Bug 218745 - [NEW PORT] biology/py-pysam: Python module for reading, manipulating and writing genomic data sets
Summary: [NEW PORT] biology/py-pysam: Python module for reading, manipulating and writ...
Status: Closed FIXED
Alias: None
Product: Ports & Packages
Classification: Unclassified
Component: Individual Port(s) (show other bugs)
Version: Latest
Hardware: Any Any
: --- Affects Only Me
Assignee: Martin Wilke
URL:
Keywords:
Depends on:
Blocks:
 
Reported: 2017-04-19 07:09 UTC by Yuri Victorovich
Modified: 2017-05-06 06:05 UTC (History)
1 user (show)

See Also:

Attachments
shar (2.67 KB, text/plain)
2017-04-19 07:09 UTC, Yuri Victorovich 		no flags Details
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Description Yuri Victorovich freebsd_committer freebsd_triage 2017-04-19 07:09:00 UTC 
Created attachment 181883 [details]
shar

Passes poudriere
Comment 1 commit-hook freebsd_committer freebsd_triage 2017-05-06 06:05:46 UTC 
A commit references this bug:

Author: miwi
Date: Sat May  6 06:05:25 UTC 2017
New revision: 440231
URL: https://svnweb.freebsd.org/changeset/ports/440231

Log:
  pysam is a lightweight wrapper of the htslib C-API and provides facilities to
  read and write SAM/BAM/VCF/BCF/BED/GFF/GTF/FASTA/FASTQ files as well as access
  to the command line functionality of the samtools and bcftools packages. The
  module supports compression and random access through indexing.

  This module provides a low-level wrapper around the htslib C-API as using
  cython and a high-level API for convenient access to the data within standard
  genomic file formats.

  WWW: https://pypi.python.org/pypi/pysam

  PR:		218745
  Submitted by:	Yuri Victorovich <yuri@rawbw.com>

Changes:
  head/biology/Makefile
  head/biology/py-pysam/
  head/biology/py-pysam/Makefile
  head/biology/py-pysam/distinfo
  head/biology/py-pysam/files/
  head/biology/py-pysam/files/patch-setup.py
  head/biology/py-pysam/pkg-descr