#!/usr/bin/env bash

ARG1=$1
WDIR="$( pwd )"
DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )"
APP=${DIR%/Contents/MacOS}

if [ "${APP}" = "${APP%.app}" ]; then
  echo "Could not find .app dir" >&2
  exit 1
fi

# check to see if $1 is set and is not start of other cli set args
OPEN=""
if [ -n "$ARG1" -a "$ARG1" = "${ARG1#-}" ]; then
 # first argument exists and does not start with a "-"
 OPEN="-open"
fi

# This would open the Jalview application as if double clicking, with the supplied args
# open -a ${APP} --args $OPEN "$@"
### or...

APPDIR=${APP}/Contents/Resources/app
JAVA=${APPDIR}/jre/Contents/Home/bin/java
CLASSPATH=""; for x in $(grep -e 'code = ' ${APP}/Contents/Resources/app/getdown.txt | sed -e 's/^code = //;'); do [ -n "$CLASSPATH" ] && CLASSPATH="${CLASSPATH}:"; CLASSPATH="${CLASSPATH}${APPDIR}/${x}"; done

#TODO add a -workingdir DIR argument for jalview.bin.Jalview to set user.dir. This will fix JAL-3523
echo $JAVA -cp "$CLASSPATH" jalview.bin.Launcher $OPEN "$@"
$JAVA -cp "$CLASSPATH" jalview.bin.Launcher $OPEN "$@"
# -workingdir "$WDIR"