mirror of
https://github.com/Ponce/slackbuilds
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138 lines
4.4 KiB
Bash
138 lines
4.4 KiB
Bash
#!/bin/bash
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# Slackware build script for ncbi-blast+
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# This takes the place of ncbi-blast-plus (2013-2019), which just
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# repackaged the binaries provided by upstream.
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# Copyright 2013-2023 Petar Petrov slackalaxy@gmail.com
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# All rights reserved.
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#
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# Redistribution and use of this script, with or without modification, is
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# permitted provided that the following conditions are met:
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#
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# 1. Redistributions of this script must retain the above copyright
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# notice, this list of conditions and the following disclaimer.
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#
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# THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED
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# WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
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# MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO
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# EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
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# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
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# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
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# OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
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# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
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# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
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# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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cd $(dirname $0) ; CWD=$(pwd)
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PRGNAM=ncbi-blast+
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VERSION=${VERSION:-2.14.1}
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BUILD=${BUILD:-1}
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TAG=${TAG:-_SBo}
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PKGTYPE=${PKGTYPE:-tgz}
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DIRNAM=ncbi-blast
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if [ -z "$ARCH" ]; then
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case "$( uname -m )" in
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i?86) ARCH=i586 ;;
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arm*) ARCH=arm ;;
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*) ARCH=$( uname -m ) ;;
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esac
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fi
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if [ ! -z "${PRINT_PACKAGE_NAME}" ]; then
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echo "$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.$PKGTYPE"
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exit 0
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fi
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TMP=${TMP:-/tmp/SBo}
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PKG=$TMP/package-$PRGNAM
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OUTPUT=${OUTPUT:-/tmp}
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if [ "$ARCH" = "i586" ]; then
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SLKCFLAGS="-O2 -march=i586 -mtune=i686"
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LIBDIRSUFFIX=""
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elif [ "$ARCH" = "i686" ]; then
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SLKCFLAGS="-O2 -march=i686 -mtune=i686"
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LIBDIRSUFFIX=""
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elif [ "$ARCH" = "x86_64" ]; then
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SLKCFLAGS="-O2 -fPIC"
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LIBDIRSUFFIX="64"
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else
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SLKCFLAGS="-O2"
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LIBDIRSUFFIX=""
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fi
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set -e
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rm -rf $PKG
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mkdir -p $TMP $PKG $OUTPUT
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cd $TMP
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rm -rf ${DIRNAM}-${VERSION}+-src
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tar xvf $CWD/${DIRNAM}-${VERSION}+-src.tar.gz
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cd ${DIRNAM}-${VERSION}+-src
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chown -R root:root .
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find -L . \
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\( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \
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-o -perm 511 \) -exec chmod 755 {} \; -o \
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\( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \
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-o -perm 440 -o -perm 400 \) -exec chmod 644 {} \;
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cd c++
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# NOTE! Some additional options we could consider are:
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# --without-autodep \ # automatic generation of dependencies (GNU make)
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# --without-makefile-auto-update \ # do not auto-update generated makefiles
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# --without-caution \ # proceed without asking when in doubt
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# --without-boost \ # do not use Boost
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# The full list of options is available in c++/src/build-system/configure
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# Do not specify the libraries dir by the default way (--libdir=/lib${LIBDIRSUFFIX}),
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# because the libs will not be included in the package.
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CFLAGS="$SLKCFLAGS" \
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CXXFLAGS="$SLKCFLAGS -Wno-narrowing" \
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./configure \
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--prefix=/usr \
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--libdir='${exec_prefix}'/lib${LIBDIRSUFFIX} \
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--sysconfdir=/etc \
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--localstatedir=/var \
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--mandir=/usr/man \
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--docdir=/usr/doc/$PRGNAM-$VERSION \
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--with-mt \
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--with-dll \
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--without-debug \
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--without-downloaded-vdb \
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--without-bdb \
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--build=$ARCH-slackware-linux
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# It does not seem to matter whether to use 'make all' and 'make install-toolkit',
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# but let's have them here as a future reminder that these options exist.
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#make all
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#make prefix=$PKG/usr install-toolkit
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make
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make prefix=$PKG/usr install
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find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | grep ELF \
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| cut -f 1 -d : | xargs strip --strip-unneeded 2> /dev/null || true
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# fix a few permissions
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chmod 0644 $PKG/usr/include/ncbi-tools++/algo/dustmask/*.tex
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chmod 0644 $PKG/usr/include/ncbi-tools++/objects/gbproj/*.{hpp,h}
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chmod 0644 $PKG/usr/include/ncbi-tools++/objects/taxon3/*.hpp
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chmod 0644 $PKG/usr/include/ncbi-tools++/objtools/edit/*.hpp
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chmod 0755 $PKG/usr/lib${LIBDIRSUFFIX}/*.so
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# remove static libs
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rm -rf $PKG/usr/lib${LIBDIRSUFFIX}/*.a
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mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
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cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
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mkdir -p $PKG/install
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cat $CWD/slack-desc > $PKG/install/slack-desc
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cd $PKG
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/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.$PKGTYPE
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