prod_reproduction/202307-IDTWES/run_WES_cnv_call_L1.pbs

#!/bin/sh
#PBS -N WES_cnv_call
#PBS -j oe
#PBS -l ncpus=8
#PBS -l nodes=1
#PBS -l mem=20G

set -e
sams=(`cut -f1 $sam_list`)
panels=(`cut -f2 $sam_list`)
echo "Samples:" ${sams[*]}
echo $script_dir
echo "CNV_dir:" $cnv_dir

sh $script_dir/run_WES_cnv_call_L2.sh -x $script_dir -o $out_dir -p ${panels[${PBS_ARRAY_INDEX}]} -c $cnv_dir -s ${sams[${PBS_ARRAY_INDEX}]} &> $log.${sams[${PBS_ARRAY_INDEX}]}