#!/bin/bash

xmx=4g

progname=SingleCellRnaSeqMetricsCollector
jar_deploy_dir=`dirname $0`/jar

USAGE=$(cat << EOF
USAGE: $0 [-m <jvm_heap_size>] program args...
       -m <jvm_heap_size> (default $xmx)
    
To get help for the program rather than the script:
   $0 -- -h
EOF
)

function usage () {
    echo "$USAGE" >&2
}

set -e

while getopts ":m:" options; do
  case $options in
    m ) xmx=$OPTARG;;
    h ) usage
          exit 1;;
    \? ) usage
         exit 1;;
    * ) usage
          exit 1;;

  esac
done
shift $(($OPTIND - 1))

java -Xmx${xmx} -jar $jar_deploy_dir/dropseq.jar $progname $*