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#!/bin/sh
#
# Installs Opentox Webservices.
# Author: Christoph Helma, Andreas Maunz.
SELF=$(basename $0 -install)
OT_PREFIX="$HOME/opentox-ruby"
OT_CONFIG="$HOME/.opentox"
RUBY_VER="1.9.3-p125"
RUBY_DWL="http://ftp.ruby-lang.org/pub/ruby/1.9"
RUBY_DIR="$HOME/.rbenv/versions/$RUBY_VER"
FMINER_BRANCH="development"
[ "`id -u`" = "0" ] && echo "This script must be run as non-root." 1>&2 && exit 1
# check wd is root of service
DIR=`pwd`
if echo $DIR | grep "algorithm/bin" >/dev/null 2>&1 ; then cd ..; fi
# check main directories present
([ -d $OT_PREFIX ] && [ -d $OT_CONFIG ]) || (echo "Main directories missing." 1>&2 && exit 1)
[ -d $OT_PREFIX/opentox-server ] || (echo "Warning: opentox-server missing." 1>&2)
# load main config
! [ -f $OT_CONFIG/opentox-ui.sh ] && echo "Main config file missing." 1>&2 && exit 1 || . $OT_CONFIG/opentox-ui.sh
# check utils
utils="git rbenv curl gem make"
for u in $utils; do
eval `echo $u | tr "[:lower:]" "[:upper:]"`=`which $u` || (echo "'$u' missing. Install '$u' first." 1>&2 && exit 1)
done
# util functions
run_cmd ()
{
local cmd="$1"; local title="$2"
printf "%50s" "'$title'"
if ! eval $cmd >>$LOG 2>&1 ; then
printf "%30s\n" "FAIL"
echo "Last 10 lines of log:"
tail -10 "$LOG"
exit 1
fi
printf "%30s\n" "DONE"
}
install_ruby() {
printf "\n%50s\n" "RUBY"
local DIR=`pwd`
if ! $RBENV versions $RUBY_VER | grep $RUBY_VER>/dev/null 2>&1; then
[ -d $DIR/tmp ] || mkdir -p $DIR/tmp && cd $DIR/tmp
([ -d $DIR/tmp/ruby-$RUBY_VER ] || $CURL $RUBY_DWL/ruby-$RUBY_VER.tar.gz 2>/dev/null | tar xz) && cd ruby-$RUBY_VER
cmd="./configure --prefix=$RUBY_DIR" && run_cmd "$cmd" "Configure"
cmd="make -j2" && run_cmd "$cmd" "Make"
[ -d $RUBY_DIR ] && rm -rf $RUBY_DIR
cmd="make install" && run_cmd "$cmd" "Install"
fi
cd $DIR
cmd="$RBENV rehash" && run_cmd "$cmd" "rbenv rehash"
cmd="$RBENV local $RUBY_VER" && run_cmd "$cmd" "rbenv set ruby"
}
install_ob_ruby() {
printf "\n%50s\n" "OB RUBY BINDINGS"
local DIR=`pwd`
SRC_DIR=$(dirname $(find $OT_PREFIX -name openbabel-ruby.cpp))
[ -d "$SRC_DIR" ] || (echo "Sources not found." 1>&2 && exit 1)
cd $SRC_DIR
sed -i 's/Init_OpenBabel/Init_openbabel/g' openbabel-ruby.cpp # apply fix
RUBY=`which ruby`
cmd="$RUBY extconf.rb --with-openbabel-include=../../include --with-openbabel-lib=../../src/.libs" && run_cmd "$cmd" "Extconf ruby bindings"
cmd="$MAKE" && run_cmd "$cmd" "Make OB ruby bindings"
cmd="$MAKE install" && run_cmd "$cmd" "Install OB ruby bindings"
cd $DIR
cmd="$RBENV rehash" && run_cmd "$cmd" "rbenv rehash"
}
install_fminer() {
printf "\n%50s\n" "FMINER"
local DIR=`pwd`
eval RUBY_INC="-I`dirname $RUBY_DIR/include/ruby*/*linux/ruby`\ -I`dirname $RUBY_DIR/include/ruby*/ruby`"
eval OPBB_INC="-I`dirname $OT_PREFIX/openbabel*/include/openbabel*/openbabel`"
cmd="$GIT submodule init" && run_cmd "$cmd" "Fminer Init"
cmd="$GIT submodule update" && run_cmd "$cmd" "Fminer Update"
cd "libfminer/libbbrc">>$LOG 2>&1
$GIT checkout $FMINER_BRANCH>>$LOG 2>&1
$GIT pull >>$LOG 2>&1
cd - >>$LOG 2>&1
cd "libfminer/liblast">>$LOG 2>&1
$GIT checkout $FMINER_BRANCH>>$LOG 2>&1
$GIT pull >>$LOG 2>&1
cd - >>$LOG 2>&1
for mylib in bbrc last; do
cmd="sed -i 's,^INCLUDE_OB.*,INCLUDE_OB\ =\ $OPBB_INC,g' `pwd`/libfminer/lib$mylib/Makefile" && run_cmd "$cmd" "Makefile $mylib (OB)"
cmd="sed -i 's,^INCLUDE_RB.*,INCLUDE_RB\ =\ $RUBY_INC,g' `pwd`/libfminer/lib$mylib/Makefile" && run_cmd "$cmd" "Makefile $mylib (RB)"
done
cd "libfminer/libbbrc">>$LOG 2>&1
cmd="make ruby" && run_cmd "$cmd" "Make BBRC"
cd - >>$LOG 2>&1
cd "libfminer/liblast">>$LOG 2>&1
cmd="make ruby" && run_cmd "$cmd" "Make LAST"
cd - >>$LOG 2>&1
cd "last-utils">>$LOG 2>&1
$GIT checkout $FMINER_BRANCH>>$LOG 2>&1
$GIT pull >>$LOG 2>&1
cd $DIR
}
install_bundler() {
$GEM list | grep bundler >/dev/null 2>&1 || (cmd="$GEM install bundler" && run_cmd "$cmd" "Install bundler")
cmd="$RBENV rehash" && run_cmd "$cmd" "rbenv rehash"
BUNDLER=`which bundle`
cmd="$BUNDLER install" && run_cmd "$cmd" "Bundle install"
}
# # # Install
LOG="$OT_PREFIX/tmp/`basename $0`.log"
echo
echo "Installation ('$LOG'):"
echo
[ -d $OT_CONFIG/log ] || cmd="mkdir -p $OT_CONFIG/log" && run_cmd "$cmd" "Main log directory"
[ -d $OT_CONFIG/config/$SELF ] || cmd="mkdir -p $OT_CONFIG/config/$SELF" && run_cmd "$cmd" "$SELF config directory"
[ "`$RBENV local 2>/dev/null`" = "$RUBY_VER" ] || install_ruby
[ -n "`find $RUBY_DIR -name openbabel.so 2>/dev/null`" ] || install_ob_ruby
( [ -n "`find libfminer/ -name bbrc.so 2>/dev/null`" ] && [ -n "`find libfminer/ -name last.so 2>/dev/null`" ] ) || install_fminer
echo
install_bundler
# return to wd
cd "$DIR"
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