diff options
| author | Rob van Nues <rvnues at tesco {dot} net> | 2018-01-21 08:55:13 +0700 |
|---|---|---|
| committer | Willy Sudiarto Raharjo <willysr@slackbuilds.org> | 2018-01-27 07:43:46 +0700 |
| commit | faca3e09ed0ae0831e5edf81acec28092c118a39 (patch) | |
| tree | 7df2ee3070403fa151784e815ce489f2c423187d /academic | |
| parent | a232cb8784ce8850350ac137c1f1ebd18d932795 (diff) | |
academic/pysam: Updated for version 0.13.0.
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/pysam/README | 8 | ||||
| -rw-r--r-- | academic/pysam/pysam.SlackBuild | 2 | ||||
| -rw-r--r-- | academic/pysam/pysam.info | 6 | ||||
| -rw-r--r-- | academic/pysam/slack-desc | 13 |
4 files changed, 16 insertions, 13 deletions
diff --git a/academic/pysam/README b/academic/pysam/README index 605936f076965..c21a4ed81dac2 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 599ca3a43dd4a..9c9bd7e7fb265 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 45a5be627f0c1..3f23b26ad2af4 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 fd8f78feb859a..f6bc8d46c932c 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: |