run_notebooks

EXECUTE="--execute"
KERNEL=""
while getopts 'k:s' flag; do
  case "${flag}" in
    s) EXECUTE="" ;;
    k) KERNEL="${OPTARG}" ;;
    *) exit 1 ;;
  esac
done
if [ "$KERNEL" == "" ]; then
    KERNEL="python3"
    echo "*** no kernel specified, using $KERNEL"
fi

mkdir -p _executed_nbs/
for nb in `find examples/ -name "*.ipynb" -type f`
    do
    if [[ "$nb" != *".ipynb_checkpoints"* ]]
        then
        jupyter nbconvert $EXECUTE --ExecutePreprocessor.kernel_name=$KERNEL --output-dir _executed_nbs/ --to notebook $nb
    fi
done