFAC2FIMO.txt $motif_name 10000000 50
7za a -t7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}.7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_10000000.txt
rm /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_10000000.txt
/home/jjw036/SequenceGenerator/bin/seqGen /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_1000000.txt /home/jjw036/SequenceGenerator/TRANSFAC2FIMO.txt $motif_name 1000000 50
7za a -t7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}.7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_1000000.txt
rm /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_1000000.txt
/home/jjw036/SequenceGenerator/bin/seqGen /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_100000.txt /home/jjw036/SequenceGenerator/TRANSFAC2FIMO.txt $motif_name 100000 50
7za a -t7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}.7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_100000.txt
rm /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_100000.txt
/home/jjw036/SequenceGenerator/bin/seqGen
/projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_10000.txt /home/jjw036/SequenceGenerator/TRANSFAC2FIMO.txt $motif_name 10000 50
7za a -t7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}.7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_10000.txt
rm /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_10000.txt
/home/jjw036/SequenceGenerator/bin/seqGen /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_1000.txt /home/jjw036/SequenceGenerator/TRANSFAC2FIMO.txt $motif_name 1000 50
7za a -t7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}.7z /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_1000.txt
rm /projects/p20519/jia_output/SequenceGenerator/${motif_name}_${COUNTER}_1000.txt
EOS
done
jobs_running=true
done