Installer up to OB

1 files changed, 117 insertions, 0 deletions

diff --git a/base-install.sh b/base-install.sh
new file mode 100755
index 0000000..33df507
--- /dev/null
+++ b/base-install.sh
@@ -0,0 +1,117 @@
+#!/bin/bash
+#
+# Installs base packages for Ubuntu
+# Author: Andreas Maunz
+#
+
+if [ "$(id -u)" != "0" ]; then
+  echo "This script must be run as root" 1>&2
+  exit 1
+fi
+
+# Utils
+APTITUDE=`which aptitude`
+APT_CACHE=`which apt-cache`
+DCSS=`which debconf-set-selections`
+DPKG=`which dpkg`
+
+if [ ! -e $APTITUDE ]; then
+  echo "Aptitude missing. Install aptitude first." 1>&2
+  exit 1
+fi
+
+# Dest
+JAVA_CONF=$HOME/.bash_java_ot
+
+# Pkgs
+packs="lsb-release binutils gcc g++ gfortran wget hostname pwgen git-core raptor-utils r-base sun-java6-jdk libssl-dev zlib1g-dev libreadline-dev libmysqlclient-dev libcurl4-openssl-dev libxml2-dev libxslt1-dev libgsl0-dev sun-java6-jdk"
+
+echo "This installs missing base packages for Opentox-ruby on Ubuntu"
+echo "Your installed packages are safe and will not be updated."
+echo "A Java configuration is created and you are given the option to have it included in your '~.bashrc'."
+echo "Press <Return> to continue or <Ctrl+C> to abort."
+read
+
+echo "Checking for installed packages: "
+pack_arr=""
+for p in $packs; do
+  if $DPKG -s "$p" >/dev/null 2>&1; then
+     printf "%25s%15s\n" "'$p'" "Y"
+  else
+     printf "%25s%15s\n" "'$p'" "N"
+    pack_arr="$pack_arr $p"
+  fi
+done
+
+if [ -n "$pack_arr" ]; then
+  echo 
+  echo "Checking availablity of missing packages..."
+  echo -n "Updating package indices:					"
+  $APTITUDE update -y >/dev/null 2>&1
+  $APTITUDE upgrade -y >/dev/null 2>&1
+  echo "done."
+fi
+
+for p in $pack_arr; do
+  if [ -n "`$APT_CACHE search $p`" ] ; then
+     printf "%25s%15s\n" "'$p'" "Y"
+  else
+    printf "%25s%15s\n" "'$p'" "N"
+    pack_fail="$pack_fail $p"
+  fi
+done
+
+if [ -n "$pack_fail" ]; then
+  echo 
+  echo "WARNING: At least one missing package has no suitable installation candidate."
+  echo "Press <Return> to continue or <Ctrl+C> to abort."
+  read 
+fi
+
+echo
+echo "Installing missing packages, please wait..."
+pack_fail=""
+for p in $pack_arr; do
+  echo -n "'$p':					"
+  if $APTITUDE install "$p" -y >/dev/null 2>&1; then
+    printf "%25s%15s\n" "'$p'" "DONE"
+  else
+    printf "%25s%15s\n" "'$p'" "FAIL"
+  fi
+done
+
+if [ -n "$pack_fail" ]; then
+  echo 
+  echo "WARNING: At least one missing package could not be installed. Press <Return> to continue or <Ctrl+C> to abort."
+  read 
+fi
+
+echo 
+echo "Preparing JAVA..."
+if [ ! -f $JAVA_CONF ]; then
+
+  echo -n "Please provide a path for JAVA_HOME (hint: type echo \$JAVA_HOME as normal user): "
+  read USER_SUBMITTED_JAVA_HOME
+  JAVA_HOME="$USER_SUBMITTED_JAVA_HOME"
+
+  if [ ! -d "$JAVA_HOME" ]; then
+    echo "Directory '$JAVA_HOME' does not exist! Aborting..."
+    exit 1
+  fi
+
+  echo "JAVA_HOME=$JAVA_HOME" >> "$JAVA_CONF"
+  echo "PATH=$JAVA_HOME:\$PATH" >> "$JAVA_CONF"
+
+  echo "Java configuration has been stored in '$JAVA_CONF'."
+  echo -n "Answer 'y' if Java configuration should be linked to your .bashrc: "
+  read ANSWER_JAVA_CONF
+  if [ $ANSWER_JAVA_CONF = "y" ]; then
+    echo "source \"$JAVA_CONF\"" >> $HOME/.bashrc
+  fi
+
+else
+  echo "It seems JAVA is already configured ('$JAVA_CONF' exists)."
+fi
+
+echo
+echo "Installation finished."