CONFIG

#!/bin/bash

TESTING=false


# save working directory
WD=(pwd)

# define constants
ROOT_DIR=$(cat var/root_dir)
WEB_DIR=/var/www/html/wormbot
CGI_DIR=$ROOT_DIR/cgi-bin
GRAPHS_DIR=$ROOT_DIR/graphs
SCHEDULER_DIR=$ROOT_DIR/scheduler_parts

# handle installation directory
if [ "$#" -eq 1 ]
then
	ROOT_DIR=$1
	echo $ROOT_DIR > var/root_dir
elif [ "$#" -gt 1 ]
then
	echo "Usage: $0 [DIR]"
	exit
fi


# setup directories in root
if [ ! -d "/wormbot" ]; then
sudo mkdir $ROOT_DIR #this needs to be setup already in the LVM...should just symlink it but if it's not there we need to make it
fi

sudo mkdir $GRAPHS_DIR
sudo chmod a+wr $GRAPHS_DIR
sudo mkdir $SCHEDULER_DIR
sudo chmod a+wr $SCHEDULER_DIR
sudo mkdir $CGI_DIR #make the password protected CGI-bin
#sudo mkdir $WEB_DIR
sudo ln --symbolic $ROOT_DIR $WEB_DIR
#sudo ln --symbolic -T $ROOT_DIR/experiments $WEB_DIR/experiments
#sudo ln --symbolic $WEB_DIR /var/www/html/wormbot
sudo chmod a+rw $WEB_DIR
sudo echo ,,,,,,, > $ROOT_DIR/RRRjoblist.csv
sudo chmod a+rw $ROOT_DIR/RRRjoblist.csv


# move necessary files to root dir
sudo cp camera.config experimentuploader.html graphmaker.html platecoordinates.dat generate_coordinates.py bin/alignerd bin/controller wormbot_template.csv bin/master_control_program security/.htpasswd $ROOT_DIR
sudo echo 0 > $ROOT_DIR/currexpid.dat
sudo chmod a+rw $ROOT_DIR/currexpid.dat


# move necessary files to web dir
sudo cp -r img $WEB_DIR/img
sudo cp plateform.html $WEB_DIR
sudo cp www/html/status.html $WEB_DIR


# move necessary files to cgi-bin
sudo cp data_path bin/experimentbrowser bin/marker bin/scheduler bin/cgiccretro bin/wormlistupdater bin/backupexperiment bin/deleteexperiment bin/wormbotstatus bin/graphmaker bin/cropFrames $CGI_DIR
sudo cp ../ffmpeg-3.4/ffmpeg $CGI_DIR
sudo cp data_path /usr/lib/cgi-bin #this is for compatibilty following security changes to move cgi bin into /wormbot


# move retrograde files to the web html retrograde directory
sudo cp -r retrograde/ /var/www/html/

# move scheduler_component stuff
sudo cp  scheduler_component/* $SCHEDULER_DIR

# move script for wormbot in command-line
sudo cp bin/wormbot /bin

#move launch script to /etc/rc.local
sudo head -n -1 /etc/rc.local > /tmp/temp.rc.local ; mv /tmp/temp.rc.local /etc/rc.local
sudo echo "/wormbot/master_control_program" >> /etc/rc.local
sudo echo "exit 0" >> /etc/rc.local
sudo chmod +x /etc/rc.local
sudo systemctl enable rc-local.service


if $TESTING ;
then
	echo testing
	cp -r test_data/* $ROOT_DIR/experiments
	sudo echo 1 > $ROOT_DIR/experiments/currexpid.dat
fi


sudo chmod -R +rw $WEB_DIR

sudo cp security/apache2.conf /etc/apache2/apache2.conf 
sudo service apache2 restart