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#!/bin/sh
#
# Installs Opentox Webservices.
# Author: Christoph Helma, Andreas Maunz.
#
. "`pwd`/utils.sh"
DIR=`pwd`
if [ "$(id -u)" = "0" ]; then
echo "This script must be run as non-root." 1>&2
exit 1
fi
# Utils
WGET="`which wget`"
if [ ! -e "$WGET" ]; then
echo "'wget' missing. Install 'wget' first. Aborting..."
exit 1
fi
RAKE="`which rake`"
if [ ! -e "$RAKE" ]; then
echo "'rake' missing. Install 'rake' first. Aborting..."
exit 1
fi
GIT="`which git`"
if [ ! -e "$GIT" ]; then
echo "'git' missing. Install 'git' first. Aborting..."
exit 1
fi
RUBY="`which ruby`"
if [ ! -e "$RUBY" ]; then
echo "'ruby' missing. Install 'ruby' first. Aborting..."
exit 1
fi
LOG="$HOME/tmp/`basename $0`-log.txt"
echo
echo "Webservices ('$LOG'):"
mkdir -p "$WWW_DEST/opentox" >>$LOG 2>&1
cd "$WWW_DEST/opentox" >>$LOG 2>&1
for s in compound dataset algorithm model toxcreate task validation; do
rm -rf "$s" >>$LOG 2>&1
$GIT clone "git://github.com/opentox/$s.git" "$s" >>$LOG 2>&1
cd "$s" >>$LOG 2>&1
$GIT checkout -b $OT_BRANCH origin/$OT_BRANCH >>$LOG 2>&1
#rm -rf public >>$LOG 2>&1
#mkdir public >>$LOG 2>&1
mypath_from="$WWW_DEST/opentox/$s/public"
mypath_to="$WWW_DEST/$s"
cmd="ln -sf \"$mypath_from\" \"$mypath_to\"" && run_cmd "$cmd" "Linking $s"
cd - >>$LOG 2>&1
done
# fminer etc
cmd="test -f $HOME/.opentox/config/production.yaml" && run_cmd "$cmd" "Config present"
cd "$WWW_DEST/opentox/algorithm" >>$LOG 2>&1
cmd="$GIT submodule init" && run_cmd "$cmd" "Submodules init"
cmd="$GIT submodule update" && run_cmd "$cmd" "Submodules update"
cd "libfminer/libbbrc">>$LOG 2>&1
$GIT checkout $OT_BRANCH>>$LOG 2>&1
$GIT pull >>$LOG 2>&1
cd - >>$LOG 2>&1
cd "libfminer/liblast">>$LOG 2>&1
$GIT checkout $OT_BRANCH>>$LOG 2>&1
$GIT pull >>$LOG 2>&1
cd - >>$LOG 2>&1
for mylib in bbrc last; do
cmd="sed -i 's,^INCLUDE_OB.*,INCLUDE_OB\ =\ -I$OB_DEST/include/openbabel-2.0,g' $WWW_DEST/opentox/algorithm/libfminer/lib$mylib/Makefile; sed -i 's,^LDFLAGS_OB.*,LDFLAGS_OB\ =\ -L$OB_DEST/lib,g' $WWW_DEST/opentox/algorithm/libfminer/lib$mylib/Makefile" && run_cmd "$cmd" "Makefile $mylib (OB)"
cmd="sed -i 's,^INCLUDE_RB.*,INCLUDE_RB\ =\ -I$RUBY_DEST/lib/ruby/1.8/`uname -m`-linux,g' $WWW_DEST/opentox/algorithm/libfminer/lib$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 $OT_BRANCH>>$LOG 2>&1
$GIT pull >>$LOG 2>&1
cd - >>$LOG 2>&1
cd "bbrc-sample">>$LOG 2>&1
$GIT checkout $OT_BRANCH>>$LOG 2>&1
$GIT pull >>$LOG 2>&1
cd "$DIR"
|
