etc/init.d/dm-cat-web-service

+#!/bin/bash
+
+#
+# dm-cat-web-service
+#
+# Starts the DM WebService daemon
+#
+# chkconfig: 345 98 98
+# description: controls DM Web Service daemon
+
+### BEGIN INIT INFO
+# Provides: dm-cat-web-service
+# Required-Start: $local_fs $network
+# Required-Stop: $local_fs $network
+# Default-Start:  2 3 4 5
+# Default-Stop: 0 1 6
+# Description: Controls DM CAT Web Service daemon
+### END INIT INFO
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Arguments
+ACTION=$1
+DM_DB_NAME=$2
+DM_DB_NAME=${DM_DB_NAME:=dm}
+
+# Set root to default if needed.
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/../..
+fi
+
+# Source environment file.
+DM_USER=`id -nu`
+DM_HOST=`hostname -s`
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+mkdir -p ${DM_INSTALL_DIR}/var/run
+mkdir -p ${DM_INSTALL_DIR}/var/log
+
+DM_DAEMON_NAME="${DM_DB_NAME}.CatWebService"
+DM_DAEMON_CMD=${DM_ROOT_DIR}/sbin/catWebService.py
+DM_PID_FILE=${DM_INSTALL_DIR}/var/run/${DM_DB_NAME}.cat-web-service.pid
+DM_CONFIG_FILE=${DM_INSTALL_DIR}/etc/${DM_DB_NAME}.cat-web-service.conf
+DM_DAEMON_START_ARGS="-d -p $DM_PID_FILE --config-file $DM_CONFIG_FILE"
+
+# Determine su command
+SU=su
+if [ -x /sbin/runuser ]; then
+    SU=runuser
+fi
+
+RETVAL=0
+start() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -eq 0 ]; then
+        PID=`cat $DM_PID_FILE`
+        echo $"$DM_DAEMON_NAME daemon is already running (pid: $PID)."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Starting $DM_DAEMON_NAME daemon: "	
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        $SU -m -c "${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}
+    fi
+	RETVAL=$?
+	[ $RETVAL -eq 0 ] &&  success $"$DM_DAEMON_NAME startup" || failure $"$DM_DAEMON_NAME startup"
+    echo
+    return $RETVAL
+}
+
+stop() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -ne 0 ]; then
+        echo $"$DM_DAEMON_NAME daemon is not running."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Stopping $DM_DAEMON_NAME daemon: "
+    PID=`cat $DM_PID_FILE`
+    kill $PID
+	RETVAL=$?
+    sleep 1
+    # Make sure we kill the process always, regardless of 
+    # what happened with first kill
+    kill -KILL $PID > /dev/null 2>&1
+	[ $RETVAL -eq 0 ] && rm -f $DM_PID_FILE && success $"$DM_DAEMON_NAME shutdown" || failure $"$DM_DAEMON_NAME shutdown"
+	echo
+    return $RETVAL
+}
+
+restart() {
+    stop
+    sleep 1
+    start
+}
+
+case "$ACTION" in
+    start)
+        start
+    ;;
+    stop)
+        stop
+    ;;
+    restart)
+        restart
+    ;;
+    status)
+        status -p $DM_PID_FILE "$DM_DAEMON_NAME" 2> /dev/null
+        RETVAL=$?
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        RETVAL=2
+esac
+
+exit $RETVAL

etc/init.d/dm-daq-services

+#!/bin/sh
+
+# Helper script to start and stop DAQ node services
+
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+
+# The list below defines order of starting/stopping services
+startList="mongodb mongo-express daq-web-service cat-web-service"
+stopList="cat-web-service daq-web-service mongo-express mongodb"
+restartList=$startList
+statusList=$startList
+
+# Check action
+action=$1
+case $action in
+    start|stop|restart|status)
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        exit 1
+esac
+
+# Perform action
+serviceList="\$"${action}List
+serviceList=`eval "echo $serviceList"`
+for service in $serviceList; do
+    $MY_DIR/dm-$service $action 
+    sleep 1
+done
+

etc/init.d/dm-daq-web-service

+#!/bin/bash
+
+#
+# dm-daq-web-service
+#
+# Starts the DM WebService daemon
+#
+# chkconfig: 345 98 98
+# description: controls DM Web Service daemon
+
+### BEGIN INIT INFO
+# Provides: dm-daq-web-service
+# Required-Start: $local_fs $network
+# Required-Stop: $local_fs $network
+# Default-Start:  2 3 4 5
+# Default-Stop: 0 1 6
+# Description: Controls DM DAQ Web Service daemon
+### END INIT INFO
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Arguments
+ACTION=$1
+DM_DB_NAME=$2
+DM_DB_NAME=${DM_DB_NAME:=dm}
+
+# Set root to default if needed.
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/../..
+fi
+
+# Source environment file.
+DM_USER=`id -nu`
+DM_HOST=`hostname -s`
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+mkdir -p ${DM_INSTALL_DIR}/var/run
+mkdir -p ${DM_INSTALL_DIR}/var/log
+
+DM_DAEMON_NAME="${DM_DB_NAME}.DaqWebService"
+DM_DAEMON_CMD=${DM_ROOT_DIR}/sbin/daqWebService.py
+DM_PID_FILE=${DM_INSTALL_DIR}/var/run/${DM_DB_NAME}.daq-web-service.pid
+DM_CONFIG_FILE=${DM_INSTALL_DIR}/etc/${DM_DB_NAME}.daq-web-service.conf
+DM_DAEMON_START_ARGS="-d -p $DM_PID_FILE --config-file $DM_CONFIG_FILE"
+
+# Determine su command
+SU=su
+if [ -x /sbin/runuser ]; then
+    SU=runuser
+fi
+
+RETVAL=0
+start() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -eq 0 ]; then
+        PID=`cat $DM_PID_FILE`
+        echo $"$DM_DAEMON_NAME daemon is already running (pid: $PID)."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Starting $DM_DAEMON_NAME daemon: "	
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        $SU -m -c "${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}
+    fi
+	RETVAL=$?
+	[ $RETVAL -eq 0 ] &&  success $"$DM_DAEMON_NAME startup" || failure $"$DM_DAEMON_NAME startup"
+    echo
+    return $RETVAL
+}
+
+stop() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -ne 0 ]; then
+        echo $"$DM_DAEMON_NAME daemon is not running."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Stopping $DM_DAEMON_NAME daemon: "
+    PID=`cat $DM_PID_FILE`
+    kill $PID
+	RETVAL=$?
+    sleep 1
+    # Make sure we kill the process always, regardless of 
+    # what happened with first kill
+    kill -KILL $PID > /dev/null 2>&1
+	[ $RETVAL -eq 0 ] && rm -f $DM_PID_FILE && success $"$DM_DAEMON_NAME shutdown" || failure $"$DM_DAEMON_NAME shutdown"
+	echo
+    return $RETVAL
+}
+
+restart() {
+    stop
+    sleep 1
+    start
+}
+
+case "$ACTION" in
+    start)
+        start
+    ;;
+    stop)
+        stop
+    ;;
+    restart)
+        restart
+    ;;
+    status)
+        status -p $DM_PID_FILE "$DM_DAEMON_NAME" 2> /dev/null
+        RETVAL=$?
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        RETVAL=2
+esac
+
+exit $RETVAL

etc/init.d/dm-ds-services

+#!/bin/sh
+
+# Helper script to start and stop DAQ node services
+
+MY_DIR=`dirname $0` && cd $MYDIR && MYDIR=`pwd`
+
+# The list below defines order of starting/stopping services
+startList="postgresql glassfish ds-web-service"
+stopList="ds-web-service glassfish postgresql"
+restartList=$startList
+statusList=$startList
+
+# Check action
+action=$1
+case $action in
+    start|stop|restart|status)
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        exit 1
+esac
+
+# Perform action
+serviceList="\$"${action}List
+serviceList=`eval "echo $serviceList"`
+for service in $serviceList; do
+    $MY_DIR/dm-$service $action 
+    sleep 1
+done
+

etc/init.d/dm-ds-web-service

+#!/bin/bash
+
+#
+# dm-ds-web-service
+#
+# Starts the DM WebService daemon
+#
+# chkconfig: 345 98 98
+# description: controls DM Web Service daemon
+
+### BEGIN INIT INFO
+# Provides: dm-ds-web-service
+# Required-Start: $local_fs $network
+# Required-Stop: $local_fs $network
+# Default-Start:  2 3 4 5
+# Default-Stop: 0 1 6
+# Description: Controls DM DS Web Service daemon
+### END INIT INFO
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Arguments
+ACTION=$1
+DM_DB_NAME=$2
+DM_DB_NAME=${DM_DB_NAME:=dm}
+
+# Set root to default if needed.
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/../..
+fi
+
+# Source environment file.
+DM_USER=`id -nu`
+DM_HOST=`hostname -s`
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+mkdir -p ${DM_INSTALL_DIR}/var/run
+mkdir -p ${DM_INSTALL_DIR}/var/log
+
+DM_DAEMON_NAME="${DM_DB_NAME}.DsWebService"
+DM_DAEMON_CMD=${DM_ROOT_DIR}/sbin/dsWebService.py
+DM_PID_FILE=${DM_INSTALL_DIR}/var/run/${DM_DB_NAME}.ds-web-service.pid
+DM_CONFIG_FILE=${DM_INSTALL_DIR}/etc/${DM_DB_NAME}.ds-web-service.conf
+DM_DAEMON_START_ARGS="-d -p $DM_PID_FILE --config-file $DM_CONFIG_FILE"
+
+# Determine su command
+SU=su
+if [ -x /sbin/runuser ]; then
+    SU=runuser
+fi
+
+RETVAL=0
+start() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -eq 0 ]; then
+        PID=`cat $DM_PID_FILE`
+        echo $"$DM_DAEMON_NAME daemon is already running (pid: $PID)."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Starting $DM_DAEMON_NAME daemon: "	
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        $SU -m -c "${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}
+    fi
+	RETVAL=$?
+	[ $RETVAL -eq 0 ] &&  success $"$DM_DAEMON_NAME startup" || failure $"$DM_DAEMON_NAME startup"
+    echo
+    return $RETVAL
+}
+
+stop() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -ne 0 ]; then
+        echo $"$DM_DAEMON_NAME daemon is not running."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Stopping $DM_DAEMON_NAME daemon: "
+    PID=`cat $DM_PID_FILE`
+    kill $PID
+	RETVAL=$?
+    sleep 1
+    # Make sure we kill the process always, regardless of 
+    # what happened with first kill
+    kill -KILL $PID > /dev/null 2>&1
+	[ $RETVAL -eq 0 ] && rm -f $DM_PID_FILE && success $"$DM_DAEMON_NAME shutdown" || failure $"$DM_DAEMON_NAME shutdown"
+	echo
+    return $RETVAL
+}
+
+restart() {
+    stop
+    sleep 1
+    start
+}
+
+case "$ACTION" in
+    start)
+        start
+    ;;
+    stop)
+        stop
+    ;;
+    restart)
+        restart
+    ;;
+    status)
+        status -p $DM_PID_FILE "$DM_DAEMON_NAME" 2> /dev/null
+        RETVAL=$?
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        RETVAL=2
+esac
+
+exit $RETVAL

etc/init.d/dm-glassfish

+#! /bin/sh
+### BEGIN INIT INFO
+# Provides:          glassfish
+# Required-Start:    $remote_fs $network $syslog
+# Required-Stop:     $remote_fs $network $syslog
+# Default-Start:     2 3 4 5
+# Default-Stop:      0 1 6
+# Short-Description: Starts GlassFish
+# Description:       Starts GlassFish application server
+### END INIT INFO
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Source networking configuration.
+. /etc/sysconfig/network
+
+# Set root to default if needed.
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/../..
+fi
+        
+# Source environment file.
+DM_USER=`id -nu`
+DM_HOST=`hostname -s`
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+export AS_JAVA=$DM_OPT_DIR/java/$DM_HOST_ARCH
+DM_GLASSFISH_DIR=$DM_OPT_DIR/glassfish
+DERBY_DIR=$DM_OPT_DIR/glassfish/javadb/bin
+
+DM_DAEMON_NAME=glassfish
+DM_DAEMON_CONTROL_CMD=$DM_GLASSFISH_DIR/bin/asadmin
+DM_DAEMON_START_ARGS="start-domain domain1"
+DM_DAEMON_STOP_ARGS="stop-domain domain1"
+DM_DAEMON_STATUS_CMDS="uptime list-domains list-applications list-jdbc-resources"
+
+start() {
+    echo -n $"Starting ${DM_DAEMON_NAME}: "       
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        su -m -c "${DM_DAEMON_CONTROL_CMD} ${DM_DAEMON_START_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CONTROL_CMD} ${DM_DAEMON_START_ARGS}
+    fi
+    RETVAL=$?
+    [ $RETVAL -eq 0 ] && success $"${DM_DAEMON_NAME} startup" || failure $"${DM_DAEMON_NAME} startup"
+    echo
+}
+
+stop() {
+    echo -n $"Stopping ${DM_DAEMON_NAME}: "       
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        su -m -c "${DM_DAEMON_CONTROL_CMD} ${DM_DAEMON_STOP_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CONTROL_CMD} ${DM_DAEMON_STOP_ARGS}
+    fi
+    RETVAL=$?
+    [ $RETVAL -eq 0 ] && success $"${DM_DAEMON_NAME} shutdown" || failure $"${DM_DAEMON_NAME} shutdown"
+    echo
+}
+
+status() {
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        for cmd in ${DM_DAEMON_STATUS_CMDS}; do
+            su -m -c "${DM_DAEMON_CONTROL_CMD} ${cmd}" ${DM_USER}
+        done
+    else
+        for cmd in ${DM_DAEMON_STATUS_CMDS}; do
+            ${DM_DAEMON_CONTROL_CMD} ${cmd}
+        done
+    fi
+}
+
+case "$1" in
+    start)
+        start
+    ;;
+    stop)
+        stop
+    ;;
+    restart)
+        stop
+        start
+    ;;
+    status)
+        status
+    ;;
+    *)
+        echo "Usage: $0 {start|stop|restart|status}"
+        exit 1
+    ;;
+esac
+
+

etc/init.d/dm-mongo-express

+#!/bin/bash
+
+#
+# dm-mongo-express
+#
+# Starts the DM Mongo Express daemon
+#
+# chkconfig: 345 98 98
+# description: controls DM Mongo Express daemon
+
+### BEGIN INIT INFO
+# Provides: dm-mongo-express
+# Required-Start: $local_fs $network
+# Required-Stop: $local_fs $network
+# Default-Start:  2 3 4 5
+# Default-Stop: 0 1 6
+# Description: Controls DM Mongo Express daemon
+### END INIT INFO
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Arguments
+ACTION=$1
+DM_DB_NAME=$2
+DM_DB_NAME=${DM_DB_NAME:=dm}
+
+# Set root to default if needed.
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/../..
+fi
+
+# Source environment file.
+DM_USER=`id -nu`
+DM_HOST=`hostname -s`
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+mkdir -p ${DM_INSTALL_DIR}/var/run
+mkdir -p ${DM_INSTALL_DIR}/var/log
+
+DM_MONGODB_HOST=${DM_MONGODB_HOST:=127.0.0.1}
+DM_MONGODB_PORT=${DM_MONGODB_PORT:=27017}
+DM_NODE_DIR=${DM_OPT_DIR}/node
+DM_FOREVER_DIR=${DM_NODE_DIR}/bin/node_modules/forever
+DM_MONGO_EXPRESS_DIR=${DM_NODE_DIR}/bin/node_modules/mongo-express
+
+DM_DAEMON_NAME="${DM_DB_NAME}.MongoExpress"
+DM_DAEMON_CMD=${DM_FOREVER_DIR}/bin/forever
+DM_DAEMON_WORK_DIR=${DM_INSTALL_DIR}/var/run/mongo-express
+DM_DAEMON_PID_FILE=${DM_INSTALL_DIR}/var/run/mongo-express.pid
+DM_DAEMON_LOG_FILE=${DM_INSTALL_DIR}/var/log/mongo-express.log
+DM_DAEMON_OUT_FILE=${DM_INSTALL_DIR}/var/log/mongo-express.put
+DM_DAEMON_ERR_FILE=${DM_INSTALL_DIR}/var/log/mongo-express.err
+DM_DAEMON_START_ARGS="start \
+    --sourceDIR $DM_MONGO_EXPRESS_DIR \
+    --workingDir $DM_DAEMON_WORK_DIR \
+    -p $MONGO_EXPRESS_FOREVER_PATH \
+    --pidFile $DM_DAEMON_PID_FILE \
+    -l $DM_DAEMON_LOG_FILE \
+    -o $DM_DAEMON_OUT_FILE \
+    -e $DM_DAEMON_ERR_FILE \
+    --append \
+    --killSignal=SIGTERM \
+    $DM_MONGO_EXPRESS_DIR/app.js"
+
+mkdir -p $DM_DAEMON_WORK_DIR
+
+# Determine su command
+SU=su
+if [ -x /sbin/runuser ]; then
+    SU=runuser
+fi
+
+RETVAL=0
+start() {
+    # Check if service is already running
+    status -p $DM_DAEMON_PID_FILE > /dev/null 2>&1
+    if [ $? -eq 0 ]; then
+        PID=`cat $DM_DAEMON_PID_FILE`
+        echo $"$DM_DAEMON_NAME daemon is already running (pid: $PID)."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Starting $DM_DAEMON_NAME daemon: "	
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        $SU -m -c "${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}
+    fi
+	RETVAL=$?
+	[ $RETVAL -eq 0 ] &&  success $"$DM_DAEMON_NAME startup" || failure $"$DM_DAEMON_NAME startup"
+    echo
+    return $RETVAL
+}
+
+stop() {
+    # Check if service is already running
+    status -p $DM_DAEMON_PID_FILE > /dev/null 2>&1
+    if [ $? -ne 0 ]; then
+        echo $"$DM_DAEMON_NAME daemon is not running."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Stopping $DM_DAEMON_NAME daemon: "
+    PID=`cat $DM_DAEMON_PID_FILE`
+    # forever currently cannot seem to stop node apps
+    #$DM_DAEMON_CMD stop $PID
+    killall -KILL node    
+    RETVAL=$?
+    [ $RETVAL -eq 0 ] && rm -f $DM_DAEMON_PID_FILE && success $"$DM_DAEMON_NAME shutdown" || failure $"$DM_DAEMON_NAME shutdown"
+    echo
+    return $RETVAL
+}
+
+restart() {
+    stop
+    sleep 1
+    start
+}
+
+case "$ACTION" in
+    start)
+        start
+    ;;
+    stop)
+        stop
+    ;;
+    restart)
+        restart
+    ;;
+    status)
+        status -p $DM_DAEMON_PID_FILE "$DM_DAEMON_NAME" 2> /dev/null
+        RETVAL=$?
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        RETVAL=2
+esac
+
+exit $RETVAL

etc/init.d/dm-mongodb

+#!/bin/bash
+
+#
+# dm-mongodb
+#
+# Starts the DM Mongo DB daemon
+#
+# chkconfig: 345 98 98
+# description: controls DM Mongo DB daemon
+
+### BEGIN INIT INFO
+# Provides: dm-mongodb
+# Required-Start: $local_fs $network
+# Required-Stop: $local_fs $network
+# Default-Start:  2 3 4 5
+# Default-Stop: 0 1 6
+# Description: Controls DM Mongo DB daemon
+### END INIT INFO
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Arguments
+ACTION=$1
+DM_DB_NAME=$2
+DM_DB_NAME=${DM_DB_NAME:=dm}
+
+# Set root to default if needed.
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/../..
+fi
+
+# Source environment file.
+DM_USER=`id -nu`
+DM_HOST=`hostname -s`
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+mkdir -p ${DM_INSTALL_DIR}/var/run
+mkdir -p ${DM_INSTALL_DIR}/var/log
+
+DM_MONGODB_HOST=${DM_MONGODB_HOST:=127.0.0.1}
+DM_MONGODB_PORT=${DM_MONGODB_PORT:=27017}
+DM_MONGODB_DIR=${DM_OPT_DIR}/mongodb/${DM_HOST_ARCH}
+DM_MONGODB_DATA_DIR=${DM_MONGODB_DIR}/data
+mkdir -p ${DM_MONGODB_DATA_DIR}
+
+DM_DAEMON_NAME="${DM_DB_NAME}.MongoDB"
+DM_DAEMON_CMD=${DM_MONGODB_DIR}/bin/mongod
+DM_DAEMON_PID_FILE=${DM_INSTALL_DIR}/var/run/mongodb.pid
+DM_DAEMON_LOG_FILE=${DM_INSTALL_DIR}/var/log/mongodb.log
+DM_DAEMON_START_ARGS="--fork --pidfilepath $DM_DAEMON_PID_FILE --logpath $DM_DAEMON_LOG_FILE --bind_ip $DM_MONGODB_HOST --port $DM_MONGODB_PORT --dbpath $DM_MONGODB_DATA_DIR"
+
+# Determine su command
+SU=su
+if [ -x /sbin/runuser ]; then
+    SU=runuser
+fi
+
+RETVAL=0
+start() {
+    # Check if service is already running
+    status -p $DM_DAEMON_PID_FILE > /dev/null 2>&1
+    if [ $? -eq 0 ]; then
+        PID=`cat $DM_DAEMON_PID_FILE`
+        echo $"$DM_DAEMON_NAME daemon is already running (pid: $PID)."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Starting $DM_DAEMON_NAME daemon: "	
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        $SU -m -c "${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}
+    fi
+	RETVAL=$?
+	[ $RETVAL -eq 0 ] &&  success $"$DM_DAEMON_NAME startup" || failure $"$DM_DAEMON_NAME startup"
+    echo
+    return $RETVAL
+}
+
+stop() {
+    # Check if service is already running
+    status -p $DM_DAEMON_PID_FILE > /dev/null 2>&1
+    if [ $? -ne 0 ]; then
+        echo $"$DM_DAEMON_NAME daemon is not running."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Stopping $DM_DAEMON_NAME daemon: "
+    PID=`cat $DM_DAEMON_PID_FILE`
+    kill $PID
+    RETVAL=$?
+    [ $RETVAL -eq 0 ] && rm -f $DM_DAEMON_PID_FILE && success $"$DM_DAEMON_NAME shutdown" || failure $"$DM_DAEMON_NAME shutdown"
+    echo
+    return $RETVAL
+}
+
+restart() {
+    stop
+    sleep 1
+    start
+}
+
+case "$ACTION" in
+    start)
+        start
+    ;;
+    stop)
+        stop
+    ;;
+    restart)
+        restart
+    ;;
+    status)
+        status -p $DM_DAEMON_PID_FILE "$DM_DAEMON_NAME" 2> /dev/null
+        RETVAL=$?
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        RETVAL=2
+esac
+
+exit $RETVAL

etc/init.d/dm-postgresql

+#!/bin/sh
+
+#
+# dm-postgresql 
+#
+# Starts the PostgreSQL server used for DM software
+# 
+# Modified from the original RHEL postgresql init.d script
+#
+# chkconfig: 345 97 97
+# description: controls Dm database server
+
+### BEGIN INIT INFO
+# Provides: dm-postgresql 
+# Required-Start: $local_fs
+# Required-Stop: $local_fs
+# Default-Start:  2 3 4 5
+# Default-Stop: 0 1 6
+# Description: controls Dm database server
+### END INIT INFO
+
+# PGVERSION is the full package version, e.g., 8.4.0
+#PGVERSION=9.3.4
+PGVERSION=9.6.1
+# PGMAJORVERSION is major version, e.g., 8.4 (this should match PG_VERSION)
+PGMAJORVERSION=`echo "$PGVERSION" | sed 's/^\([0-9]*\.[0-9]*\).*$/\1/'`
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Get function listing for cross-distribution logic.
+TYPESET=`typeset -f|grep "declare"`
+
+# Get config.
+. /etc/sysconfig/network
+
+# Find the name of the script
+# NAME=`basename $0`
+NAME="DM Database"
+
+# For SELinux we need to use 'runuser' not 'su'
+SU=su
+if [ -x /sbin/runuser ]; then
+    SU=runuser
+fi
+
+# Check if we are root before running command
+runCommand() {
+    _cmd="$@"
+    if [ `id -u` = 0 ]; then
+        $SU -l $PGUSER -c "_$cmd" >> $PGSTARTUPLOG 2>&1 < /dev/null
+    else
+        eval "$_cmd" >> $PGSTARTUPLOG 2>&1 < /dev/null
+    fi
+}
+
+
+# Set defaults for configuration variables
+if [ -z $DM_ROOT_DIR ]; then
+    myDir=`dirname $0`
+    currentDir=`pwd` && cd $myDir/../..
+    export DM_ROOT_DIR=`pwd`
+    cd $currentDir
+fi
+DM_SETUP_FILE=$DM_ROOT_DIR/setup.sh
+if [ ! -f $DM_SETUP_FILE ]; then
+    echo "Setup file $DM_SETUP_FILE does not exist."
+    exit 2
+fi
+. $DM_SETUP_FILE > /dev/null
+
+PGROOT=$DM_OPT_DIR/postgresql/$DM_HOST_ARCH
+PGENGINE=$PGROOT/bin
+#PGUSER=dm
+PGUSER=`whoami`
+PGGROUP=`groups $PGUSER | cut -f3 -d ' '`
+PGPORT=11136    # 111-DM
+PGDATA=$PGROOT/data
+
+PGRUNDIR=$DM_INSTALL_DIR/var/run
+PGLOGDIR=$DM_INSTALL_DIR/var/log
+
+PGSTARTUPLOG=$PGLOGDIR/postgresql
+PGPIDFILE=$PGRUNDIR/postmaster.pid
+PGLOCKFILE=$PGRUNDIR/postmaster.lock
+
+mkdir -p $PGDATA && chown -R $PGUSER:$PGGROUP $PGDATA || exit 1
+mkdir -p $PGRUNDIR && chown -R $PGUSER:$PGGROUP $PGRUNDIR || exit 1
+mkdir -p $PGLOGDIR && chown -R $PGUSER:$PGGROUP $PGLOGDIR || exit 1
+
+export PGDATA
+export PGPORT
+export LD_LIBRARY_PATH=$PGROOT/lib
+
+# Check that networking is up.
+# Pretty much need it for postmaster.
+[ "${NETWORKING}" = "no" ] && exit 1
+
+[ -f "$PGENGINE/postmaster" ] || exit 1
+
+script_result=0
+
+start() {
+    PSQL_START=$"Starting ${NAME} service: "
+
+    # Make sure startup-time log file is valid
+    if [ ! -e "$PGSTARTUPLOG" -a ! -h "$PGSTARTUPLOG" ]; then
+        touch "$PGSTARTUPLOG" || exit 1
+        chown $PGUSER:$PGGROUP "$PGSTARTUPLOG"
+        chmod go-rwx "$PGSTARTUPLOG"
+        [ -x /sbin/restorecon ] && /sbin/restorecon "$PGSTARTUPLOG"
+    fi
+
+    # Check for the PGDATA structure
+    if [ -f "$PGDATA/PG_VERSION" ] && [ -d "$PGDATA/base" ]; then
+        # Check version of existing PGDATA
+        if [ x`cat "$PGDATA/PG_VERSION"` != x"$PGMAJORVERSION" ]; then
+            SYSDOCDIR="(Your System's documentation directory)"
+            echo
+            echo $"An old version of the database format was found."
+            echo $"You need to upgrade the data format before using PostgreSQL."
+            echo $"See $SYSDOCDIR/postgresql-$PGVERSION/README.rpm-dist for more information."
+            exit 1
+        fi
+
+    # No existing PGDATA! Warn the user to initdb it.
+    else
+        echo
+        echo "$PGDATA is missing. Use \"$0 initdb\" to initialize the cluster first."
+        echo_failure
+        echo
+        exit 1
+    fi
+
+    echo -n "$PSQL_START"
+    cmd="$PGENGINE/postmaster -p '$PGPORT' -D '$PGDATA' ${PGOPTS} &"
+    runCommand $cmd
+    sleep 2
+    pid=`pidof -s "$PGENGINE/postmaster"`
+    if [ $pid ] && [ -f "$PGDATA/postmaster.pid" ]; then
+        success "$PSQL_START"
+        touch $PGLOCKFILE
+        head -n 1 "$PGDATA/postmaster.pid" > $PGPIDFILE
+        echo
+    else
+        failure "$PSQL_START"
+        echo
+        script_result=1
+    fi
+}
+
+stop() {
+    echo -n $"Stopping ${NAME} service: "
+    cmd="export LD_LIBRARY_PATH=$LD_LIBRARY_PATH; $PGENGINE/pg_ctl stop -D '$PGDATA' -s -m fast" 
+    runCommand $cmd
+    ret=$? 
+    if [ $ret -eq 0 ]; then
+        echo_success
+    else
+        echo_failure
+        script_result=1
+    fi
+    echo
+    rm -f $PGPIDFILE
+    rm -f $PGLOCKFILE
+}
+
+restart() {
+    stop
+    start
+}
+
+condrestart() {
+    [ -e $PGLOCKFILE ] && restart
+}
+
+condstop() {
+    [ -e $PGLOCKFILE ] && stop
+}
+
+reload() {
+    cmd="export LD_LIBRARY_PATH=$LD_LIBRARY_PATH; $PGENGINE/pg_ctl reload -D '$PGDATA' -s" 
+    runCommand $cmd
+}
+
+initdb() {
+    if [ -f "$PGDATA/PG_VERSION" ]; then
+        echo -n "Data directory is not empty!"
+        echo_failure
+        echo
+        script_result=1
+    else
+        echo -n $"Initializing database: "
+        if [ ! -e "$PGDATA" -a ! -h "$PGDATA" ]; then
+            mkdir -p "$PGDATA" || exit 1
+            chown $PGUSER:$PGGROUP "$PGDATA"
+            chmod go-rwx "$PGDATA"
+        fi
+
+        # Clean up SELinux tagging for PGDATA
+        [ -x /sbin/restorecon ] && /sbin/restorecon "$PGDATA"
+
+        # Make sure the startup-time log file is OK, too
+        if [ ! -e "$PGSTARTUPLOG" -a ! -h "$PGSTARTUPLOG" ]; then
+            touch "$PGSTARTUPLOG" || exit 1
+            chown $PGUSER:$PGGROUP "$PGSTARTUPLOG"
+            chmod go-rwx "$PGSTARTUPLOG"
+            [ -x /sbin/restorecon ] && /sbin/restorecon "$PGSTARTUPLOG"
+        fi
+
+        # Initialize the database
+        cmd="$PGENGINE/initdb --pgdata='$PGDATA' --auth='ident'"
+        runCommand $cmd
+
+        # Create directory for postmaster log
+        mkdir -p "$PGDATA/pg_log"
+        chown $PGUSER:$PGGROUP "$PGDATA/pg_log"
+        chmod go-rwx "$PGDATA/pg_log"
+
+        if [ -f "$PGDATA/PG_VERSION" ]; then
+            echo_success
+        else
+            echo_failure
+            script_result=1
+        fi
+        echo
+    fi
+}
+
+# This script is slightly unusual in that the name of the daemon (postmaster)
+# is not the same as the name of the subsystem (postgresql)
+
+# See how we were called.
+case "$1" in
+    start)
+        start
+        ;;
+    stop)
+        stop
+        ;;
+    status)
+        status postmaster
+        script_result=$?
+        ;;
+    restart)
+        restart
+        ;;
+    condrestart)
+        condrestart
+        ;;
+    condstop)
+        condstop
+        ;;
+    reload|force-reload)
+        reload
+        ;;
+    initdb)
+        initdb
+        ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart|condrestart|condstop|reload|force-reload|initdb}"
+        exit 1
+esac
+
+exit $script_result

etc/init.d/dm-proc-web-service

+#!/bin/bash
+
+#
+# dm-proc-web-service
+#
+# Starts the DM PROC WebService daemon
+#
+# chkconfig: 345 98 98
+# description: controls DM PROC Web Service daemon
+
+### BEGIN INIT INFO
+# Provides: dm-proc-web-service
+# Required-Start: $local_fs $network
+# Required-Stop: $local_fs $network
+# Default-Start:  2 3 4 5
+# Default-Stop: 0 1 6
+# Description: Controls DM PROC Web Service daemon
+### END INIT INFO
+
+# Source function library.
+. /etc/rc.d/init.d/functions
+
+# Arguments
+ACTION=$1
+DM_DB_NAME=$2
+DM_DB_NAME=${DM_DB_NAME:=dm}
+
+# Set root to default if needed.
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/../..
+fi
+
+# Source environment file.
+DM_USER=`id -nu`
+DM_HOST=`hostname -s`
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+mkdir -p ${DM_INSTALL_DIR}/var/run
+mkdir -p ${DM_INSTALL_DIR}/var/log
+
+DM_DAEMON_NAME="${DM_DB_NAME}.ProcWebService"
+DM_DAEMON_CMD=${DM_ROOT_DIR}/sbin/procWebService.py
+DM_PID_FILE=${DM_INSTALL_DIR}/var/run/${DM_DB_NAME}.proc-web-service.pid
+DM_CONFIG_FILE=${DM_INSTALL_DIR}/etc/${DM_DB_NAME}.proc-web-service.conf
+DM_DAEMON_START_ARGS="-d -p $DM_PID_FILE --config-file $DM_CONFIG_FILE"
+
+# Determine su command
+SU=su
+if [ -x /sbin/runuser ]; then
+    SU=runuser
+fi
+
+RETVAL=0
+start() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -eq 0 ]; then
+        PID=`cat $DM_PID_FILE`
+        echo $"$DM_DAEMON_NAME daemon is already running (pid: $PID)."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Starting $DM_DAEMON_NAME daemon: "	
+    # Check if we're a privileged user
+    if [ `id -u` = 0 -a ${DM_USER} != "root" ]; then
+        $SU -m -c "${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}" ${DM_USER}
+    else
+        ${DM_DAEMON_CMD} ${DM_DAEMON_START_ARGS}
+    fi
+	RETVAL=$?
+	[ $RETVAL -eq 0 ] &&  success $"$DM_DAEMON_NAME startup" || failure $"$DM_DAEMON_NAME startup"
+    echo
+    return $RETVAL
+}
+
+stop() {
+    # Check if service is already running
+    status -p $DM_PID_FILE > /dev/null 2>&1
+    if [ $? -ne 0 ]; then
+        echo $"$DM_DAEMON_NAME daemon is not running."	
+        RETVAL=1
+        return $RETVAL
+    fi
+    echo -n $"Stopping $DM_DAEMON_NAME daemon: "
+    PID=`cat $DM_PID_FILE`
+    kill $PID
+	RETVAL=$?
+    sleep 1
+    # Make sure we kill the process always, regardless of 
+    # what happened with first kill
+    kill -KILL $PID > /dev/null 2>&1
+	[ $RETVAL -eq 0 ] && rm -f $DM_PID_FILE && success $"$DM_DAEMON_NAME shutdown" || failure $"$DM_DAEMON_NAME shutdown"
+	echo
+    return $RETVAL
+}
+
+restart() {
+    stop
+    sleep 1
+    start
+}
+
+case "$ACTION" in
+    start)
+        start
+    ;;
+    stop)
+        stop
+    ;;
+    restart)
+        restart
+    ;;
+    status)
+        status -p $DM_PID_FILE "$DM_DAEMON_NAME" 2> /dev/null
+        RETVAL=$?
+    ;;
+    *)
+        echo $"Usage: $0 {start|stop|status|restart}"
+        RETVAL=2
+esac
+
+exit $RETVAL

etc/setup.sh.template

+#!/bin/sh
+
+export DM_ROOT_DIR=
+export DM_WEB_SERVICE_PROTOCOL=https
+export DM_DS_WEB_SERVICE_HOST=
+export DM_DS_WEB_SERVICE_PORT=
+export DM_DAQ_WEB_SERVICE_HOST=
+export DM_DAQ_WEB_SERVICE_PORT=
+export DM_CAT_WEB_SERVICE_HOST=
+export DM_CAT_WEB_SERVICE_PORT=
+export DM_PROC_WEB_SERVICE_HOST=
+export DM_PROC_WEB_SERVICE_PORT=
+export DM_STATION_NAME=
+export DM_ALLOWED_EXPERIMENT_TYPES=TEST
+
+setupFile=$DM_ROOT_DIR/setup.sh
+if [ ! -f $setupFile ]; then
+    echo "Cannot find setup file: $setupFile"
+    exit 1
+fi
+source $setupFile > /dev/null

lib/python

+../src/python
\ No newline at end of file

sbin/catWebService.py

+../src/python/dm/cat_web_service/service/catWebService.py
\ No newline at end of file

sbin/daqWebService.py

+../src/python/dm/daq_web_service/service/daqWebService.py
\ No newline at end of file

sbin/dm_backup.sh

+#!/bin/sh
+
+#
+# Script used for backing up DM database + web app
+# Deployment configuration can be set in etc/$DM_DM_DB_NAME.deploy.conf file
+#
+# Usage:
+#
+# $0 [DM_DB_NAME [DM_BACKUP_DIR]]
+#
+
+DM_DB_NAME=dm
+DM_DB_HOST=127.0.0.1
+DM_DB_PORT=11136
+DM_DB_ADMIN_USER=postgres
+DM_DB_ADMIN_PASSWORD=
+
+CURRENT_DIR=`pwd`
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+cd $CURRENT_DIR
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/..
+fi
+DM_SQL_DIR=$DM_ROOT_DIR/db/sql/dm
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null 
+
+# Use first argument as db name, if provided
+if [ ! -z "$1" ]; then
+    DM_DB_NAME=$1
+fi
+echo "Backing up $DM_DB_NAME"
+
+# Look for deployment file in etc directory, and use it to override
+# default entries
+deployConfigFile=$DM_ROOT_DIR/etc/${DM_DB_NAME}.deploy.conf
+if [ -f $deployConfigFile ]; then
+    echo "Using deployment config file: $deployConfigFile"
+    . $deployConfigFile
+else
+    echo "Deployment config file $deployConfigFile not found, using defaults"
+fi
+
+# Determine run directory
+if [ -z "${DM_INSTALL_DIR}" ]; then
+    DM_INSTALL_DIR=$DM_ROOT_DIR/..
+fi
+
+# Second argument overrides directory with db population scripts
+#timestamp=`date +%Y%m%d.%H%M%S`
+timestamp=`date +%Y%m%d`
+DM_BACKUP_DIR=$2
+if [ -z $DM_BACKUP_DIR ]; then
+    DM_BACKUP_DIR=$DM_INSTALL_DIR/backup/$DM_DB_NAME/$timestamp
+fi
+backupFile=${DM_DB_NAME}.backup.$timestamp.sql
+fullBackupFilePath=$DM_BACKUP_DIR/$backupFile
+
+# Read password
+sttyOrig=`stty -g`
+stty -echo
+read -p "Enter $DM_DB_NAME user password: " DM_DB_USER_PASSWORD
+stty $sttyOrig
+echo
+
+DM_DB_USER_PASSWORD_FILE=/tmp/${DM_DB_NAME}.${DM_DB_USER}.passwd
+echo $DM_DB_HOST:$DM_DB_PORT:$DM_DB_NAME:$DM_DB_USER:$DM_DB_USER_PASSWORD > $DM_DB_USER_PASSWORD_FILE && chmod 600 $DM_DB_USER_PASSWORD_FILE || exit 1
+
+pgDumpCmd="PGPASSFILE=$DM_DB_USER_PASSWORD_FILE pg_dump -C -c -w --column-inserts -p $DM_DB_PORT -h $DM_DB_HOST -U $DM_DB_USER -d $DM_DB_NAME"
+
+cleanup() {
+    rm -f $DM_DB_USER_PASSWORD
+}
+
+execute() {
+    eval "$@"
+}
+
+echo
+echo "Using DB backup directory: $DM_BACKUP_DIR"
+
+mkdir -p $DM_BACKUP_DIR
+eval $pgDumpCmd > $fullBackupFilePath || ( cleanup && exit 1 )
+
+nTables=`grep -n "Data for Name" $fullBackupFilePath | grep TABLE | wc -l`
+echo "Processing $nTables tables"
+
+tableCnt=0
+processingFile=$DM_BACKUP_DIR/process.txt
+while [ $tableCnt -lt $nTables ]; do
+    tableCnt=`expr $tableCnt + 1`
+    headLine=$tableCnt
+    tailLine=2
+    echo "Working on table #: $tableCnt" 
+    grep -n "TABLE DATA" $fullBackupFilePath | head -$headLine | tail -$tailLine > $processingFile
+    dbTable=`cat $processingFile | head -1 | awk '{print $5}' | sed 's?;??g'`
+    echo "Creating sql script for $dbTable"
+    targetFile=$DM_BACKUP_DIR/populate_$dbTable.sql
+    pgDumpCmd="PGPASSFILE=$DM_DB_USER_PASSWORD_FILE pg_dump -C -a -t $dbTable -w --column-inserts -p $DM_DB_PORT -h $DM_DB_HOST -U $DM_DB_USER -d $DM_DB_NAME"
+   eval $pgDumpCmd > $targetFile || ( cleanup && exit 1 )
+done
+rm -f $processingFile
+
+# Backup web app
+echo "Backing up $DM_DB_NAME web app"
+rsync -arlvP $DM_SUPPORT_DIR/glassfish/linux-x86_64/glassfish/domains/domain1/autodeploy/$DM_DB_NAME.war $DM_BACKUP_DIR
+
+cleanup
+echo "Backup of $DM_DB_NAME is done."
+
+
+
+

sbin/dm_configure_web_portal.sh

+#!/bin/sh
+
+#
+# Script used for configuring DM webapp
+# Deployment configuration can be set in etc/$DM_DB_NAME.deploy.conf file
+#
+# Usage:
+#
+# $0 [DM_DB_NAME]
+#
+
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/..
+fi
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 2
+fi
+. ${DM_ENV_FILE} > /dev/null
+
+# Use first argument as db name, if provided
+DM_DB_NAME=${DM_DB_NAME:=dm}
+if [ ! -z "$1" ]; then
+    DM_DB_NAME=$1
+fi
+echo "Using DB name: $DM_DB_NAME"
+
+# Look for deployment file in etc directory, and use it to override
+# default entries
+deployConfigFile=$DM_ROOT_DIR/etc/${DM_DB_NAME}.deploy.conf
+if [ -f $deployConfigFile ]; then
+    echo "Using deployment config file: $deployConfigFile"
+    . $deployConfigFile
+else
+    echo "Deployment config file $deployConfigFile not found, using defaults"
+fi
+
+DM_INSTALL_DIR=${DM_INSTALL_DIR:=$DM_ROOT_DIR/..}
+DM_SYSTEM_PASSWORD_FILE=${DM_INSTALL_DIR}/etc/${DM_SYSTEM_USER}.system.passwd
+DM_HOST_ARCH=`uname | tr [A-Z] [a-z]`-`uname -m`
+
+JAVA_HOME=$DM_OPT_DIR/java/$DM_HOST_ARCH
+GLASSFISH_DIR=$DM_OPT_DIR/glassfish
+
+export AS_JAVA=$JAVA_HOME
+ASADMIN_CMD=$GLASSFISH_DIR/bin/asadmin 
+
+DM_DB_HOST=${DM_DB_HOST:=localhost}
+DM_DB_PORT=${DM_DB_PORT:=11136}
+DM_DB_USER=${DM_DB_USER:=dm}
+DM_DB_PASSWORD=${DM_DB_PASSWORD:=dm}
+DM_DB_POOL=postgresql_${DM_DB_NAME}_DbPool
+DM_DATA_SOURCE=${DM_DB_NAME}_DataSource
+DM_DOMAIN=domain1
+
+# copy db driver
+echo "Copying db driver"
+rsync -ar $DM_ROOT_DIR/src/java/DmWebPortal/lib/postgresql*.jdbc41.jar $GLASSFISH_DIR/glassfish/domains/${DM_DOMAIN}/lib/ext
+
+# Check password from file
+passwordFile=$DM_INSTALL_DIR/etc/$DM_DB_NAME.db.passwd
+if [ -f $passwordFile ]; then
+    DM_DB_PASSWORD=`cat $passwordFile`
+fi
+
+# restart server
+echo "Restarting glassfish"
+$ASADMIN_CMD stop-domain ${DM_DOMAIN}
+$ASADMIN_CMD start-domain ${DM_DOMAIN}
+
+# create JDBC connection pool
+echo "Creating JDBC connection pool $DM_DB_POOL"
+$ASADMIN_CMD create-jdbc-connection-pool --datasourceclassname org.postgresql.ds.PGSimpleDataSource --restype javax.sql.DataSource --property user=${DM_DB_USER}:password=${DM_DB_PASSWORD}:driverClass="org.postgresql.Driver":portNumber=${DM_DB_PORT}:databaseName=${DM_DB_NAME}:serverName=${DM_DB_HOST}:url="jdbc\:postgresql\://${DM_DB_HOST}\:${DM_DB_PORT}/${DM_DB_NAME}" ${DM_DB_POOL}
+
+# create JDBC resource associated with this connection pool
+echo "Creating JDBC resource $DM_DATA_SOURCE"
+$ASADMIN_CMD create-jdbc-resource --connectionpoolid ${DM_DB_POOL} ${DM_DATA_SOURCE}
+
+# test the connection settings 
+echo "Testing connection"
+$ASADMIN_CMD ping-connection-pool $DM_DB_POOL || exit 1
+
+# Get system account password
+if [ ! -f "$DM_SYSTEM_PASSWORD_FILE" ]; then
+    sttyOrig=`stty -g`
+    stty -echo
+    read -p "Enter system password for the $DM_SYSTEM_USER user: " DM_SYSTEM_PASSWORD
+    echo
+    stty $sttyOrig
+    echo $DM_SYSTEM_PASSWORD > $DM_SYSTEM_PASSWORD_FILE
+    chmod 600 $DM_SYSTEM_PASSWORD_FILE
+
+    # Add dm system user to the DB
+    echo "Adding $DM_SYSTEM_USER system user to the database"
+    dm-add-user --username=$DM_SYSTEM_USER --first-name=System --last-name=Account --password-file=$DM_SYSTEM_PASSWORD_FILE || exit 1
+    dm-add-user-system-role --username=$DM_SYSTEM_USER --role-name=Administrator || exit 1
+fi
+

sbin/dm_create_ca.sh

+#!/bin/bash
+
+sbindir=`dirname $0` 
+
+# Set root/run directories
+if [ -z $DM_ROOT_DIR ]; then
+    cd $sbindir/..
+    export DM_ROOT_DIR=`pwd`
+fi
+if [ -z $DM_INSTALL_DIR ]; then
+    cd $DM_ROOT_DIR/..
+    export DM_INSTALL_DIR=`pwd`
+fi
+
+CA_ROOT=$DM_INSTALL_DIR/etc/CA
+CA_CONFIG=$DM_ROOT_DIR/etc/dm.openssl.conf
+CA_DESC="DM Certificate Authority"
+LOG_FILE=/tmp/dm-ca.log.$$
+LOCKFILE=$CA_ROOT/dm-ca.lock
+
+echo "Creating $CA_DESC"
+
+# Check for lock file
+if [ -f $LOCKFILE ]; then
+    if [ "x$1" != "x--force" ]; then
+        echo "$0 has already been run and there is no need to re-run it."
+        exit -1
+    else
+        # Clean up CA...
+        rm -rf $CA_ROOT
+    fi
+fi
+
+# Prep directory
+HOSTNAME=`hostname`
+mkdir -p $CA_ROOT/newcerts
+mkdir -p $CA_ROOT/certs
+mkdir -p $CA_ROOT/certreqs
+mkdir -p $CA_ROOT/private
+mkdir -p $CA_ROOT/crl
+touch $CA_ROOT/index.txt
+echo "01" > $CA_ROOT/serial
+openssl req -days 3650 -nodes -new -x509 -keyout $CA_ROOT/private/cakey.pem -out $CA_ROOT/cacert.pem -config $CA_CONFIG >> $LOG_FILE 2>&1 << EOF
+
+
+
+
+$CA_DESC
+
+EOF
+
+#Set the lockfile
+if [ $? -eq 0 ]; then
+    echo "Created $CA_DESC"
+    touch $LOCKFILE
+    exit 0
+else
+    echo "Error creating CA: check '$LOG_FILE'."
+    exit -2
+fi

sbin/dm_create_db.sh

+#!/bin/sh
+
+#
+# Script used for creating DM database
+# Deployment configuration can be set in etc/$DM_DB_NAME.deploy.conf file
+#
+# Usage:
+#
+# $0 [DM_DB_NAME [DM_DB_SCRIPTS_DIR]]
+#
+
+DM_DB_NAME=dm
+DM_DB_HOST=127.0.0.1
+DM_DB_PORT=11136
+DM_DB_ADMIN_USER=postgres
+DM_DB_ADMIN_PASSWORD=
+
+CURRENT_DIR=`pwd`
+MY_DIR=`dirname $0` && cd $MY_DIR && MY_DIR=`pwd`
+cd $CURRENT_DIR
+
+if [ -z "${DM_ROOT_DIR}" ]; then
+    DM_ROOT_DIR=$MY_DIR/..
+fi
+
+DM_INSTALL_DIR=${DM_INSTALL_DIR:=$DM_ROOT_DIR/..}
+DM_SQL_DIR=$DM_ROOT_DIR/db
+DM_ETC_DIR=$DM_INSTALL_DIR/etc
+DM_RUN_DIR=$DM_INSTALL_DIR/var/run
+DM_ENV_FILE=${DM_ROOT_DIR}/setup.sh
+if [ ! -f ${DM_ENV_FILE} ]; then
+    echo "Environment file ${DM_ENV_FILE} does not exist." 
+    exit 1
+fi
+. ${DM_ENV_FILE} > /dev/null 
+
+# DM_SUPPORT_DIR should now be defined.
+if [ -z "$DM_SUPPORT_DIR" ]; then
+    echo "Invalid environment file ${DM_ENV_FILE}: DM_SUPPORT_DIR is not defined."
+    exit 1
+fi
+
+# Use first argument as db name, if provided
+if [ ! -z "$1" ]; then
+    DM_DB_NAME=$1
+fi
+DM_DB_USER=$DM_DB_NAME
+echo "Using DB name: $DM_DB_NAME"
+
+# Look for deployment file in etc directory, and use it to override
+# default entries
+deployConfigFile=$DM_ROOT_DIR/etc/${DM_DB_NAME}.deploy.conf
+if [ -f $deployConfigFile ]; then
+    echo "Using deployment config file: $deployConfigFile"
+    . $deployConfigFile
+else
+    echo "Deployment config file $deployConfigFile not found, using defaults"
+fi
+
+# Second argument overrides directory with db population scripts
+DM_DB_SCRIPTS_DIR=${DM_DB_SCRIPTS_DIR:=$DM_SQL_DIR}
+if [ ! -z "$2" ]; then
+    DM_DB_SCRIPTS_DIR=$2
+fi
+if [ ! -d $DM_DB_SCRIPTS_DIR ]; then
+    echo "DB Scripts directory $DM_DB_SCRIPTS_DIR does not exist."
+    exit 1
+fi
+
+echo "Using DB scripts directory: $DM_DB_SCRIPTS_DIR"
+
+PG_DIR=$DM_OPT_DIR/postgresql/$DM_HOST_ARCH
+PG_CONTROL_SCRIPT=$DM_ROOT_DIR/etc/init.d/dm-postgresql
+PG_DATA_DIR=$PG_DIR/data
+PG_HBA_CONF=$PG_DATA_DIR/pg_hba.conf
+DB_LOCK_FILE=${DM_RUN_DIR}/${DM_DB_NAME}.db.lock
+DB_CREATE_SCRIPT=${DM_ROOT_DIR}/db/create_dm_db.sql
+
+execute() {
+    msg="$@"
+    if [ ! -z "$DM_DB_ADMIN_PASSWORD" ]; then
+        sedCmd="s?$DM_DB_ADMIN_PASSWORD?\\*\\*\\*\\*\\*\\*?g"
+        echo "Executing: $@" | sed -e $sedCmd
+    else
+        echo "Executing: $@"
+    fi
+    eval "$@"
+}
+
+createDb() {
+    if [ -f $DB_LOCK_FILE ]; then
+        echo "Database lock file $DB_LOCK_FILE already exists, will not proceed."
+        return 1
+    fi
+    echo "Creating database $DM_DB_NAME"
+    ${PG_DIR}/bin/createdb -U $DM_DB_USER -h $DM_DB_HOST -p $DM_DB_PORT $DM_DB_NAME || return 1
+    echo "Creating database schema for $DM_DB_NAME"
+    dbCreateScript=/tmp/`basename $DB_CREATE_SCRIPT.$$`
+    cmd="cat $DB_CREATE_SCRIPT | sed 's?OWNER TO.*?OWNER TO $DM_DB_USER;?g' > $dbCreateScript"
+    eval $cmd
+    ${PG_DIR}/bin/psql -U $DM_DB_USER -h $DM_DB_HOST -p $DM_DB_PORT -d $DM_DB_NAME -f $dbCreateScript || return 1
+    rm -f $dbCreateScript
+    touch $DB_LOCK_FILE
+}
+
+createDbUser() {
+    _dbUser=$1
+    shift 1
+    _createFlags=$@
+
+    # create user
+    ${PG_DIR}/bin/createuser -h $DM_DB_HOST -p $DM_DB_PORT $_createFlags $_dbUser || return 1
+}
+
+modifyDbUserPassword() {
+    _dbUser=$1
+    _dbPassword=$2
+    _tmpFile=/tmp/$$.sql
+    echo "alter user $_dbUser with password '$_dbPassword';" > $_tmpFile
+    $PG_DIR/bin/psql -h $DM_DB_HOST -p $DM_DB_PORT -d postgres -f $_tmpFile
+    rm -f $_tmpFile
+}
+
+# Check for failed earlier attempt
+if [ -f $PG_HBA_CONF.orig ]; then
+    echo "File $PG_HBA_CONF.orig exists, refusing to proceed."
+    exit 1
+fi
+
+# Initialize db if needed
+dbAction=restart
+createDbRootUser=false
+if [ ! -f $PG_HBA_CONF ]; then
+    $PG_CONTROL_SCRIPT initdb || exit 1
+    dbAction=start
+    createDbRootUser=true
+fi
+
+# Modify db permissions, restart db.
+echo "Modifying db access permissions"
+mv $PG_HBA_CONF $PG_HBA_CONF.orig
+cat $PG_HBA_CONF.orig | sed 's?host.*all.*all.*127.*?host all all 127.0.0.1/32 trust?g' | sed 's?host.*all.*all.*::1/128.*?host all all ::1/128 trust?g' > $PG_HBA_CONF || exit 1
+echo "Restarting database server"
+$PG_CONTROL_SCRIPT $dbAction
+
+# Create db root user if needed
+sttyOrig=`stty -g`
+if [ $createDbRootUser = "true" ]; then
+    # Read db password if needed 
+    if [ -z "$DM_DB_ADMIN_PASSWORD" ]; then
+        stty -echo
+        read -p "Enter DB password for the $DM_DB_ADMIN_USER (DB root) user: " DM_DB_ADMIN_PASSWORD
+        echo
+        stty $sttyOrig
+    fi
+
+    # Create postgres user 
+    echo "Creating $DM_DB_ADMIN_USER"
+    createDbUser $DM_DB_ADMIN_USER -E -s || exit 1
+    modifyDbUserPassword $DM_DB_ADMIN_USER $DM_DB_ADMIN_PASSWORD || exit 1
+fi
+
+# Read user db password if needed 
+if [ -z "$DM_DB_USER_PASSWORD" ]; then
+    stty -echo
+    read -p "Enter DB password for the $DM_DB_USER user: " DM_DB_USER_PASSWORD
+    echo
+    stty $sttyOrig
+fi
+
+# Create db user unless we are running this script under the same 
+# account, when user will be created
+echo "Creating $DM_DB_USER"
+if [ $DM_DB_USER != `whoami` ]; then
+    createDbUser $DM_DB_USER -E -d || exit 1
+fi
+modifyDbUserPassword $DM_DB_USER $DM_DB_USER_PASSWORD || exit 1
+
+# Create db password file
+mkdir -p $DM_ETC_DIR
+mkdir -p $DM_RUN_DIR
+passwordFile=$DM_ETC_DIR/$DM_DB_NAME.db.passwd
+echo $DM_DB_USER_PASSWORD > $passwordFile
+chmod 600 $passwordFile
+
+# Create db
+echo "Creating database: $DM_DB_NAME"
+createDb || exit 1
+
+# populate db
+cd $CURRENT_DIR && cd $DM_DB_SCRIPTS_DIR
+DM_DB_TABLES="\
+  experiment_type \
+  experiment_station \
+  allowed_experiment_station_experiment_type \
+  experiment \
+  storage \
+  endpoint \
+  data_folder \
+  user_info \
+  system_role_type \
+  experiment_role_type \
+  user_system_role \
+  user_experiment_role 
+"
+for dbTable in $DM_DB_TABLES; do
+    dbFile=populate_$dbTable.sql
+    if [ -f $dbFile ]; then
+        echo "Populating $dbTable using $dbFile script"
+        execute ${PG_DIR}/bin/psql -U $DM_DB_USER -h $DM_DB_HOST -p $DM_DB_PORT -d $DM_DB_NAME -f $dbFile || exit 1
+    else
+        echo "$dbFile not found, skipping $dbTable update"
+    fi
+done
+
+# cleanup
+echo "Restoring db access permissions"
+if [ $createDbRootUser = "true" ]; then
+    # db was just created, enable password access
+    cat $PG_HBA_CONF.orig | sed 's?host.*all.*all.*127.*?host all all 127.0.0.1/32 md5?g' | sed 's?host.*all.*all.*::1/128.*?host all all ::1/128 md5?g' > $PG_HBA_CONF || exit 1
+    rm -f $PG_HBA_CONF.orig 
+else
+    # no changes needed to original hba file
+    mv $PG_HBA_CONF.orig $PG_HBA_CONF
+fi
+
+echo "Restarting database server"
+$PG_CONTROL_SCRIPT restart
+
+echo "Database $DM_DB_NAME created successfully"
+echo
+

sbin/dm_create_server_cert.sh

+#!/bin/bash
+
+sbindir=`dirname $0` 
+# Set root/run directories
+if [ -z $DM_ROOT_DIR ]; then
+    cd $sbindir/..
+    export DM_ROOT_DIR=`pwd`
+fi
+if [ -z $DM_INSTALL_DIR ]; then
+    cd $DM_ROOT_DIR/..
+    export DM_INSTALL_DIR=`pwd`
+fi
+CA_ROOT=$DM_INSTALL_DIR/etc/CA
+CA_CONFIG=$DM_ROOT_DIR/etc/dm.openssl.conf
+
+LOG_FILE=/tmp/dm-server-cert.log.$$
+
+SERVER_NAME=$1
+SERVER_CN=$2
+ADMIN_EMAIL=$3
+
+if [ $# -ne 3 ]; then
+    echo "Usage: $0 <server type> <server description> <admin email>"
+    exit 1
+fi 
+
+CERT_DIR=$CA_ROOT/certs
+CERT_REQ_DIR=$CA_ROOT/certreqs
+
+REQUEST_CMD="openssl req -days 3650 -nodes -new -keyout $CERT_DIR/$SERVER_NAME.key -out $CERT_REQ_DIR/$SERVER_NAME.csr -extensions server -config $CA_CONFIG"
+SIGN_CMD="openssl ca -days 3650 -out $CERT_DIR/$SERVER_NAME.crt -in $CERT_REQ_DIR/$SERVER_NAME.csr -extensions server -config $CA_CONFIG"
+$REQUEST_CMD >> $LOG_FILE 2>&1 << EOF
+
+
+
+
+$SERVER_CN
+$ADMIN_EMAIL
+
+
+EOF
+
+if [ $? -ne 0 ]; then
+    echo "Error creating server certificate, check '$LOG_FILE'."
+    exit -1
+fi
+
+$SIGN_CMD >> $LOG_FILE 2>&1 << EOF
+y
+y
+EOF
+
+if [ $? -eq 0 ]; then
+    chmod 400 $CERT_DIR/*
+    exit 0
+else
+    echo "Error creating server certificate, check '$LOG_FILE'."
+    exit -1
+fi
+

sbin/dm_create_user_cert.sh

+#!/bin/bash
+
+# Set root/run directories
+if [ -z $DM_ROOT_DIR ]; then
+    cd $sbindir/..
+    export DM_ROOT_DIR=`pwd`
+fi
+if [ -z $DM_INSTALL_DIR ]; then
+    cd $DM_ROOT_DIR/..
+    export DM_INSTALL_DIR=`pwd`
+fi
+CA_ROOT=$DM_INSTALL_DIR/etc/CA
+CA_CONFIG=$DM_ROOT_DIR/etc/dm.openssl.conf
+LOG_FILE=/tmp/dm-user-cert.log.$$
+
+USERNAME=$1
+USER_CN=$2
+USER_EMAIL=$3
+
+if [ $# -ne 3 ]; then
+    echo "Usage: $0 <username> <user cn> <user email>"
+    exit 1
+fi 
+
+CERT_DIR=$CA_ROOT/certs
+CERT_REQ_DIR=$CA_ROOT/certreqs
+
+REQUEST_CMD="openssl req -days 3650 -nodes -new -keyout $CERT_DIR/$USERNAME.key -out $CERT_REQ_DIR/$USERNAME.csr -config $CA_CONFIG"
+SIGN_CMD="openssl ca -days 3650 -out $CERT_DIR/$USERNAME.crt -in $CERT_REQ_DIR/$USERNAME.csr -config $CA_CONFIG"
+$REQUEST_CMD >> $LOG_FILE 2>&1 << EOF
+
+
+
+
+$USER_CN
+$USER_EMAIL
+
+
+EOF
+
+if [ $? -ne 0 ]; then
+    echo "Error creating server certificate, check '$LOG_FILE'."
+    exit -1
+fi
+
+$SIGN_CMD >> $LOG_FILE 2>&1 << EOF
+y
+y
+EOF
+
+if [ $? -eq 0 ]; then
+    chmod 400 $CERT_DIR/*
+    exit 0
+else
+    echo "Error creating server certificate, check '$LOG_FILE'."
+    exit -1
+fi
+