create_job

while getopts 'n:t:P:l:q:d:' flag; do
     case "${flag}" in
            n) gpus=${OPTARG} ;;
            t) time=${OPTARG} ;;
            P) proj=${OPTARG} ;;
	    l) largs=${OPTARG} ;;
	    q) queue=${OPTARG} ;;
            d) dir=${OPTARG} ;;
            *) echo invalid flag -$flag; exit 1 ;;
    esac
done

if [ -z $dir ];
then
    echo "store in current dir"
    dir=$PWD
fi


if [ -z $proj ];
then
    echo "#1st arg not provided for proj. Set default $PROJECT"
    proj=$PROJECT
fi

if [ -z $gpus ];
then
    gpus=1
    echo "#2st arg not provided for gpus. Set default 1"
fi

if [ -z $time ];
then
    time=00:40:00
    echo No -t. Default length: $time
fi

if [ -z $largs ];
then
    echo no args
    largs=""
else
    largs=",${largs}"
fi

if [ -z $queue ];
then
    echo No Queue type. Use default gpuvolta
    queue="gpuvolta"
fi

if [ "$queue" != "gpuvolta" ];
then
	echo play non-gpu jobs
	gpus=0
	ncpus=1
else
	ncpus=$(expr $gpus \* 12)
fi

if test -f "$dir/job.sh"; then
   while true; do
   read -p "$dir/job.sh exists. Do you want to overwrite it? (y/n)" yn
   case $yn in
	[nN] ) echo exit; exit;;
	[yY] ) rm $dir/job.sh; break;;
	* ) echo invalid respnse;;
   esac
   done
fi

echo write to $dir/job.sh

{
echo '#!/bin/bash'
echo "#PBS -P $proj"
echo "#PBS -q $queue"
echo "#PBS -l ncpus=${ncpus}"
echo "#PBS -l ngpus=$gpus"
echo "#PBS -l mem=64GB"
echo "#PBS -l storage=scratch/sz65"
echo "#PBS -l walltime=${time}"

for i in ${largs//,/ }
do 
	echo "#PBS -l $i"
done
echo 'args=$(echo ${args}| envsubst)'
echo 'args=${args//|/ }'
echo 'echo $args'
echo "cd $dir"

} >> $dir/job.sh

echo done!