mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-21 13:50:20 +08:00
Nate Coraor
1e312faccd
if you install it and then run `galaxy` from the root of a Galaxy clone, after installing all the dependencies (see the end of ./scripts/common_startup.sh), it should start.
127 lines
3.2 KiB
Bash
Executable File
127 lines
3.2 KiB
Bash
Executable File
#!/bin/bash
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show_help() {
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cat <<EOF
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Usage:
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${0##*/} --daemon
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Start Galaxy server as daemon process (paster):
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${0##*/} --stop-daemon
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Stop Galaxy daemon process (paster)
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Extra Options:
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-m|--mode How to launch (paster,uwsgi,webless).
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In webless mode Galaxy will not attempt to bind to a port,
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this may be useful for Galaxy server processes acting as job
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handlers.
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-c|--config Configuration directory for Galaxy, defaults to ./config
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Can also set with GALAXY_CONFIG_DIR environment variable.
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EOF
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}
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MODE=""
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while :
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do
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case "$1" in
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-h|--help|-\?)
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show_help
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exit 0
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;;
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-m|--mode)
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if [ $# -gt 1 ]; then
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MODE=$2
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shift 2
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else
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echo "--mode requires explicit argument" 1>&2
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exit 1
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fi
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;;
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-c|--config)
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if [ $# -gt 1 ]; then
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GALAXY_CONFIG_DIR=$2
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shift 2
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else
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echo "--config requires explicit argument" 1>&2
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exit 1
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fi
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;;
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--)
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shift
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break
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;;
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*)
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break;
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;;
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esac
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done
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SCRIPTS_DIRECTORY="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
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PROJECT_DIRECTORY=$SCRIPTS_DIRECTORY/..
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GALAXY_CONFIG_DIR=${GALAXY_CONFIG_DIR:-"./config"}
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export GALAXY_CONFIG_DIR
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GALAXY_LOCAL_ENV=${GALAXY_LOCAL_ENV:-$GALAXY_CONFIG_DIR/local_env.sh}
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export GALAXY_LOCAL_ENV
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GALAXY_VIRTUALENV=${GALAXY_VIRTUALENV:-$PROJECT_DIRECTORY/.venv}
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export GALAXY_VIRTUALENV
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if [ -e $GALAXY_LOCAL_ENV ];
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then
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echo "Sourcing file $GALAXY_LOCAL_ENV"
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. $GALAXY_LOCAL_ENV
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fi
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if [ -d $GALAXY_VIRTUALENV ];
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then
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echo "Activating virtual environment $GALAXY_VIRTUALENV/bin/activate"
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. $GALAXY_VIRTUALENV/bin/activate
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fi
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GALAXY_CONFIG_SAMPLE_FILE="${PROJECT_DIRECTORY}/galaxy.ini.sample"
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if [ -z "$GALAXY_CONFIG_FILE" ]; then
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if [ -f "${GALAXY_CONFIG_DIR}/galaxy.ini" ]; then
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GALAXY_CONFIG_FILE="${GALAXY_CONFIG_DIR}/galaxy.ini"
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else
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GALAXY_CONFIG_FILE="$GALAXY_CONFIG_SAMPLE_FILE"
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fi
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export GALAXY_CONFIG_FILE
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fi
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if [ -z "$MODE" ];
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then
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if hash uwsgi 2>/dev/null; then
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MODE="uwsgi"
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else
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MODE="paster"
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fi
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fi
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if [ "$MODE" == "uwsgi" ]; then
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echo "Starting galaxy with command [uwsgi --ini-paste \"$GALAXY_CONFIG_FILE\" \"$@\"]"
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uwsgi --ini-paste "$GALAXY_CONFIG_FILE" "$@"
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elif [ "$MODE" == "paster" ]; then
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echo "Starting galaxy with command [galaxy-paster serve \"$GALAXY_CONFIG_FILE\" \"$@\"]"
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galaxy-paster serve "$GALAXY_CONFIG_FILE" "$@"
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elif [ "$MODE" == "webless" ]; then
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if hash galaxy-main 2>/dev/null; then
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# Running from pip install since
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# galaxy-main is available on PATH.
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echo "Starting galaxy with command [galaxy-main]"
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galaxy-main
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else
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# Running locally.
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PROJECT_DIRECTORY=$GALAXY_SCRIPTS_DIR/..
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cd $PROJECT_DIRECTORY
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export PYTHONPATH=.:$PYTHONPATH
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echo "Starting galaxy with command [python lib/galaxy/main.py]"
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python lib/pulsar/main.py
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fi
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else
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echo "Unknown mode passed to --mode argument." 1>&2
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exit 1
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fi
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