From 91bffe057f826dcfdba3a3aca0b294a3ebf298e6 Mon Sep 17 00:00:00 2001
From: Rob van Nues <sborg63@disroot.org>
Date: Fri, 9 Oct 2020 01:58:08 +0100
Subject: [PATCH] academic/samtools: Updated for version 1.11.

Signed-off-by: Dave Woodfall <dave@slackbuilds.org>

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
---
 academic/samtools/README              | 28 +++++++++++++--------------
 academic/samtools/samtools.SlackBuild |  6 +++---
 academic/samtools/samtools.info       |  6 +++---
 3 files changed, 20 insertions(+), 20 deletions(-)

diff --git a/academic/samtools/README b/academic/samtools/README
index 857bfbeaa7..d8e2540720 100644
--- a/academic/samtools/README
+++ b/academic/samtools/README
@@ -1,16 +1,16 @@
-SAM (Sequence Alignment/Map) format is a generic format for storing large 
-nucleotide sequence alignments. The original samtools package has been split 
-into three separate but tightly coordinated projects: htslib (C library for 
-handling high-throughput sequencing data), samtools (for handling SAM, BAM, 
-CRAM), and bcftools (for handling VCF and BCF).
+SAM (Sequence Alignment/Map) format is a generic format for storing
+large nucleotide sequence alignments. The original samtools package has
+been split into three separate but tightly coordinated projects: htslib
+(C library for handling high-throughput sequencing data), samtools (for
+handling SAM, BAM, CRAM), and bcftools (for handling VCF and BCF).
 
-Samtools is now distributed as an individual package. Installation is set up 
-so that the code uses an external HTSlib (also at SBo). Although deprecated 
-upstream, in the case that people need parts of samtools-legacy (e.g header 
-files or libbam) these can be installed from this package by modifying the 
-samtools.Slackbuild. Note that the sam.h of htslib differs from sam.h coming 
-with samtools.
+Samtools is now distributed as an individual package. Installation is
+set up so that the code uses an external HTSlib (also at SBo). Although
+deprecated upstream, in the case that people need parts of
+samtools-legacy (e.g header files or libbam) these can be installed from
+this package by modifying the samtools.Slackbuild. Note that the sam.h
+of htslib differs from sam.h coming with samtools.
 
-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.
diff --git a/academic/samtools/samtools.SlackBuild b/academic/samtools/samtools.SlackBuild
index 4a7efb30d8..da9e176475 100644
--- a/academic/samtools/samtools.SlackBuild
+++ b/academic/samtools/samtools.SlackBuild
@@ -22,8 +22,8 @@
 #  OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
 #  ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
 
-PRGNAM=samtools			
-VERSION=${VERSION:-1.10}
+PRGNAM=samtools
+VERSION=${VERSION:-1.11}
 BUILD=${BUILD:-1}
 TAG=${TAG:-_SBo}
 
@@ -117,7 +117,7 @@ mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
 cp -a \
   AUTHORS LICENSE README INSTALL NEWS examples \
   $PKG/usr/doc/$PRGNAM-$VERSION
-cp $CWD/README.references $PKG/usr/doc/$PRGNAM-$VERSION
+cp $CWD/README $PKG/usr/doc/$PRGNAM-$VERSION
 cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
 
 mkdir -p $PKG/install
diff --git a/academic/samtools/samtools.info b/academic/samtools/samtools.info
index 05fe9a33a0..2d42d9d715 100644
--- a/academic/samtools/samtools.info
+++ b/academic/samtools/samtools.info
@@ -1,8 +1,8 @@
 PRGNAM="samtools"
-VERSION="1.10"
+VERSION="1.11"
 HOMEPAGE="http://www.htslib.org"
-DOWNLOAD="https://github.com/samtools/samtools/releases/download/1.10/samtools-1.10.tar.bz2"
-MD5SUM="506b0b9b2628e1f3bbedd77855b4c709"
+DOWNLOAD="https://github.com/samtools/samtools/releases/download/1.11/samtools-1.11.tar.bz2"
+MD5SUM="9fd052652a9ceb56fc1098e63f596330"
 DOWNLOAD_x86_64=""
 MD5SUM_x86_64=""
 REQUIRES="htslib"