Script that automates labkey setup

labkey_setup_ubuntu.sh

#!/bin/sh

echo 'WARNING!!  THIS SETUP IS NOT INTENDED'
echo 'FOR A PRODUCTION ENVIRONMENT IN ANY CAPACITY!!!'
sleep 3

STARTDIR=$(PWD)
mkdir installspacepg
cd ./installspacepg

# install subversion
echo 'Beginning setup'
sudo apt-get update
sudo apt-get install subversion

# install and configure tomcat
echo 'setting up tomcat'
sudo groupadd tomcat
sudo useradd -s /bin/false -g tomcat -d /opt/tomcat tomcat
echo 'This link has been hardcoded and may not work...'
sleep 1
wget http://www-eu.apache.org/dist/tomcat/tomcat-8/v8.5.33/bin/apache-tomcat-8.5.33.tar.gz
filename=$(ls | grep tomcat.*.tar.gz)
file_size_kb=`du -k "$filename" | cut -f1`
if ((file_size_kb < 7000)) ; then echo 'WARNING! tomcat file possible corrupted!  Exiting...' ; exit 1 ; fi
echo 'A cursory check did not reveal any problems with the tomcat download.'
echo 'However, if you would like to verify the checksum, stop the script and do so'
echo 'Otherwise, installation will continue in 5 seconds...'
sleep 7

if [ ! -d /opt/tomcat ] ; then
  sudo mkdir /opt/tomcat
  sudo tar xzvf apache-tomcat-8*tar.gz -C /opt/tomcat --strip-components=1
else
  echo 'WARNING!  It looks like tomcat has already been installed!'
  echo 'Please verify it has not, and that the directory /opt/tomcat does not exist'
  echo 'Exiting...'
  exit 2
fi

cd /opt/tomcat/
sudo chgrp -R tomcat /opt/tomcat
sudo chmod -R g+r conf
sudo chmod g+x conf
sudo chown -R tomcat webapps/ work/ temp/ logs/
sudo cp tomcat.service tomcat.bk # in case things go...poorly

JAVA_HOME=$(sudo update-java-alternatives -l | rev | cut -d\  -f1 | rev)
JHOME=$(echo "$JAVA_HOME" | sed 's#/#\\/#g')
# hat trick: use alternative syntax to format the string in sed as \/usr\/local 
# thus when variable expansion occurs, sed will write /usr/local
sed -i -e "s/JAVA_HOME=.*/JAVA_HOME=$JHOME/g" tomcat.service
# finish setup
sudo systemctl daemon-reload
sudo systemctl start tomcat
CHECKTOMCAT=$(sudo systemctl status tomcat | grep Active | cut -d: -f1 | tr -d '\ ')
if [[ "$CHECKTOMCAT" = 'Active' ]] ; then echo 'Tomcat running' ; else echo 'WARNING! Tomcat does not appear to be active. Exiting...' ; exit 3 ; fi
sudo ufw allow 8080

echo 'enabling Tomcat to always run on startup'
sudo systemctl enable tomcat

# postgresql setup
sudo apt-get install postgresql postgresql-contrib
PGRESCONF=$(sudo find /etc/postgresql -name 'pg_hba.*' -print)
sudo sed -i '1s/^/local    postgres     postgres     peer/' file
sudo service postgresql restart
echo 'In the resulting prompt, type the following, replacing $PASSWORDSTRING with your desired password'
echo 'followed by pressing the return key:'
echo ''
echo "ALTER USER postgres PASSWORD 'PASSWORDSTRING'; \q" # note: this has not been tested, alternative is to press Ctrl-D
sleep 1
sudo -u postgres psql
sleep 2
echo 'reverting postgresql'
sed -i.bak '1d' sedTest.txt 
sudo service postgresql restart

# other env variables 
echo 'export CATALINA_HOME=$HOME/apps/tomcat' >> ${HOME}/.bashrc
echo 'export LABKEY_HOME=$HOME/labkey/trunk' >> ${HOME}/.bashrc
echo 'export LABKEY_GWT_USER_OVERRIDE="gwt-user-firefox"' >> ${HOME}/.bashrc
echo 'export PATH=$LABKEY_HOME/build/deploy/bin:$PATH' >> ${HOME}/.bashrc

# NOTE: if using LabKey < 18.2, also complete the Node.js and npm steps
echo 'Setup complete.  Please open a new bash window'
echo 'and complete the steps for Gradle Configuration at'
echo 'https://www.labkey.org/Documentation/wiki-page.view?name=devMachine'