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-rw-r--r--academic/pysam/README8
-rw-r--r--academic/pysam/pysam.SlackBuild2
-rw-r--r--academic/pysam/pysam.info6
-rw-r--r--academic/pysam/slack-desc13
4 files changed, 16 insertions, 13 deletions
diff --git a/academic/pysam/README b/academic/pysam/README
index 605936f076..c21a4ed81d 100644
--- a/academic/pysam/README
+++ b/academic/pysam/README
@@ -1,7 +1,11 @@
Pysam is a python module for reading and manipulating files in the
SAM/BAM format. The SAM/BAM format is a way to store efficiently large
-numbers of alignments (`Li 2009`_), such as those routinely created by
+numbers of alignments (Li 2009), such as those routinely created by
next-generation sequencing methods.
Pysam is a lightweight wrapper of the samtools_ C-API. Pysam also
-includes an interface for tabix_.
+includes an interface for tabix.
+
+Reference: Li et al. Bioinformatics. 2009 Aug 15;25(16):2078-9.
+doi: 10.1093/bioinformatics/btp352.
+The Sequence Alignment/Map format and SAMtools.
diff --git a/academic/pysam/pysam.SlackBuild b/academic/pysam/pysam.SlackBuild
index 599ca3a43d..9c9bd7e7fb 100644
--- a/academic/pysam/pysam.SlackBuild
+++ b/academic/pysam/pysam.SlackBuild
@@ -24,7 +24,7 @@
PRGNAM=pysam
-VERSION=${VERSION:-0.12.0}
+VERSION=${VERSION:-0.13.0}
BUILD=${BUILD:-1}
TAG=${TAG:-_SBo}
diff --git a/academic/pysam/pysam.info b/academic/pysam/pysam.info
index 45a5be627f..3f23b26ad2 100644
--- a/academic/pysam/pysam.info
+++ b/academic/pysam/pysam.info
@@ -1,8 +1,8 @@
PRGNAM="pysam"
-VERSION="0.12.0"
+VERSION="0.13.0"
HOMEPAGE="https://github.com/pysam-developers/pysam"
-DOWNLOAD="https://github.com/pysam-developers/pysam/archive/v0.12.0/pysam-0.12.0.tar.gz"
-MD5SUM="cc3c39951d0ac389925f338d31da27da"
+DOWNLOAD="https://github.com/pysam-developers/pysam/archive/v0.13.0/pysam-0.13.0.tar.gz"
+MD5SUM="2a7456eaf8b30f5a2668667b24aa89ce"
DOWNLOAD_x86_64=""
MD5SUM_x86_64=""
REQUIRES=""
diff --git a/academic/pysam/slack-desc b/academic/pysam/slack-desc
index fd8f78feb8..f6bc8d46c9 100644
--- a/academic/pysam/slack-desc
+++ b/academic/pysam/slack-desc
@@ -8,12 +8,11 @@
|-----handy-ruler------------------------------------------------------|
pysam: pysam (read/write genomic data sets)
pysam:
-pysam: pysam is a python module for reading, manipulating
-pysam: and writing genomic data sets.
-pysam:
-pysam:
-pysam:
-pysam:
-pysam:
+pysam: Pysam is a python module for reading and manipulating files in the
+pysam: SAM, BAM, CRAM, VCF, and BCF format used for storing and writing
+pysam: genomic data sets. Pysam is a lightweight wrapper of the samtools
+pysam: and htslib C-API's and also includes an interface for tabix.
pysam:
+pysam: Home: https://github.com/pysam-developers/pysam
+pysam: Howto: https://pysam.readthedocs.io/en/latest/
pysam: