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run_mac.sh
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#!/bin/bash
trap cleanup SIGINT
list_descendants ()
{
local pids=$(ps -o pid= -o ppid=)
local children
for i in $1
do
local tmp=$(echo "$pids" | awk -v i=$i '{if($2==i){print $1}}')
children=$children" "$tmp
done
for pid in $children
do
list_descendants "$pid"
done
echo "$children"
}
cleanup() {
echo "Killing all processes."
kill $(list_descendants $$) &> /dev/null
}
die() {
echo "$1" >&2
echo
cleanup
exit 1
}
REDIS_PORT=7777
WEB_ADDR=127.0.0.1
WEB_PORT=5000
LOG_LOCATION=$(pwd)
usage() {
echo "Usage: $0 [-r REDIS_PORT] [-a WEB_ADDRESS] [-p WEB_PORT] [-l LOG_PATH]" 1>&2;
echo "optional arguments: " 1>&2;
echo " -h show this help message and exit " 1>&2;
echo " -r REDIS_PORT " 1>&2;
echo " port to use for redis server (default: $REDIS_PORT) " 1>&2;
echo " -a WEB_ADDRESS " 1>&2;
echo " address to bind the web interface (default: $WEB_ADDR), but to run from other" 1>&2;
echo " computers over the network (under VPN) can be 0.0.0.0 *WARNING* " 1>&2;
echo " -p WEB_PORT " 1>&2;
echo " port used with web address (default: $WEB_PORT) " 1>&2;
echo " -l LOG_PATH " 1>&2;
echo " the directory path to write the logs (default: $LOG_LOCATION) " 1>&2;
echo " " 1>&2;
exit 1;
}
while getopts ":r:p:a:l:" o; do
case "${o}" in
r)
REDIS_PORT=${OPTARG}
;;
p)
WEB_PORT=${OPTARG}
;;
a)
WEB_ADDR=${OPTARG}
;;
l) LOG_LOCATION=${OPTARG}
;;
*)
usage
;;
esac
done
shift $((OPTIND-1))
if [ -z "${REDIS_PORT}" ] || [ -z "${WEB_PORT}" ] || [ -z "${WEB_ADDR}" ]; then
usage
fi
REDIS_LOG="${LOG_LOCATION}/redis.log"
INTERARTIC_LOG="${LOG_LOCATION}/interartic.log"
CELERY_LOG="${LOG_LOCATION}/celery.log"
REALPATH=$(dirname "$0")
readlink "$0" && REALPATH=$(dirname "$(readlink "$0")")
ARCH=$(uname -m)
OS=$(uname -s)
if [ "${OS}" != "Darwin" ];
then
echo "This binary package is for Darwin (MacOS). You O/S is ${OS}. Trying to launch anyway - anticipating a crash!"
fi
if [[ ${ARCH} != "x86_64" && ${ARCH} != "aarch64" && ${ARCH} != "arm64" ]];
then
echo "Unsupported architecture ${ARCH}. Trying to launch anyway - anticipating a crash!"
fi
export PYTHONNOUSERSITE=1
unset PYTHONHOME
unset PYTHONPATH
cd "${REALPATH}"
echo "Starting redis server on port $REDIS_PORT. Log location: $REDIS_LOG"
( bin/redis-server --port ${REDIS_PORT} &> "${REDIS_LOG}" || die "Launching redis server on port $REDIS_PORT failed. See $REDIS_LOG" ) &
sleep 1
echo "Starting interartic on $WEB_ADDR:$WEB_PORT. Log location: $INTERARTIC_LOG"
( bin/python3.7 main.py ${REDIS_PORT} -a ${WEB_ADDR} -p ${WEB_PORT} &> "${INTERARTIC_LOG}" || die "Launching interartic on $WEB_ADDR:$WEB_PORT failed. See $INTERARTIC_LOG") &
sleep 1
echo "Starting celery. Log location: $CELERY_LOG"
( export PATH="$(pwd)/artic_bin/bin:$(pwd)/scripts:${PATH}"; export HDF5_PLUGIN_PATH="$(pwd)/lib/ont-vbz-hdf-plugin"; bin/python3.7m bin/celery worker -A main.celery -b redis://localhost:${REDIS_PORT}/0 --result-backend redis://localhost:${REDIS_PORT}/0 --concurrency=1 --loglevel=info &> "${CELERY_LOG}" || die "Launching celery failed. See ${CELERY_LOG}" ) &
sleep 1
echo ""
echo "InterARTIC is now running on your machine :)"
echo "To launch InterARTIC web interface visit http://127.0.0.1:${WEB_PORT} on your browser"
echo "To keep your InterARTIC active this terminal must remain open."
echo "To terminate InterARTIC type CTRL-C or close the terminal."
wait