heron

#!/bin/bash
echo "Starting HERON ..."

# identify HERON location
SCRIPT_NAME=$(readlink $0)
if test -x "$SCRIPT_NAME";
then
    HERON_DIRNAME=$(dirname $SCRIPT_NAME)
else
    HERON_DIRNAME=$(dirname $0)
fi
HERON_DIR=$(cd $HERON_DIRNAME; pwd)

if command -v python; then
    #python exists
    WORKING_PYTHON_COMMAND=python
elif command -v python3; then
    #python3 exists
    WORKING_PYTHON_COMMAND=python3
else
    echo ERROR Neither python nor python3 are available
fi

# identify RAVEN location
RAVEN_DIR=$($WORKING_PYTHON_COMMAND $HERON_DIRNAME/src/_utils.py get_raven_loc)
echo " ... RAVEN located at \"${RAVEN_DIR}\""
# activate conda environment
echo " ... Activating CONDA environment ..."
source $RAVEN_DIR/scripts/establish_conda_env.sh --quiet

# set up run keywords
# "ARGS" stores command line arguments not treated in this file (passed through)
declare -a ARGS
while test $# -gt 0
do
  case "$1" in
    --python-command=*)
      PYTHON_COMMAND="${1#*=}"
      ;;  
    *)
      # otherwise, pass through arguments to main.py
      ARGS[${#ARGS[@]}]="$1"
      ;;
  esac
  shift
done

# establish python command
PYTHON_COMMAND=${PYTHON_COMMAND:=python}

# call heron using python
echo 'Running HERON ...'
$PYTHON_COMMAND $HERON_DIR/src/main.py "${ARGS[@]}"
SUCCESS=$?

# check exit status
if [[ $SUCCESS == 0 ]];
then
  echo ' ... HERON completed successfully.'
else
  echo ' ... Errors were encountered while running HERON.'
fi
exit $SUCCESS