mirror of
https://github.com/Ponce/slackbuilds
synced 2024-11-25 10:03:03 +01:00
110 lines
3.4 KiB
Bash
110 lines
3.4 KiB
Bash
#!/bin/sh
|
|
|
|
# Slackware build script for ncbi-blast
|
|
|
|
# Copyright 2013-2016 Petar Petrov slackalaxy@gmail.com
|
|
# All rights reserved.
|
|
#
|
|
# Redistribution and use of this script, with or without modification, is
|
|
# permitted provided that the following conditions are met:
|
|
#
|
|
# 1. Redistributions of this script must retain the above copyright
|
|
# notice, this list of conditions and the following disclaimer.
|
|
#
|
|
# THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED
|
|
# WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
|
|
# MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO
|
|
# EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
|
|
# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
|
|
# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
|
|
# OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
|
|
# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
|
|
# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
|
|
# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
|
|
|
|
PRGNAM=ncbi-blast
|
|
VERSION=${VERSION:-2.2.26}
|
|
BUILD=${BUILD:-1}
|
|
TAG=${TAG:-_SBo}
|
|
|
|
SRCNAM=blast
|
|
|
|
if [ -z "$ARCH" ]; then
|
|
case "$( uname -m )" in
|
|
i?86) ARCH=i386 ;;
|
|
arm*) ARCH=arm ;;
|
|
*) ARCH=$( uname -m ) ;;
|
|
esac
|
|
fi
|
|
|
|
CWD=$(pwd)
|
|
TMP=${TMP:-/tmp/SBo}
|
|
PKG=$TMP/package-$PRGNAM
|
|
OUTPUT=${OUTPUT:-/tmp}
|
|
|
|
set -e
|
|
|
|
if [ "$ARCH" != "i386" ] && [ "$ARCH" != "x86_64" ]; then
|
|
printf "\n\n$ARCH is not supported... \n"
|
|
exit 1
|
|
fi
|
|
|
|
# Determine the source arch
|
|
if [ "$ARCH" = "x86_64" ]; then
|
|
SRCARCH="x64"
|
|
else
|
|
SRCARCH="ia32"
|
|
fi
|
|
|
|
# Construct the tarball name
|
|
TARNAME=$SRCNAM-$VERSION-$SRCARCH-linux
|
|
|
|
rm -rf $PKG
|
|
mkdir -p $TMP $PKG $OUTPUT
|
|
cd $TMP
|
|
rm -rf $SRCNAM-$VERSION
|
|
tar xvf $CWD/$TARNAME.tar.gz
|
|
cd $SRCNAM-$VERSION
|
|
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 {} \;
|
|
|
|
# Install the precompiled binaries. Change the name of rpsblast, as it
|
|
# is also part of the ncbi-blast-plus package.
|
|
cd bin
|
|
install -D -m755 bl2seq $PKG/usr/bin/bl2seq
|
|
install -D -m755 blastall $PKG/usr/bin/blastall
|
|
install -D -m755 blastclust $PKG/usr/bin/blastclust
|
|
install -D -m755 blastpgp $PKG/usr/bin/blastpgp
|
|
install -D -m755 copymat $PKG/usr/bin/copymat
|
|
install -D -m755 fastacmd $PKG/usr/bin/fastacmd
|
|
install -D -m755 formatdb $PKG/usr/bin/formatdb
|
|
install -D -m755 formatrpsdb $PKG/usr/bin/formatrpsdb
|
|
install -D -m755 impala $PKG/usr/bin/impala
|
|
install -D -m755 makemat $PKG/usr/bin/makemat
|
|
install -D -m755 megablast $PKG/usr/bin/megablast
|
|
install -D -m755 rpsblast $PKG/usr/bin/rpsblast-legacy
|
|
install -D -m755 seedtop $PKG/usr/bin/seedtop
|
|
cd ..
|
|
|
|
# Copy data dir
|
|
mkdir -p $PKG/usr/share/$PRGNAM
|
|
cp -a data $PKG/usr/share/$PRGNAM
|
|
|
|
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
|
|
|
|
mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
|
|
cp -a \
|
|
doc/* VERSION \
|
|
$PKG/usr/doc/$PRGNAM-$VERSION
|
|
cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
|
|
|
|
mkdir -p $PKG/install
|
|
cat $CWD/slack-desc > $PKG/install/slack-desc
|
|
|
|
cd $PKG
|
|
/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.${PKGTYPE:-tgz}
|