diff options
Diffstat (limited to 'libraries/htslib')
| -rw-r--r-- | libraries/htslib/README | 13 | ||||
| -rw-r--r-- | libraries/htslib/htslib.SlackBuild | 23 | ||||
| -rw-r--r-- | libraries/htslib/htslib.info | 6 | ||||
| -rw-r--r-- | libraries/htslib/slack-desc | 8 |
4 files changed, 29 insertions, 21 deletions
diff --git a/libraries/htslib/README b/libraries/htslib/README index de684e9028..0ec918852b 100644 --- a/libraries/htslib/README +++ b/libraries/htslib/README @@ -1,7 +1,8 @@ -Prior to the introduction of HTSlib, SAMtools and BCFtools were distributed -in a single samtools-0.1.x package. -This old version remains available from SBo as samtools-legacy +Prior to the introduction of HTSlib, SAMtools and BCFtools were +distributed in a single samtools-0.1.x package. This old version remains +available from SBo as samtools-legacy. -HTSlib has been distributed as a separate package to facilitate the writing -of programs against the HTSlib API. HTSlib also provides the bgzip, htsfile, -and tabix utilities, so the installation of HTSlib provides these utilities as well. +HTSlib has been distributed as a separate package to facilitate the +writing of programs against the HTSlib API. HTSlib also provides the +bgzip, htsfile, and tabix utilities, so the installation of HTSlib +provides these utilities as well. diff --git a/libraries/htslib/htslib.SlackBuild b/libraries/htslib/htslib.SlackBuild index 230f89047b..d88f89c846 100644 --- a/libraries/htslib/htslib.SlackBuild +++ b/libraries/htslib/htslib.SlackBuild @@ -1,8 +1,8 @@ -#!/bin/sh +#!/bin/bash # Slackware build script for htslib -# Copyright 2018 rob van nues # All rights reserved. +# Copyright 2018-2024 Rob van Nues # All rights reserved. # # Redistribution and use of this script, with or without modification, is # permitted provided that the following conditions are met: @@ -21,10 +21,13 @@ # OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF # ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. +cd $(dirname $0) ; CWD=$(pwd) + PRGNAM=htslib -VERSION=${VERSION:-1.9} +VERSION=${VERSION:-1.20} BUILD=${BUILD:-1} TAG=${TAG:-_SBo} +PKGTYPE=${PKGTYPE:-tgz} if [ -z "$ARCH" ]; then case "$( uname -m )" in @@ -34,7 +37,11 @@ if [ -z "$ARCH" ]; then esac fi -CWD=$(pwd) +if [ ! -z "${PRINT_PACKAGE_NAME}" ]; then + echo "$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.$PKGTYPE" + exit 0 +fi + TMP=${TMP:-/tmp/SBo} PKG=$TMP/package-$PRGNAM OUTPUT=${OUTPUT:-/tmp} @@ -91,6 +98,8 @@ CXXFLAGS="$SLKCFLAGS" \ make make install DESTDIR=$PKG +rm -f $PKG/usr/lib*/*.la + 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 @@ -98,13 +107,11 @@ find $PKG/usr/man -type f -exec gzip -9 {} \; for i in $( find $PKG/usr/man -type l ) ; do ln -s $( readlink $i ).gz $i.gz ; rm $i ; done mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION -cp -a \ - README LICENSE INSTALL NEWS \ - $PKG/usr/doc/$PRGNAM-$VERSION +cp -a README LICENSE NEWS $PKG/usr/doc/$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} +/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.$PKGTYPE diff --git a/libraries/htslib/htslib.info b/libraries/htslib/htslib.info index 5151ea72b5..fb49fe4935 100644 --- a/libraries/htslib/htslib.info +++ b/libraries/htslib/htslib.info @@ -1,8 +1,8 @@ PRGNAM="htslib" -VERSION="1.9" +VERSION="1.20" HOMEPAGE="http://www.htslib.org" -DOWNLOAD="https://github.com/samtools/htslib/releases/download/1.9/htslib-1.9.tar.bz2" -MD5SUM="2ac92c9c3eef9986345ac69a05dd4d24" +DOWNLOAD="https://github.com/samtools/htslib/releases/download/1.20/htslib-1.20.tar.bz2" +MD5SUM="127cbea4e9a8c084fb09c3fd24bd825d" DOWNLOAD_x86_64="" MD5SUM_x86_64="" REQUIRES="" diff --git a/libraries/htslib/slack-desc b/libraries/htslib/slack-desc index 5d7ac1f556..c26f985a51 100644 --- a/libraries/htslib/slack-desc +++ b/libraries/htslib/slack-desc @@ -11,9 +11,9 @@ htslib: htslib: HTSlib is an implementation of a unified C library for accessing htslib: common file formats, such as SAM, CRAM and VCF, used for high- htslib: throughput sequencing data, and is the core library used by samtools -htslib: and bcftools. HTSlib only depends on zlib. It is known to be -htslib: compatible with gcc, g++ and clang. This is an independent package -htslib: to provide the HTSlib API for other programs. +htslib: and bcftools. It is known to be compatible with gcc, g++ and clang. +htslib: HTSlib also provides the bgzip, htsfile, and tabix utilities. +htslib: +htslib: Homepage: http://www.htslib.org htslib: -htslib: Home: http://www.htslib.org htslib: |