From 53ab6902c2818a949ebfad0635e66e72dad3c413 Mon Sep 17 00:00:00 2001
From: Rob van Nues
Date: Sat, 3 Aug 2019 06:21:42 +0700
Subject: academic/pysam: Updated for version 0.15.3.

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
---
 academic/pysam/pysam.SlackBuild | 17 +++++++++++++++--
 academic/pysam/pysam.info       |  8 ++++----
 2 files changed, 19 insertions(+), 6 deletions(-)

(limited to 'academic')

diff --git a/academic/pysam/pysam.SlackBuild b/academic/pysam/pysam.SlackBuild
index c2ff916cc9..f5c3d8615e 100644
--- a/academic/pysam/pysam.SlackBuild
+++ b/academic/pysam/pysam.SlackBuild
@@ -24,10 +24,14 @@
 
 
 PRGNAM=pysam
-VERSION=${VERSION:-0.15.2}
+VERSION=${VERSION:-0.15.3}
 BUILD=${BUILD:-1}
 TAG=${TAG:-_SBo}
 
+#set which python version to install it for
+PYTHON2=false
+PYTHON3=true
+
 if [ -z "$ARCH" ]; then
   case "$( uname -m )" in
     i?86) ARCH=i586 ;;
@@ -70,7 +74,16 @@ 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 {} \;
 
-python setup.py install --root=$PKG
+#use system htslib instead
+export HTSLIB_LIBRARY_DIR=/usr/lib$LIBDIRSUFFIX
+export HTSLIB_INCLUDE_DIR=/usr/include
+
+if $PYTHON2; then
+   python setup.py install --root=$PKG
+fi
+if $PYTHON3; then
+  python3 setup.py install --root=$PKG
+fi
 
 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 2951c27d95..a7747f8d20 100644
--- a/academic/pysam/pysam.info
+++ b/academic/pysam/pysam.info
@@ -1,10 +1,10 @@
 PRGNAM="pysam"
-VERSION="0.15.2"
+VERSION="0.15.3"
 HOMEPAGE="https://github.com/pysam-developers/pysam"
-DOWNLOAD="https://github.com/pysam-developers/pysam/archive/v0.15.2/pysam-0.15.2.tar.gz"
-MD5SUM="3000f77fd997d864fe551b3001fbac22"
+DOWNLOAD="https://github.com/pysam-developers/pysam/archive/v0.15.3/pysam-0.15.3.tar.gz"
+MD5SUM="f8586362c20c754bc698c04e32e11a63"
 DOWNLOAD_x86_64=""
 MD5SUM_x86_64=""
-REQUIRES=""
+REQUIRES="python3 htslib"
 MAINTAINER="Rob van Nues"
 EMAIL="sborg63@disroot.org"
-- 
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