diff options
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/pysam/pysam.SlackBuild | 23 | ||||
| -rw-r--r-- | academic/pysam/pysam.info | 8 |
2 files changed, 10 insertions, 21 deletions
diff --git a/academic/pysam/pysam.SlackBuild b/academic/pysam/pysam.SlackBuild index 1daa46666894..55994c96949e 100644 --- a/academic/pysam/pysam.SlackBuild +++ b/academic/pysam/pysam.SlackBuild @@ -2,7 +2,7 @@ # Slackware build script for pysam -# Copyright 2017-2020 Rob van Nues +# Copyright 2017-2021 Rob van Nues # All rights reserved. # # Redistribution and use of this script, with or without modification, is @@ -22,19 +22,14 @@ # 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=pysam -VERSION=${VERSION:-0.16.0.1} +VERSION=${VERSION:-0.17.0} BUILD=${BUILD:-3} TAG=${TAG:-_SBo} PKGTYPE=${PKGTYPE:-tgz} -#set which python version to install it for -PYTHON2=false -PYTHON3=true - if [ -z "$ARCH" ]; then case "$( uname -m )" in i?86) ARCH=i586 ;; @@ -85,21 +80,15 @@ find -L . \ \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \ -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; -### pysam linked to htslib-1.10; SBo-htslib is at 1.11: +### pysam linked to htslib-1.13; SBo-htslib is at 1.13: ##use system htslib: -#export HTSLIB_LIBRARY_DIR=/usr/lib$LIBDIRSUFFIX -#export HTSLIB_INCLUDE_DIR=/usr/include +export HTSLIB_LIBRARY_DIR=/usr/lib$LIBDIRSUFFIX +export HTSLIB_INCLUDE_DIR=/usr/include #the source does not allow 'read' to 'other', which could cause a problem on reloading a Jupyter-notebook chmod 644 pysam.egg-info/* - -if $PYTHON2; then - python setup.py install --root=$PKG -fi -if $PYTHON3; then - python3 setup.py install --root=$PKG -fi +python3 setup.py install --root=$PKG 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 diff --git a/academic/pysam/pysam.info b/academic/pysam/pysam.info index 1b2eddc4da1a..f49bd25d6cf0 100644 --- a/academic/pysam/pysam.info +++ b/academic/pysam/pysam.info @@ -1,10 +1,10 @@ PRGNAM="pysam" -VERSION="0.16.0.1" +VERSION="0.17.0" HOMEPAGE="https://github.com/pysam-developers/pysam" -DOWNLOAD="https://pypi.python.org/packages/source/p/pysam/pysam-0.16.0.1.tar.gz" -MD5SUM="5b4b73431f2511727f4fef43a67b392e" +DOWNLOAD="https://pypi.python.org/packages/source/p/pysam/pysam-0.17.0.tar.gz" +MD5SUM="cddcf9bad79158fb2e2f9859c5188206" DOWNLOAD_x86_64="" MD5SUM_x86_64="" -REQUIRES="" +REQUIRES="htslib" MAINTAINER="Rob van Nues" EMAIL="sborg63@disroot.org" |