set -e

export CLAS12DIR=${CLARA_HOME}/plugins/clas12

export PATH=${PATH}:$CLAS12DIR/bin

unset CLARA_MONITOR_FE

inputdir=.

outputdir=.

threads=2

usage="asdf"

info="qwer"

while [[ $# -gt 0 ]]; do

case $1 in

-h) echo -e "\n$usage" && echo -e "\n$info" && exit 1 ;;

-i) inputdir="$2" && shift && shift ;;

-o) outputdir="$2" && shift && shift ;;

-t) threads="$2" && shift && shift ;;

-n) nevents="$2" && shift && shift ;;

-y) yaml="$2" && shift && shift ;;

-*|--*) echo -e "$usage\n\nUnknown option: $1" && exit 1 ;;

*) args+=("$1") && shift ;;

esac

function error() {

echo -e "\n$usage\n\nERROR: $@"

exit 1

}

clara_home="$args"

[ "${#args[@]}" -lt 1 ] && error "Missing PATH argument"

[ "${#args[@]}" -gt 1 ] && error "Extra PATH arguments: ${args[@]:1}"

[ ! -e "$clara_home" ] && error "Missing installation PATH: $clara_home"

[ -z ${yaml+x} ] && error "-y YAML must be specified."

[ -r $yaml ] || error "YAML file does not exist."

[ -d $inputdir ] || error "Input dir does not exist."

[ $threads -eq 0 ] && threads=`grep -c ^processor /proc/cpuinfo`

export CLARA_USER_DATA=$(mktemp -d $outputdir/run-clara.tmp.XXXXXX)

cd $CLARA_USER_DATA

mkdir -p $CLARA_USER_DATA/log

mkdir -p $CLARA_USER_DATA/config

mkdir -p $CLARA_USER_DATA/data/output

find $inputdir -maxdepth 1 -type f -name '*.hipo' | sed 's;^\./;;' | sort > filelist.txt

[ $(stat -L -c%s filelist.txt) -gt 0 ] || error "Found no input files"

$CLARA_HOME/lib/clara/run-clara \

-i $inputdir \

-o $CLARA_USER_DATA \

-z rec_ \

-x $CLARA_USER_DATA/log \

-t $threads \

$nevents \

-s recon \

$yaml \

./filelist.txt