diff --git a/run_docker.sh b/run_docker.sh
deleted file mode 100755
index bfa2a67..0000000
--- a/run_docker.sh
+++ /dev/null
@@ -1,103 +0,0 @@
-#!/bin/bash
-#   Copyright (C) 2018, 2019 S3IT, University of Zurich
-#
-#   This program is free software: you can redistribute it and/or
-#   modify
-#   it under the terms of the GNU General Public License as published by
-#   the Free Software Foundation, either version 3 of the License, or
-#   (at your option) any later version.
-#
-#   This program is distributed in the hope that it will be useful,
-#   but WITHOUT ANY WARRANTY; without even the implied warranty of
-#   MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-#   GNU General Public License for more details.
-#
-#   You should have received a copy of the GNU General Public License
-#   along with this program.  If not, see <http://www.gnu.org/licenses/>.
-#
-
-# utility functions
-me=$(basename "$0")
-
-function die () {
-    rc="$1"
-    shift
-    (echo -n "$me: ERROR: ";
-        if [ $# -gt 0 ]; then echo "$@"; else cat; fi) 1>&2
-    exit $rc
-}
-
-## usage info
-
-usage () {
-    cat <<__EOF__
-Usage:
-  $me [options] DOCKER_TO_RUN BIDS_INPUT OUTPUT_FOLDER ANALYSIS_TYPE SUBJECT_LABEL
-
-Run BIDS/App docker containe 'DOCKER_TO_RUN'
-
-Options:
-  -d            Enable verbose logging
-  -h            Print this help text
-
-__EOF__
-}
-
-## parse command-line
-
-short_opts='dh'
-long_opts='debug,help'
-
-getopt -T > /dev/null
-rc=$?
-if [ "$rc" -eq 4 ]; then
-    # GNU getopt
-    args=$(getopt --name "$me" --shell sh -l "$long_opts" -o "$short_opts" -- "$@")
-    if [ $? -ne 0 ]; then
-        die 1 "Type '$me --help' to get usage information."
-    fi
-    # use 'eval' to remove getopt quoting
-    eval set -- $args
-else
-    # old-style getopt, use compatibility syntax
-    args=$(getopt "$short_opts" "$@")
-    if [ $? -ne 0 ]; then
-        die 1 "Type '$me --help' to get usage information."
-    fi
-    set -- $args
-fi
-
-while [ $# -gt 0 ]; do
-    case "$1" in
-        --debug|-d)    set -x ;;
-        --help|-h)     usage; exit 0 ;;
-        --)            shift; break ;;
-    esac
-    shift
-done
-
-## sanity checks
-
-# the SCRIPT argument has to be present
-if [ $# -lt 5 ]; then
-    die 1 "Missing required arguments. Type '$me --help' to get usage help."
-fi
-
-## main
-echo "[`date`]: Start"
-
-DOCKER_TO_RUN="$1"
-DOCKER_DATA="$2"
-DOCKER_OUTPUT="$3"
-ANALYSIS="$4"
-SUBJECT="$5"
-
-echo "running: sudo docker run -i --rm -v $DOCKER_DATA:/bids -v $DOCKER_OUTPUT:/output $DOCKER_TO_RUN /bids /output $ANALYSIS --participant_label $SUBJECT"
-# sudo docker run -i --rm -v $DOCKER_DATA:/bids -v $DOCKER_OUTPUT:/output $DOCKER_TO_RUN /bids /output $ANALYSIS --participant_label $SUBJECT
-RET=$?
-# Fix local filesystem permission
-echo "fixing local filesystem permission"
-# chown -R $UID:$GID $DOCKER_OUTPUT
-
-echo "[`date`]: Done with code $RET"
-exit $RET