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example_hdf5cfood.py
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Henrik tom Wörden authoredHenrik tom Wörden authored
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helpers.sh 2.94 KiB
# This file is a part of the LinkAhead Project.
#
# Copyright (C) 2018 Research Group Biomedical Physics,
# Max-Planck-Institute for Dynamics and Self-Organization Göttingen
# Copyright (C) 2019, 2020, 2024 Daniel Hornung (d.hornung@indiscale.com)
# Copyright (C) 2020 Henrik tom Wörden
# Copyright (C) 2020, 2024 IndiScale GmbH <info@indiscale.com>
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero 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 Affero General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with this program. If not, see <https://www.gnu.org/licenses/>.
###############################################################################
# Helper function definitions #
###############################################################################
# When sourcing this file, the following variables must be set:
#
# MYSQL_CMD : source $UTILSPATH/load_settings.sh
function mysql_execute {
#TODO is it meaningful that here always the database user is used???
set -e
$MYSQL_CMD $(get_db_args) -e "$@"
ret=${PIPESTATUS[0]}
if [ "$ret" -ne 0 ]; then
failure "MYSQL ERROR"
fi
}
# Takes a filename with commands instead of command line arguments
function mysql_execute_file {
set -e
$MYSQL_CMD $(get_db_args) < "$1"
ret=${PIPESTATUS[0]}
if [ "$ret" -ne 0 ]; then
failure "MYSQL ERROR"
fi
}
# Return the arguments from `get_db_args_nodb` and additionally the database name as
# `--database=mydatabasename`.
function get_db_args {
echo "$(get_db_args_nodb) --database=$DATABASE_NAME"
}
# Return arguments for user, password, host, port and additional options in MYSQL_OPTS.
#
# For example, the output may be:
# --user=myuser --password=mypassword --host=example.com --port=1234 --other --option
function get_db_args_nodb {
if [ -n "$MYSQL_USER" ]; then
mysql_con_arguments="--user=$MYSQL_USER"
fi
if [ -n "$MYSQL_USER_PASSWORD" ]; then
mysql_con_arguments="$mysql_con_arguments --password=$MYSQL_USER_PASSWORD"
fi
if [ -n "$MYSQL_HOST" ] && [ "$MYSQL_HOST" != "localhost" ]; then
mysql_con_arguments="$mysql_con_arguments --host=$MYSQL_HOST"
fi
if [ -n "$MYSQL_PORT" ] && [ "$MYSQL_PORT" != "3306" ]; then
mysql_con_arguments="$mysql_con_arguments --port=$MYSQL_PORT"
fi
if [ -n "$MYSQL_OPTS" ] ; then
mysql_con_arguments="$mysql_con_arguments $MYSQL_OPTS"
fi
echo $mysql_con_arguments
}
function success {
echo "[OK]"
exit 0
}
function failure {
echo "[FAILED] $*"
exit 1
}
function uptodate {
echo "[UPTODATE]"
exit 0
}