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oh.sh
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oh.sh
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#!/bin/bash
#
# Open Hospital (www.open-hospital.org)
# Copyright © 2006-2024 Informatici Senza Frontiere ([email protected])
#
# Open Hospital is a free and open source software for healthcare data management.
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# https://www.gnu.org/licenses/gpl-3.0-standalone.html
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <https://www.gnu.org/licenses/>.
#
#################### Script info and configuration - Do not edit #####################
# set script DEBUG mode
# saner programming env: these switches turn some bugs into errors
#set -o errexit -o pipefail -o noclobber -o nounset
######## get name of this shell script
SCRIPT_NAME=$(basename "$0")
######################## Script configuration #######################
#
# set WRITE_CONFIG_FILES=on "on" to force generation / overwriting of configuration files:
# data/conf/my.cnf and oh/rsc/*.properties files will be regenerated from the original .dist files
# with the settings defined in this script.
#
# Default is set to "off": configuration files will not be regenerated or overwritten if already present.
#
WRITE_CONFIG_FILES="off"
############## OH general configuration - change at your own risk :-) ##############
# OH_PATH is the directory where Open Hospital files are located
# OH_PATH=/usr/local/OpenHospital/oh
# set OH mode to PORTABLE | CLIENT | SERVER - default set to PORTABLE
#OH_MODE="PORTABLE"
# language setting - default set to en
OH_LANGUAGE_LIST=("ar" "de" "en" "es" "fr" "it" "pt" "sq")
OH_LANGUAGE_LIST_INFO=("Arabic" "German" "English" "Spanish" "French" "Italian" "Portuguese" "Albanian")
# single / multiuser - set "yes" for single user configuration
#OH_SINGLE_USER="no"
# set log level to INFO | DEBUG - default set to INFO
LOG_LEVEL="INFO"
# set DEMO_DATA to on to enable demo database loading - default set to off
# ---> Warning <--- __requires deletion of all portable data__
DEMO_DATA="off"
DEMO_DATABASE="ohdemo"
# set JAVA_BIN
# Uncomment this if you want to use system wide JAVA
#JAVA_BIN=`which java`
##################### Database configuration #######################
DATABASE_SERVER="localhost"
DATABASE_PORT="3306"
DATABASE_ROOT_PW="tmp2021oh111"
DATABASE_NAME="oh"
DATABASE_USER="isf"
DATABASE_PASSWORD="isf123"
####################### OH configuration #########################
# path and directories
OH_DIR="."
OH_DOC_DIR="doc"
CONF_DIR="data/conf"
DATA_DIR="data/db"
PHOTO_DIR="data/photo"
BACKUP_DIR="data/dump"
LOG_DIR="data/log"
SQL_DIR="sql"
SQL_EXTRA_DIR="sql/extra"
TMP_DIR="tmp"
# imaging / dicom
DICOM_MAX_SIZE="4M"
DICOM_STORAGE="FileSystemDicomManager" # SqlDicomManager
DICOM_DIR="data/dicom_storage"
# logging
LOG_FILE="startup.log"
OH_LOG_FILE="openhospital.log"
API_LOG_FILE="api.log"
# SQL creation files
#DB_CREATE_SQL="create_all_en.sql" # default to en
DB_DEMO="create_all_demo.sql"
######################## Other settings ########################
# date format
DATE=`date +%Y-%m-%d_%H-%M-%S`
# downloaded file extension
EXT="tar.gz"
# mysql configuration file
MYSQL_CONF_FILE="my.cnf"
# OH configuration files
OH_SETTINGS="settings.properties"
DATABASE_SETTINGS="database.properties"
EXAMINATION_SETTINGS="examination.properties"
IMAGING_SETTINGS="dicom.properties"
LOG4J_SETTINGS="log4j2-spring.properties"
PRINTER_SETTINGS="txtPrinter.properties"
SMS_SETTINGS="sms.properties"
TELEMETRY_SETTINGS="telemetry.properties"
XMPP_SETTINGS="xmpp.properties"
API_SETTINGS="application.properties"
CRED_SETTINGS="default_credentials.properties"
DEMO_CRED_SETTINGS="default_demo_credentials.properties"
# OH jar bin files
OH_GUI_JAR="OH-gui.jar"
OH_API_JAR="openhospital-api-0.1.0.jar"
# help file
HELP_FILE="OH-readme.txt"
# set default database name
DEFAULT_DATABASE_NAME="$DATABASE_NAME"
# set default data base_dir
DEFAULT_DATADIR="$DATA_DIR"
# default database admin/root user
DATABASE_ROOT_USER="root"
# activate expert mode - set to "on" to enable advanced functions - use at your own risk!
EXPERT_MODE="off"
OH_UI_URL="http://localhost:8080"
OH_API_PID="../tmp/oh-api.pid"
################ Architecture and external software ################
######## MariaDB/MySQL Software
# MariaDB version
MYSQL_VERSION="10.6.16"
MYSQL32_VERSION="10.5.23"
PACKAGE_TYPE="systemd"
######## define system and software architecture
ARCH=`uname -m`
case $ARCH in
x86_64|amd64|AMD64)
JAVA_ARCH=64
MYSQL_ARCH=x86_64
MYSQL_PACKAGE_ARCH=$MYSQL_ARCH
JAVA_PACKAGE_ARCH=x64
;;
i[3456789]86|x86|i86pc)
JAVA_ARCH=32
MYSQL_ARCH=i686
MYSQL_VERSION=$MYSQL32_VERSION;
MYSQL_PACKAGE_ARCH=x86
JAVA_PACKAGE_ARCH=i686
;;
*)
echo "Unknown architecture: $ARCH. Exiting."
exit 1
;;
esac
# set MariaDB download URL / package
MYSQL_URL="https://archive.mariadb.org/mariadb-$MYSQL_VERSION/bintar-linux-$PACKAGE_TYPE-$MYSQL_PACKAGE_ARCH"
MYSQL_DIR="mariadb-$MYSQL_VERSION-linux-$PACKAGE_TYPE-$MYSQL_ARCH"
MYSQL_NAME="MariaDB" # For console output - MariaDB/MYSQL_NAME
######## JAVA Software
######## JAVA 64bit - default architecture
### JRE 11 - openjdk distribution
#JAVA_URL="https://github.com/AdoptOpenJDK/openjdk11-binaries/releases/download/jdk-11.0.11%2B9"
#JAVA_DISTRO="OpenJDK11U-jre_x64_linux_hotspot_11.0.11_9"
#JAVA_DIR="jdk-11.0.11+9-jre"
### JRE 17 - zulu distribution
#JAVA_DISTRO="zulu11.68.17-ca-jre11.0.21-linux_$JAVA_PACKAGE_ARCH"
JAVA_DISTRO="zulu17.48.15-ca-jre17.0.10-linux_$JAVA_PACKAGE_ARCH"
JAVA_URL="https://cdn.azul.com/zulu/bin"
JAVA_DIR=$JAVA_DISTRO
######################## DO NOT EDIT BELOW THIS LINE ########################
########################### Functions ###########################
###################################################################
function script_menu {
# show help / user options
echo " -----------------------------------------------------------------"
echo "| |"
echo "| Open Hospital - $OH_VERSION |"
echo "| |"
echo " -----------------------------------------------------------------"
echo " arch $ARCH | lang $OH_LANGUAGE | mode $OH_MODE | log level $LOG_LEVEL | Demo $DEMO_DATA"
echo " -----------------------------------------------------------------"
if [ "$EXPERT_MODE" == "on" ]; then
echo " EXPERT MODE activated"
echo " API server set to $API_SERVER"
echo " -----------------------------------------------------------------"
fi
echo ""
echo " Usage: $SCRIPT_NAME -[OPTION] "
echo ""
echo " -C set OH in CLIENT mode"
echo " -P set OH in PORTABLE mode"
echo " -S set OH in SERVER mode (portable)"
echo " -l set language -> [ ${OH_LANGUAGE_LIST[*]} ]"
echo " -E toggle EXPERT MODE - show advanced options"
echo " -h show help"
echo " -q quit"
echo ""
if [ "$EXPERT_MODE" == "on" ]; then
script_menu_advanced;
fi
}
###################################################################
function script_menu_advanced {
# show help / user options
echo " -------------------------------- "
echo " EXPERT MODE - advanced options"
echo ""
echo " -A toggle API server - EXPERIMENTAL"
echo " -e export/save OH database"
echo " -r restore OH database"
echo " -d toggle log level INFO/DEBUG"
echo " -G setup GSM"
echo " -D initialize OH with Demo data"
echo " -i initialize/install OH database"
echo " -m configure database connection manually"
echo " -s save OH configuration"
echo " -t test database connection (CLIENT mode only)"
echo " -u create Desktop shortcut"
echo " -v show configuration"
echo " -V check for latest OH version"
echo " -X clean/reset OH installation"
echo ""
}
###################################################################
function interactive_menu {
until [[ "$OPTSTRING" != *"$option"* ]]
do
clear;
script_menu;
echo ""
#IFS=
read -n 1 -p "Please select an option or press enter to start OH: " option
if [[ $option != "" ]]; then
parse_user_input $option 1; # interactive
else
break # if enter pressed exit from loop and start OH
fi
done
# OPTIND=1
}
###################################################################
function get_confirmation {
# if arg = 1 go back to interactive menu
read -p "(y/n) ? " choice
case "$choice" in
y|Y ) echo "yes"
;;
n|N ) echo "Exiting.";
if [[ ${#COMMAND_LINE_ARGS} -eq 0 ]] && [[ $1 -eq 1 ]]; then
option="";
interactive_menu;
else
exit 1;
fi
;;
* ) echo "Invalid choice. Press any key to continue.";
read;
if [[ ${#COMMAND_LINE_ARGS} -eq 0 ]] && [[ $1 -eq 1 ]]; then
option="";
interactive_menu;
else
exit 1;
fi
exit 0;
esac
}
###################################################################
function set_path {
# get current directory
CURRENT_DIR=$PWD
# set OH_PATH if not defined
if [ -z ${OH_PATH+x} ]; then
echo "Info: OH_PATH not defined - setting to script path"
# set OH_PATH to script path
OH_PATH=$(dirname "$(realpath "$0")")
if [ ! -f "$OH_PATH/$SCRIPT_NAME" ]; then
echo "Error - $SCRIPT_NAME not found in the current PATH. Please browse to the directory where Open Hospital was unzipped or set up OH_PATH properly."
exit 1
fi
fi
}
###################################################################
function read_settings {
# check and read OH version file
if [ -f ./$OH_DIR/rsc/version.properties ]; then
source "./$OH_DIR/rsc/version.properties"
OH_VERSION=$VER_MAJOR.$VER_MINOR.$VER_RELEASE
else
echo "Error: Open Hospital not found! Exiting."
exit 1;
fi
# check for OH settings file and read values
if [ -f ./$OH_DIR/rsc/$OH_SETTINGS ]; then
echo "Reading OH settings file..."
. ./$OH_DIR/rsc/$OH_SETTINGS
OH_MODE=$MODE
OH_LANGUAGE=$LANGUAGE
OH_SINGLE_USER=$SINGLE_USER
OH_DOC_DIR=$OH_DOC_DIR
DEMO_DATA=$DEMODATA
API_SERVER=$APISERVER
fi
# check for database settings file and read values
if [ -f ./$OH_DIR/rsc/$DATABASE_SETTINGS ]; then
echo "Reading database settings file..."
# source "./$OH_DIR/rsc/$DATABASE_SETTINGS"
DATABASE_SERVER=$(cat $OH_DIR/rsc/$DATABASE_SETTINGS | grep "jdbc.url" | cut -d"/" -f3 | cut -d":" -f1)
DATABASE_PORT=$(cat $OH_DIR/rsc/$DATABASE_SETTINGS | grep "jdbc.url" | cut -d"/" -f3 | cut -d":" -f2)
DATABASE_NAME=$(cat $OH_DIR/rsc/$DATABASE_SETTINGS | grep "jdbc.url" | cut -d"/" -f4)
DATABASE_USER=$(cat $OH_DIR/rsc/$DATABASE_SETTINGS | grep "jdbc.username" | cut -d"=" -f2)
DATABASE_PASSWORD=$(cat $OH_DIR/rsc/$DATABASE_SETTINGS | grep "jdbc.password" | cut -d"=" -f2)
else
echo "Warning: configuration file $DATABASE_SETTINGS not found."
fi
}
###################################################################
function set_defaults {
# set default values for script variables
# config file generation - set default to off
##### if [ -n ${WRITE_CONFIG_FILES+x} ]; then
if [ -z "$WRITE_CONFIG_FILES" ]; then
WRITE_CONFIG_FILES="off"
fi
# OH mode - set default to PORTABLE
if [ -z "$OH_MODE" ]; then
OH_MODE="PORTABLE"
fi
# OH language - set default to en
if [ -z "$OH_LANGUAGE" ]; then
OH_LANGUAGE="en"
fi
# OH DOC DIR - set default to "doc" (../doc for oh)
if [ -z "$OH_DOC_DIR" ]; then
OH_DOC_DIR="doc"
fi
# set database creation script in chosen language
if [ -z "$DB_CREATE_SQL" ]; then
DB_CREATE_SQL="create_all_$OH_LANGUAGE.sql"
fi
# log level - set default to INFO
if [ -z "$LOG_LEVEL" ]; then
LOG_LEVEL="INFO"
fi
# single / multiuser - set "yes" for single user configuration
if [ -z "$OH_SINGLE_USER" ]; then
OH_SINGLE_USER="no"
fi
# demo data - set default to off
if [ -z "$DEMO_DATA" ]; then
DEMO_DATA="off"
fi
# api server - set default to off
if [ -z "$API_SERVER" ]; then
API_SERVER="off"
fi
# UI interface - set default to off
if [ -z "$UI_INTERFACE" ]; then
UI_INTERFACE="off"
fi
# EXPERT_MODE features - set default to off
if [ -z "$EXPERT_MODE" ]; then
EXPERT_MODE="off"
fi
# set escaped path (/ in place of \)
OH_PATH_ESCAPED=$(echo $OH_PATH | sed -e 's/\//\\\//g')
DICOM_DIR_ESCAPED=$(echo $DICOM_DIR | sed -e 's/\//\\\//g')
PHOTO_DIR_ESCAPED=$(echo $PHOTO_DIR | sed -e 's/\//\\\//g')
LOG_DIR_ESCAPED=$(echo $LOG_DIR | sed -e 's/\//\\\//g')
TMP_DIR_ESCAPED=$(echo $TMP_DIR | sed -e 's/\//\\\//g')
}
###################################################################
function set_db_name {
# set DATA_DIR with db name
DATA_DIR=$DEFAULT_DATADIR/$DATABASE_NAME
# set escaped values
DATA_DIR_ESCAPED=$(echo $DATA_DIR | sed -e 's/\//\\\//g')
}
###################################################################
function set_oh_mode {
# if $OH_SETTINGS is present set OH mode
if [ -f ./$OH_DIR/rsc/$OH_SETTINGS ]; then
echo "Configuring OH mode..."
######## $OH_SETTINGS OH mode configuration
echo "Setting OH mode to $OH_MODE in OH configuration file -> $OH_SETTINGS..."
sed -e "/^"MODE="/c"MODE=$OH_MODE"" -i ./$OH_DIR/rsc/$OH_SETTINGS
else
echo ""
echo ""
echo "Warning: $OH_SETTINGS file not found."
fi
echo "OH mode set to $OH_MODE"
}
###################################################################
function set_demo_data {
# set database name for demo data
case "$DEMO_DATA" in
*on*)
DATABASE_NAME=$DEMO_DATABASE
;;
*off*)
DATABASE_NAME="$DEFAULT_DATABASE_NAME"
;;
esac
}
###################################################################
function check_language {
# check for valid language selection
for lang in "${OH_LANGUAGE_LIST[@]}"; do
if [[ $lang == $OH_LANGUAGE ]]; then
echo ""
echo "Language set to $OH_LANGUAGE"
return 0;
fi
done
echo ""
echo "Invalid language option [$OH_LANGUAGE]: setting to default [en]"
OH_LANGUAGE=en
}
###################################################################
function set_language {
# set localized database creation script
DB_CREATE_SQL="create_all_$OH_LANGUAGE.sql"
# if $OH_SETTINGS is present set language
if [ -f ./$OH_DIR/rsc/$OH_SETTINGS ]; then
echo "Configuring OH language..."
######## $OH_SETTINGS language configuration
echo "Setting language to $OH_LANGUAGE in OH configuration file -> $OH_SETTINGS..."
sed -e "/^"LANGUAGE="/c"LANGUAGE=$OH_LANGUAGE"" -i ./$OH_DIR/rsc/$OH_SETTINGS
echo "Language set to $OH_LANGUAGE."
else
echo ""
echo "Warning: $OH_SETTINGS file not found."
fi
}
###################################################################
function set_log_level {
if [ -f ./$OH_DIR/rsc/$LOG4J_SETTINGS ]; then
echo ""
######## $LOG4J_SETTINGS log_level configuration
echo "Setting log level to $LOG_LEVEL in OH configuration file -> $LOG4J_SETTINGS..."
case "$LOG_LEVEL" in
*INFO*)
sed -e "s/DEBUG/$LOG_LEVEL/g" -i ./$OH_DIR/rsc/$LOG4J_SETTINGS
;;
*DEBUG*)
sed -e "s/INFO/$LOG_LEVEL/g" -i ./$OH_DIR/rsc/$LOG4J_SETTINGS
;;
*)
echo "Invalid log level: $LOG_LEVEL. Exiting."
exit 1
;;
esac
echo "Log level set to $LOG_LEVEL"
else
echo ""
echo "Warning: $LOG4J_SETTINGS file not found."
fi
}
###################################################################
function initialize_dir_structure {
# create directory structure
mkdir -p "./$TMP_DIR"
mkdir -p "./$LOG_DIR"
mkdir -p "./$DICOM_DIR"
mkdir -p "./$PHOTO_DIR"
mkdir -p "./$BACKUP_DIR"
}
###################################################################
function create_desktop_shortcut {
echo "Creating/updating OH shortcut on Desktop..."
# Create Desktop application entry
desktop_path=$(xdg-user-dir DESKTOP)
echo "[Desktop Entry]
Type=Application
# The version of the Desktop Entry Specification
Version=1.x
# The name of the application
Name=OpenHospital
# A comment which will be used as a tooltip
Comment=Open Hospital 1.x shortcut
# The path to the folder in which the executable is run
Path=$OH_PATH
# The executable of the application, possibly with arguments
Exec=$OH_PATH/$SCRIPT_NAME -Z
# The icon to display
Icon=$OH_PATH/oh.ico
# Describes whether this application needs to be run in a terminal or not
Terminal=true
# Describes the categories in which this entry should be shown
Categories=Utility;Application;
" > $desktop_path/OpenHospital.desktop
echo "Done!"
}
###################################################################
function java_lib_setup {
# NATIVE LIB setup
case $JAVA_ARCH in
64)
NATIVE_LIB_PATH="$OH_PATH/$OH_DIR/lib/native/Linux/amd64"
;;
32)
NATIVE_LIB_PATH="$OH_PATH/$OH_DIR/lib/native/Linux/i386"
;;
esac
# CLASSPATH setup
# include OH jar file
OH_CLASSPATH="$OH_PATH"/$OH_DIR/bin/$OH_GUI_JAR
# include all needed directories
OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/bundle
OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/rpt_base
OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/rpt_extra
OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/rpt_stat
OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/rsc
OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/rsc/images
# OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/rsc/icons # hardcoded
OH_CLASSPATH=$OH_CLASSPATH:"$OH_PATH"/$OH_DIR/lib
# include all jar files under lib/
DIRLIBS="$OH_PATH"/$OH_DIR/lib/*.jar
for i in ${DIRLIBS}
do
OH_CLASSPATH="$i":$OH_CLASSPATH
done
}
###################################################################
function java_check {
# check if JAVA_BIN is already set and it exists
if ( [ -z ${JAVA_BIN+x} ] || [ ! -x "$JAVA_BIN" ] ); then
# set default
echo "Setting default JAVA..."
JAVA_BIN="$OH_PATH/$JAVA_DIR/bin/java"
fi
# if JAVA_BIN is not found download JRE
if [ ! -x "$JAVA_BIN" ]; then
if [ ! -f "./$JAVA_DISTRO.$EXT" ]; then
echo "Warning - JAVA not found. Do you want to download it?"
get_confirmation;
# download java binaries
echo "Download $JAVA_DISTRO..."
wget -P ./ $JAVA_URL/$JAVA_DISTRO.$EXT
fi
echo "Unpacking $JAVA_DISTRO..."
tar xf ./$JAVA_DISTRO.$EXT -C ./
if [ $? -ne 0 ]; then
echo "Error unpacking Java. Exiting."
exit 1
fi
echo "JAVA unpacked successfully!"
echo "Removing downloaded file..."
rm ./$JAVA_DISTRO.$EXT
echo "Done!"
fi
echo "JAVA found!"
echo "Using $JAVA_BIN"
}
###################################################################
function mysql_check {
if [ ! -d "./$MYSQL_DIR" ]; then
if [ ! -f "./$MYSQL_DIR.$EXT" ]; then
echo "Warning - $MYSQL_NAME not found. Do you want to download it?"
get_confirmation;
# download mysql binary
echo "Downloading $MYSQL_DIR..."
wget -P ./ $MYSQL_URL/$MYSQL_DIR.$EXT
fi
echo "Unpacking $MYSQL_DIR..."
tar xf ./$MYSQL_DIR.$EXT -C ./
if [ $? -ne 0 ]; then
echo "Error unpacking $MYSQL_NAME. Exiting."
exit 1
fi
echo "$MYSQL_NAME unpacked successfully!"
echo "Removing downloaded file..."
rm ./$MYSQL_DIR.$EXT
echo "Done!"
fi
# check for mysqld binary
if [ -x ./$MYSQL_DIR/bin/mysqld_safe ]; then
echo "$MYSQL_NAME found!"
echo "Using $MYSQL_DIR"
else
echo "$MYSQL_NAME not found! Exiting."
exit 1
fi
# check for libaio
ldconfig -p | grep libaio > /dev/null;
if [ $? -eq 1 ]; then
echo "Error: libaio not found! Please install the library. Exiting."
exit 1
fi
# check for libncurses - version 5
ldconfig -p | grep libncurses.so.5 > /dev/null;
if [ $? -eq 1 ]; then
echo "Error: libncurses version 5 not found! Please install the library. Exiting."
exit 1
fi
}
###################################################################
function config_database {
echo "Checking for $MYSQL_NAME config file..."
if [ "$WRITE_CONFIG_FILES" = "on" ] || [ ! -f ./$CONF_DIR/$MYSQL_CONF_FILE ]; then
[ -f ./$CONF_DIR/$MYSQL_CONF_FILE ] && mv -f ./$CONF_DIR/$MYSQL_CONF_FILE ./$CONF_DIR/$MYSQL_CONF_FILE.old
# find a free TCP port to run MariaDB/MySQL starting from the default port
echo "Looking for a free TCP port for $MYSQL_NAME database..."
while [[ $(ss -tl4 sport = :$DATABASE_PORT | grep LISTEN) ]]; do
DATABASE_PORT=$(expr $DATABASE_PORT + 1)
done
echo "Found TCP port $DATABASE_PORT!"
echo "Writing $MYSQL_NAME config file..."
sed -e "s/DATABASE_SERVER/$DATABASE_SERVER/g" -e "s/DICOM_SIZE/$DICOM_MAX_SIZE/g" -e "s/OH_PATH_SUBSTITUTE/$OH_PATH_ESCAPED/g" \
-e "s/TMP_DIR/$TMP_DIR_ESCAPED/g" -e "s/DATA_DIR/$DATA_DIR_ESCAPED/g" -e "s/LOG_DIR/$LOG_DIR_ESCAPED/g" \
-e "s/DATABASE_PORT/$DATABASE_PORT/g" -e "s/MYSQL_DISTRO/$MYSQL_DIR/g" ./$CONF_DIR/$MYSQL_CONF_FILE.dist > ./$CONF_DIR/$MYSQL_CONF_FILE
fi
}
###################################################################
function initialize_database {
# create data directory
mkdir -p "./$DATA_DIR"
# initialize MariaDB/MySQL
echo "Initializing $MYSQL_NAME database on port $DATABASE_PORT..."
case "$MYSQL_DIR" in
*mariadb*)
./$MYSQL_DIR/scripts/mysql_install_db --basedir=./$MYSQL_DIR --datadir=./"$DATA_DIR" \
--auth-root-authentication-method=normal >> ./$LOG_DIR/$LOG_FILE 2>&1
;;
*mysql*)
./$MYSQL_DIR/bin/mysqld --initialize-insecure --basedir=./$MYSQL_DIR --datadir=./"$DATA_DIR" >> ./$LOG_DIR/$LOG_FILE 2>&1
;;
esac
if [ $? -ne 0 ]; then
echo "Error: $MYSQL_NAME initialization failed! Exiting."
exit 2
fi
}
###################################################################
function start_database {
echo "Checking if $MYSQL_NAME is running..."
if [ -f "$OH_PATH/$TMP_DIR/mysql.sock" ] || [ -f "$OH_PATH/$TMP_DIR/mysql.pid" ] ; then
echo "$MYSQL_NAME already running ! Exiting."
exit 1
fi
echo "Starting $MYSQL_NAME server... "
./$MYSQL_DIR/bin/mysqld_safe --defaults-file=./$CONF_DIR/$MYSQL_CONF_FILE >> ./$LOG_DIR/$LOG_FILE 2>&1 &
if [ $? -ne 0 ]; then
echo "Error: $MYSQL_NAME server not started! Exiting."
exit 2
fi
# wait till the MariaDB/MySQL tcp port is open
until nc -z $DATABASE_SERVER $DATABASE_PORT; do sleep 1; done
echo "$MYSQL_NAME server started! "
}
###################################################################
function set_database_root_pw {
# if using MySQL/MariaDB root password need to be set
echo "Setting $MYSQL_NAME $DATABASE_ROOT_USER password..."
./$MYSQL_DIR/bin/mysql -u $DATABASE_ROOT_USER --skip-password --host=$DATABASE_SERVER --port=$DATABASE_PORT --protocol=tcp -e "ALTER USER '$DATABASE_ROOT_USER'@'$DATABASE_SERVER' IDENTIFIED BY '$DATABASE_ROOT_PW';" >> ./$LOG_DIR/$LOG_FILE 2>&1
if [ $? -ne 0 ]; then
echo "Error: $MYSQL_NAME root password not set! Try resetting installation with option [X]. Exiting."
shutdown_database;
exit 2
fi
}
###################################################################
function create_database_user {
echo "Creating database user [$DATABASE_USER]..."
# create database user
./$MYSQL_DIR/bin/mysql -u $DATABASE_ROOT_USER -p$DATABASE_ROOT_PW --protocol=tcp --host=$DATABASE_SERVER --port=$DATABASE_PORT \
-e "CREATE USER '$DATABASE_USER'@'$DATABASE_SERVER' IDENTIFIED BY '$DATABASE_PASSWORD'; \
CREATE USER '$DATABASE_USER'@'%' IDENTIFIED BY '$DATABASE_PASSWORD';" >> ./$LOG_DIR/$LOG_FILE 2>&1
if [ $? -ne 0 ]; then
echo "Error: Database user creation failed! Exiting."
shutdown_database;
exit 2
fi
}
###################################################################
function create_database {
echo "Creating database [$DATABASE_NAME]..."
# create OH database
./$MYSQL_DIR/bin/mysql -u $DATABASE_ROOT_USER -p$DATABASE_ROOT_PW --protocol=tcp --host=$DATABASE_SERVER --port=$DATABASE_PORT \
-e "CREATE DATABASE $DATABASE_NAME CHARACTER SET utf8; GRANT ALL PRIVILEGES ON $DATABASE_NAME.* TO '$DATABASE_USER'@'$DATABASE_SERVER'; \
GRANT ALL PRIVILEGES ON $DATABASE_NAME.* TO '$DATABASE_USER'@'%' ; " >> ./$LOG_DIR/$LOG_FILE 2>&1
if [ $? -ne 0 ]; then
echo "Error: Database creation failed! Exiting."
shutdown_database;
exit 2
fi
}
###################################################################
function import_database {
echo "Checking for SQL creation script..."
# check for database creation script
if [ -f ./$SQL_DIR/$DB_CREATE_SQL ]; then
echo "Using SQL file $SQL_DIR/$DB_CREATE_SQL..."
else
echo "Error: No SQL file found! Exiting."
shutdown_database;
exit 2
fi
# create OH database structure
echo "Importing database [$DATABASE_NAME] with user [$DATABASE_USER@$DATABASE_SERVER]..."
cd "./$SQL_DIR"
# ../$MYSQL_DIR/bin/mysql --local-infile=1 -u $DATABASE_ROOT_USER -p$DATABASE_ROOT_PW --host=$DATABASE_SERVER --port=$DATABASE_PORT --protocol=tcp $DATABASE_NAME < ./$DB_CREATE_SQL >> ../$LOG_DIR/$LOG_FILE 2>&1
../$MYSQL_DIR/bin/mysql --local-infile=1 -u $DATABASE_USER -p$DATABASE_PASSWORD --host=$DATABASE_SERVER --port=$DATABASE_PORT --protocol=tcp $DATABASE_NAME < ./$DB_CREATE_SQL >> ../$LOG_DIR/$LOG_FILE 2>&1
if [ $? -ne 0 ]; then
echo "Error: Database not imported! Exiting."
shutdown_database;
cd "$CURRENT_DIR"
exit 2
fi
# EXPERIMENTAL ONLY
# workaround for hard coded password limit - execute extra sql script
# not needed anymore - see OP-1078
# if [ "$API_SERVER" = "on" ]; then
# echo "Setting admin password..."
# cd "$OH_PATH/$SQL_EXTRA_DIR/"
# $OH_PATH/$MYSQL_DIR/bin/mysql --local-infile=1 -u $DATABASE_ROOT_USER -p$DATABASE_ROOT_PW --host=$DATABASE_SERVER --port=$DATABASE_PORT --protocol=tcp $DATABASE_NAME < ./reset_admin_password_strong.sql >> ../../$LOG_DIR/$LOG_FILE 2>&1
# if [ $? -ne 0 ]; then
# echo "Error! Exiting."
# shutdown_database;
# cd "$CURRENT_DIR"
# exit 2
# fi
# fi
# end
cd "$OH_PATH"
}
###################################################################
function dump_database {
# save OH database if existing
if [ -x ./$MYSQL_DIR/bin/mysqldump ]; then
mkdir -p "$OH_PATH/$BACKUP_DIR"
echo "Dumping $MYSQL_NAME database..."
./$MYSQL_DIR/bin/mysqldump --skip-extended-insert -u $DATABASE_USER --password=$DATABASE_PASSWORD --host=$DATABASE_SERVER --port=$DATABASE_PORT --protocol=tcp $DATABASE_NAME > ./$BACKUP_DIR/mysqldump_$DATE.sql
if [ $? -ne 0 ]; then
echo "Error: Database not dumped! Exiting."
cd "$CURRENT_DIR"
shutdown_database;
exit 2
fi
else
echo "Error: No mysqldump utility found! Exiting."
shutdown_database;
cd "$CURRENT_DIR"
exit 2
fi
echo "$MYSQL_NAME dump file $BACKUP_DIR/mysqldump_$DATE.sql completed!"
}
###################################################################
function shutdown_database {
if [ "$OH_MODE" != "CLIENT" ]; then
echo "Shutting down $MYSQL_NAME..."
cd "$OH_PATH"
./$MYSQL_DIR/bin/mysqladmin -u $DATABASE_ROOT_USER -p$DATABASE_ROOT_PW --host=$DATABASE_SERVER --port=$DATABASE_PORT --protocol=tcp shutdown >> ./$LOG_DIR/$LOG_FILE 2>&1
# wait till the MySQL tcp port is closed
until !( nc -z $DATABASE_SERVER $DATABASE_PORT ); do sleep 1; done
echo "$MYSQL_NAME stopped!"
else
exit 1
fi
}
###################################################################
function test_database_connection {
# test if mysql client is available
if [ -x ./$MYSQL_DIR/bin/mysql ]; then
# test connection to the OH MySQL database
echo "Testing database connection..."
DBTEST=$(./$MYSQL_DIR/bin/mysql --user=$DATABASE_USER --password=$DATABASE_PASSWORD --host=$DATABASE_SERVER --port=$DATABASE_PORT --protocol=tcp -e "USE $DATABASE_NAME" >> ./$LOG_DIR/$LOG_FILE 2>&1; echo "$?" )
if [ $DBTEST -eq 0 ];then
echo "Database connection successfully established!"
else
echo "Error: can't connect to database! Exiting."
exit 2
fi
else
echo "Can't test database connection..."
fi
}
###################################################################
function write_api_config_file {
######## application.properties setup - OH API server
if [ "$WRITE_CONFIG_FILES" = "on" ] || [ ! -f ./$OH_DIR/rsc/$API_SETTINGS ]; then
[ -f ./$OH_DIR/rsc/$API_SETTINGS ] && mv -f ./$OH_DIR/rsc/$API_SETTINGS ./$OH_DIR/rsc/$API_SETTINGS.old
# generate OH API token and save to settings file
# JWT_TOKEN_SECRET=`openssl rand -base64 64 | xargs`
JWT_TOKEN_SECRET=`LC_ALL=C tr -dc A-Za-z0-9 </dev/urandom | head -c 66`
echo "Writing OH API configuration file -> $API_SETTINGS..."
sed -e "s/JWT_TOKEN_SECRET/"$JWT_TOKEN_SECRET"/g" \
-e "s&OH_API_PID&"$OH_API_PID"&g" \
-e "s/API_HOST:API_PORT/localhost:8080/g" \
./$OH_DIR/rsc/$API_SETTINGS.dist > ./$OH_DIR/rsc/$API_SETTINGS
fi
}
###################################################################
function copy_config_file {
# function to copy a single configuration file with backup
# usage: copy_config_file [file_name]
if [ "$WRITE_CONFIG_FILES" = "on" ] || [ ! -f ./$OH_DIR/rsc/$1 ]; then
[ -f ./$OH_DIR/rsc/$1 ] && mv -f ./$OH_DIR/rsc/$1 ./$OH_DIR/rsc/$1.old
echo "Writing OH configuration file -> $1..."
cp ./$OH_DIR/rsc/$1.dist ./$OH_DIR/rsc/$1
fi
}
###################################################################
function write_config_files {
# set up configuration files
echo "Checking for OH configuration files..."
######## IMAGING / DICOM setup
if [ "$WRITE_CONFIG_FILES" = "on" ] || [ ! -f ./$OH_DIR/rsc/$IMAGING_SETTINGS ]; then
[ -f ./$OH_DIR/rsc/$IMAGING_SETTINGS ] && mv -f ./$OH_DIR/rsc/$IMAGING_SETTINGS ./$OH_DIR/rsc/$IMAGING_SETTINGS.old
echo "Writing OH configuration file -> $IMAGING_SETTINGS..."
sed -e "s/DICOM_SIZE/$DICOM_MAX_SIZE/g" -e "s/OH_PATH_SUBSTITUTE/$OH_PATH_ESCAPED/g" \
-e "s/DICOM_STORAGE/$DICOM_STORAGE/g" -e "s/DICOM_DIR/$DICOM_DIR_ESCAPED/g" ./$OH_DIR/rsc/$IMAGING_SETTINGS.dist > ./$OH_DIR/rsc/$IMAGING_SETTINGS
fi
######## LOG4J_SETTINGS setup
if [ "$WRITE_CONFIG_FILES" = "on" ] || [ ! -f ./$OH_DIR/rsc/$LOG4J_SETTINGS ]; then
OH_LOG_DEST="$OH_PATH_ESCAPED/$LOG_DIR/$OH_LOG_FILE"
[ -f ./$OH_DIR/rsc/$LOG4J_SETTINGS ] && mv -f ./$OH_DIR/rsc/$LOG4J_SETTINGS ./$OH_DIR/rsc/$LOG4J_SETTINGS.old
echo "Writing OH configuration file -> $LOG4J_SETTINGS..."
sed -e "s/DBSERVER/$DATABASE_SERVER/g" -e "s/DBPORT/$DATABASE_PORT/" -e "s/DBUSER/$DATABASE_USER/g" -e "s/DBPASS/$DATABASE_PASSWORD/g" \
-e "s/DBNAME/$DATABASE_NAME/g" -e "s/LOG_LEVEL/$LOG_LEVEL/g" -e "s+LOG_DEST+$OH_LOG_DEST+g" \
./$OH_DIR/rsc/$LOG4J_SETTINGS.dist > ./$OH_DIR/rsc/$LOG4J_SETTINGS
fi
######## DATABASE_SETTINGS setup
if [ "$WRITE_CONFIG_FILES" = "on" ] || [ ! -f ./$OH_DIR/rsc/$DATABASE_SETTINGS ]; then
[ -f ./$OH_DIR/rsc/$DATABASE_SETTINGS ] && mv -f ./$OH_DIR/rsc/$DATABASE_SETTINGS ./$OH_DIR/rsc/$DATABASE_SETTINGS.old
echo "Writing OH database configuration file -> $DATABASE_SETTINGS..."
sed -e "s/DBSERVER/$DATABASE_SERVER/g" -e "s/DBPORT/$DATABASE_PORT/g" -e "s/DBNAME/$DATABASE_NAME/g" \
-e "s/DBUSER/$DATABASE_USER/g" -e "s/DBPASS/$DATABASE_PASSWORD/g" \
./$OH_DIR/rsc/$DATABASE_SETTINGS.dist > ./$OH_DIR/rsc/$DATABASE_SETTINGS
fi
######## OH_SETTINGS setup
if [ "$WRITE_CONFIG_FILES" = "on" ] || [ ! -f ./$OH_DIR/rsc/$OH_SETTINGS ]; then
[ -f ./$OH_DIR/rsc/$OH_SETTINGS ] && mv -f ./$OH_DIR/rsc/$OH_SETTINGS ./$OH_DIR/rsc/$OH_SETTINGS.old
echo "Writing OH configuration file -> $OH_SETTINGS..."
sed -e "s/OH_MODE/$OH_MODE/g" -e "s/OH_LANGUAGE/$OH_LANGUAGE/g" -e "s&OH_DOC_DIR&../$OH_DOC_DIR&g" \
-e "s/DEMODATA=off/"DEMODATA=$DEMO_DATA"/g" -e "s/YES_OR_NO/$OH_SINGLE_USER/g" \
-e "s/PHOTO_DIR/$PHOTO_DIR_ESCAPED/g" -e "s/APISERVER=off/"APISERVER=$API_SERVER"/g" \
./$OH_DIR/rsc/$OH_SETTINGS.dist > ./$OH_DIR/rsc/$OH_SETTINGS
fi
######## OH - Other settings setup
copy_config_file $EXAMINATION_SETTINGS;
copy_config_file $PRINTER_SETTINGS;
copy_config_file $SMS_SETTINGS;
copy_config_file $TELEMETRY_SETTINGS;
copy_config_file $XMPP_SETTINGS;
######## DEFAULT_CREDENTIALS_SETTINGS setup
if [ "$OH_MODE" == "PORTABLE" ]; then
copy_config_file $CRED_SETTINGS;
fi
if [ "$DEMO_DATA" = "on" ]; then
cp ./$OH_DIR/rsc/$DEMO_CRED_SETTINGS.dist ./$OH_DIR/rsc/$CRED_SETTINGS
fi
}
###################################################################
function clean_database {
# remove socket and pid file
echo "Removing socket and pid file..."
rm -rf ./$TMP_DIR/*
# remove database files
echo "Removing databases..."
# removing all databases under default data dir (prod / demo)
rm -rf ./$DEFAULT_DATADIR/*
}
###################################################################
function clean_conf_files {
# remove configuration files - leave only .dist files
echo "Removing configuration files..."
rm -f ./$CONF_DIR/$MYSQL_CONF_FILE
rm -f ./$OH_DIR/rsc/$OH_SETTINGS
rm -f ./$OH_DIR/rsc/$OH_SETTINGS.old
rm -f ./$OH_DIR/rsc/$DATABASE_SETTINGS
rm -f ./$OH_DIR/rsc/$DATABASE_SETTINGS.old
rm -f ./$OH_DIR/rsc/$EXAMINATION_SETTINGS
rm -f ./$OH_DIR/rsc/$EXAMINATION_SETTINGS.old
rm -f ./$OH_DIR/rsc/$IMAGING_SETTINGS
rm -f ./$OH_DIR/rsc/$IMAGING_SETTINGS.old
rm -f ./$OH_DIR/rsc/$LOG4J_SETTINGS
rm -f ./$OH_DIR/rsc/$LOG4J_SETTINGS.old
rm -f ./$OH_DIR/rsc/$PRINTER_SETTINGS
rm -f ./$OH_DIR/rsc/$PRINTER_SETTINGS.old
rm -f ./$OH_DIR/rsc/$SMS_SETTINGS
rm -f ./$OH_DIR/rsc/$SMS_SETTINGS.old
rm -f ./$OH_DIR/rsc/$TELEMETRY_SETTINGS
rm -f ./$OH_DIR/rsc/$TELEMETRY_SETTINGS.old
rm -f ./$OH_DIR/rsc/$XMPP_SETTINGS
rm -f ./$OH_DIR/rsc/$XMPP_SETTINGS.old
rm -f ./$OH_DIR/rsc/$API_SETTINGS
rm -f ./$OH_DIR/rsc/$API_SETTINGS.old
rm -f ./$OH_DIR/rsc/$CRED_SETTINGS
rm -f ./$OH_DIR/rsc/$CRED_SETTINGS.old
}
###################################################################
function clean_log_files {
# remove all log files
echo "Removing log files..."
rm -f ./$LOG_DIR/*
}
###################################################################
function start_gui {
echo "Starting Open Hospital GUI..."