slackbuilds/academic/clustalx/clustalx.SlackBuild

#!/bin/sh

# Slackware build script for clustalx
# Written by Petar Petrov, <ppetrov@paju.oulu.fi> and
# hereby submitted to the public domain

# Based on the clustalx PKGBUILD from Archlinux AUR
# (http://aur.archlinux.org/packages.php?ID=25080).
# PKGBUILD submitter is mickelliot and maintainer is
# machoo02. Thank you!

# THIS SLACKBUILD IS DISTRIBUTETD IN THE HOPE OF BEING
# USEFUL BUT WITHOUT ANY WARRANTY. THE AUTHOR IS _NOT_
# RESPONSIBLE FOR ANY DAMAGE OR DATA LOSS CAUSED BY IT.

PRGNAM=clustalx
VERSION=${VERSION:-2.1}
BUILD=${BUILD:-1}
TAG=${TAG:-_SBo}

if [ -z "$ARCH" ]; then
  case "$( uname -m )" in
    i?86) export ARCH=i486 ;;
    arm*) export ARCH=arm ;;
       *) export ARCH=$( uname -m ) ;;
  esac
fi

CWD=$(pwd)
TMP=${TMP:-/tmp/SBo}
PKG=$TMP/package-$PRGNAM
OUTPUT=${OUTPUT:-/tmp}

if [ "$ARCH" = "i486" ]; then
  SLKCFLAGS="-O2 -march=i486 -mtune=i686"
  LIBDIRSUFFIX=""
elif [ "$ARCH" = "i686" ]; then
  SLKCFLAGS="-O2 -march=i686 -mtune=i686"
  LIBDIRSUFFIX=""
elif [ "$ARCH" = "x86_64" ]; then
  SLKCFLAGS="-O2 -fPIC"
  LIBDIRSUFFIX="64"
else
  SLKCFLAGS="-O2"
  LIBDIRSUFFIX=""
fi

set -e

rm -rf $PKG
mkdir -p $TMP $PKG $OUTPUT
cd $TMP
rm -rf $PRGNAM-$VERSION
tar xvf $CWD/$PRGNAM-$VERSION.tar.gz
cd $PRGNAM-$VERSION

# The patch is from Archlinux AUR, as mentioned above.
patch -p1 < $CWD/fix-static.patch

chown -R root:root .
find -L . \
 \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 -o -perm 511 \) \
 -exec chmod 755 {} \; -o \
 \( -perm 666 -o -perm 664 -o -perm 600 -o -perm 444 -o -perm 440 -o -perm 400 \) \
 -exec chmod 644 {} \;

sed -i 's/static//g' clustalx.pro

qmake

#Use our CFLAGS/CXXFLAGS
sed -i "/^C.*.*FLAGS/s/=/+=/" Makefile

CFLAGS="$SLKCFLAGS" \
CXXFLAGS="$SLKCFLAGS" \
  make

install -D -m755 clustalx $PKG/usr/bin/clustalx
install -D -m644 colprot.xml $PKG/usr/share/$PRGNAM/colprot.xml
install -D -m644 coldna.xml $PKG/usr/share/$PRGNAM/coldna.xml
install -D -m644 coldna.xml $PKG/usr/share/$PRGNAM/colprint.xml
install -D -m644 clustalx.hlp $PKG/usr/share/$PRGNAM/clustalx.hlp

find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | grep ELF \
  | cut -f 1 -d : | xargs strip --strip-unneeded 2> /dev/null || true

# Menu item and icon
mkdir -p $PKG/usr/share/{applications,pixmaps}
cp $CWD/clustalx.desktop $PKG/usr/share/applications
cp $CWD/clustalx.png $PKG/usr/share/pixmaps

mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
cp -a \
  README COPYING \
  $PKG/usr/doc/$PRGNAM-$VERSION
cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
cat $CWD/References > $PKG/usr/doc/$PRGNAM-$VERSION/References

mkdir -p $PKG/install
cat $CWD/slack-desc > $PKG/install/slack-desc
cat $CWD/doinst.sh > $PKG/install/doinst.sh

cd $PKG
/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.${PKGTYPE:-tgz}