Revision d613130cd32ef1c45614789b7cd0572fac370d4e authored by Marius van den Beek on 17 May 2024, 09:48:30 UTC, committed by GitHub on 17 May 2024, 09:48:30 UTC
[24.0] Fix error message when accessing restricted Zenodo records
run.sh
#!/bin/sh
# Usage: ./run.sh <start|stop|restart>
#
#
# Description: This script can be used to start or stop the galaxy
# web application.
cd "$(dirname "$0")"
. ./scripts/common_startup_functions.sh
# If there is a file that defines a shell environment specific to this
# instance of Galaxy, source the file.
if [ -z "$GALAXY_LOCAL_ENV_FILE" ];
then
GALAXY_LOCAL_ENV_FILE='./config/local_env.sh'
fi
if [ -f "$GALAXY_LOCAL_ENV_FILE" ];
then
. "$GALAXY_LOCAL_ENV_FILE"
fi
GALAXY_PID=${GALAXY_PID:-galaxy.pid}
GALAXY_LOG=${GALAXY_LOG:-galaxy.log}
PID_FILE=$GALAXY_PID
LOG_FILE=$GALAXY_LOG
parse_common_args $@
run_common_start_up
setup_python
if [ ! -z "$GALAXY_RUN_WITH_TEST_TOOLS" ];
then
export GALAXY_CONFIG_OVERRIDE_TOOL_CONFIG_FILE="$(pwd)/test/functional/tools/sample_tool_conf.xml"
export GALAXY_CONFIG_ENABLE_BETA_WORKFLOW_MODULES="true"
export GALAXY_CONFIG_OVERRIDE_ENABLE_BETA_TOOL_FORMATS="true"
export GALAXY_CONFIG_INTERACTIVETOOLS_ENABLE="true"
export GALAXY_CONFIG_OVERRIDE_WEBHOOKS_DIR="test/functional/webhooks"
export GALAXY_CONFIG_OVERRIDE_PANEL_VIEWS_DIR="$(pwd)/test/integration/panel_views_1/"
fi
set_galaxy_config_file_var
if [ "$INITIALIZE_TOOL_DEPENDENCIES" -eq 1 ]; then
# Install Conda environment if needed.
python ./scripts/manage_tool_dependencies.py init_if_needed
fi
find_server "${GALAXY_CONFIG_FILE:-none}" galaxy
echo "Executing: $run_server $server_args"
# args are properly quoted so use eval
eval GALAXY_ROOT_DIR="." $run_server $server_args
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