- #!/bin/sh
- #PBS -N FMBY2_prep
- #PBS -j oe
- #PBS -l ncpus=8
- #PBS -l nodes=1
- #PBS -l mem=10G
- set -e
- sams=(`cut -f1 $sam_list`)
- panels=(`cut -f2 $sam_list`)
- echo "script_dir:$script_dir"
- echo "Samples:" ${sams[*]}
- echo "panels:" ${panels[*]}
- sh $script_dir/run_FMBY2_prep_L2.sh -i $fq_dir -o $out_dir -x $script_dir -c $cnv_dir -p ${panels[${PBS_ARRAY_INDEX}]} -s ${sams[${PBS_ARRAY_INDEX}]} &> $log.${sams[${PBS_ARRAY_INDEX}]}
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