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# Some useful scripts to put in your ~/.bashrc in case you are using bash (assuming OT_PREFIX is '~/opentox-ruby')
# Load server config
otconfig() {
source $HOME/.opentox/opentox-ui.sh
}
# Update the version
#otupdate() {
# START_DIR=`pwd`
# otconfig
# cd $HOME/opentox-ruby/www/opentox
# for d in `find -not -name "." -type d -maxdepth 1 2>/dev/null`; do echo ; echo $d ; cd $d ; MYBRANCH=`git branch | grep "*" | sed 's/.*\ //g'`; git pull origin $MYBRANCH ; cd - ; done
# cd $HOME/opentox-ruby/www/opentox/algorithm/libfminer
# mv libbbrc/Makefile libbbrc/Makefile~
# mv liblast/Makefile liblast/Makefile~
# if ! git pull; then
# echo "Error! Pull for Fminer failed."
# return 1
# fi
# mv libbbrc/Makefile~ libbbrc/Makefile
# mv liblast/Makefile~ liblast/Makefile
# make -C libbbrc/ clean
# make -C libbbrc/ ruby
# make -C liblast/ clean
# make -C liblast/ ruby
# cd -
# cd $HOME/opentox-ruby/www/opentox/algorithm/last-utils
# if ! git pull; then
# echo "Error! Pull for Last-Utils failed."
# return 1
# fi
# cd -
# cd $HOME/opentox-ruby/www/opentox/algorithm/bbrc-sample
# if ! git pull; then
# echo "Error! Pull for Bbrc-Sample failed."
# return 1
# fi
# cd -
# cd opentox-ruby
# LINK_DIR=`gem which opentox-ruby | sed 's/\/opentox-ruby.rb//'`
# if [ -h $LINK_DIR ]; then
# rm -f $LINK_DIR
# fi
# rake install
# if ! [ -h $LINK_DIR ]; then
# echo "Warning! Your lib $LINK_DIR is no symlink. Linking back for you..."
# rm -rf "$LINK_DIR~"
# mv "$LINK_DIR" "$LINK_DIR~"
# ln -sf $HOME/opentox-ruby/www/opentox/opentox-ruby/lib `echo ${LINK_DIR::${#LINK_DIR}-3}`
# fi
# echo "Please execute 'otstart' to restart."
# cd "$START_DIR"
#}
# Start the server
otstart() {
if [ $# != 1 ]
then
echo "One argument required: [service_name] or 'all'"
echo "usage: $0 [all|algorithm|compound|dataset|feature|model|task|validation|4store]"
return 1
fi
otconfig
otkill $1
DIR=`pwd`
case "$1" in
"algorithm")
cd $HOME/opentox-ruby/$1;
nice bash -c "nohup unicorn -p 8081 >/dev/null 2>&1 &";
;;
"compound")
echo "$1 not available yet."
#cd $HOME/opentox-ruby/$1;
#nice bash -c "nohup unicorn -p 8082 >/dev/null 2>&1 &";
;;
"dataset")
cd $HOME/opentox-ruby/$1;
nice bash -c "nohup unicorn -p 8083 >/dev/null 2>&1 &";
;;
"feature")
cd $HOME/opentox-ruby/$1;
nice bash -c "nohup unicorn -p 8084 >/dev/null 2>&1 &";
;;
"model")
echo "$1 not available yet."
#cd $HOME/opentox-ruby/$1;
#nice bash -c "nohup unicorn -p 8085 >/dev/null 2>&1 &";
;;
"task")
cd $HOME/opentox-ruby/$1;
nice bash -c "nohup unicorn -p 8086 >/dev/null 2>&1 &";
;;
"validation")
echo "$1 not available yet."
#cd $HOME/opentox-ruby/$1;
#nice bash -c "nohup unicorn -p 8087 >/dev/null 2>&1 &";
;;
"4store")
nice bash -c "nohup $HOME/opentox-ruby/4S/bin/4s-backend opentox >/dev/null 2>&1 &";
sleep 1;
nice bash -c "nohup $HOME/opentox-ruby/4S/bin/4s-httpd -D -H localhost -p 8088 opentox >/dev/null 2>&1 &";
sleep 1;
if ! pgrep -u $USER 4s-backend>/dev/null 2>&1; then echo "Failed to start 4s-backend."; fi
if ! pgrep -u $USER 4s-httpd>/dev/null 2>&1; then echo "Failed to start 4s-httpd."; fi
;;
"all")
otstart 4store;
otstart algorithm;
otstart dataset;
otstart feature;
otstart task;
;;
esac
cd $DIR
}
# Display log
alias otless='less $HOME/.opentox/log/development.log'
# Tail log
alias ottail='tail -f $HOME/.opentox/log/development.log'
# Reload the server
#otreload() {
#otconfig
#bash -c "nginx -s reload"
#}
# Kill the server
otkill() {
if [ $# != 1 ]
then
echo "One argument required: [service_name] or 'all'"
echo "usage: $0 [all|algorithm|compound|dataset|feature|model|task|validation|4store]"
return 1
fi
otconfig
case "$1" in
"algorithm")
for p in `ps x | grep 'unicorn' | grep 8081 | grep -v grep | awk '{print $1}'`; do kill -9 $p; done;
;;
"compound")
#for p in `ps x | grep 'unicorn' | grep 8082 | grep -v grep | awk '{print $1}'`; do kill -9 $p; done;
;;
"dataset")
for p in `ps x | grep 'unicorn' | grep 8083 | grep -v grep | awk '{print $1}'`; do kill -9 $p; done;
;;
"feature")
for p in `ps x | grep 'unicorn' | grep 8084 | grep -v grep | awk '{print $1}'`; do kill -9 $p; done;
;;
"model")
#for p in `ps x | grep 'unicorn' | grep 8085 | grep -v grep | awk '{print $1}'`; do kill -9 $p; done;
;;
"task")
for p in `ps x | grep 'unicorn' | grep 8086 | grep -v grep | awk '{print $1}'`; do kill -9 $p; done;
;;
"validation")
echo "$1 not available yet."
#for p in `ps x | grep 'unicorn' | grep 8087 | grep -v grep | awk '{print $1}'`; do kill -9 $p; done;
;;
"4store")
killall 4s-httpd >/dev/null 2>&1;
killall 4s-backend >/dev/null 2>&1;
;;
"all")
otkill algorithm;
#otkill compound;
otkill dataset;
otkill feature;
#otkill model;
otkill task;
#otkill validation;
otkill 4store;
;;
esac
}
# Check the server
#otcheck() {
# check_service=`cat $HOME/.opentox/config/production.yaml | grep opentox-algorithm | sed 's/.*\s//g' | sed 's/"//g'`
# if [ -z "`curl -v $check_service 2>&1 | grep '200 OK'`" ]; then
# otstart
# fi
#}
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