Bug 218757 - [NEW PORT] biology/py-bx-python: Python module for reading, manipulating and writing genomic data sets
Summary: [NEW PORT] biology/py-bx-python: Python module for reading, manipulating and ...
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: 218746
Blocks:
  Show dependency treegraph
 
Reported: 2017-04-19 15:49 UTC by Yuri Victorovich
Modified: 2017-05-06 06:08 UTC (History)
1 user (show)

See Also:


Attachments
shar (2.65 KB, text/plain)
2017-04-19 15:49 UTC, Yuri Victorovich
no flags Details
shar (2.65 KB, text/plain)
2017-04-19 16:28 UTC, Yuri Victorovich
no flags Details

Note You need to log in before you can comment on or make changes to this bug.
Description Yuri Victorovich freebsd_committer 2017-04-19 15:49:39 UTC
Created attachment 181910 [details]
shar

Passes poudriere.
Comment 1 Yuri Victorovich freebsd_committer 2017-04-19 16:28:36 UTC
Created attachment 181911 [details]
shar
Comment 2 commit-hook freebsd_committer 2017-05-06 06:07:50 UTC
A commit references this bug:

Author: miwi
Date: Sat May  6 06:07:04 UTC 2017
New revision: 440232
URL: https://svnweb.freebsd.org/changeset/ports/440232

Log:
  bx-python is a python library and associated set of scripts to allow for rapid
  implementation of genome scale analyses. The library contains a variety of
  useful modules, but the particular strengths are:

  Classes for reading and working with genome-scale multiple local alignments
  (in MAF, AXT, and LAV formats). Generic data structure for indexing on disk
  files that contain blocks of data associated with intervals on various
  sequences (used, for example, to provide random access to individual
  alignments in huge files; optomized for use over network filesystems).
  Data structures for working with intervals on sequences:
   * "Binned bitsets" which act just like chromosome sized bit arrays,
     but lazily allocate regions and allow large blocks of all set or
     all unset bits to be stored compactly
   * "Intersecter" for performing fast intersection tests that preserve
     both query and target intervals and associated annotation

  WWW: https://github.com/bxlab/bx-python

  PR:		218757
  Submitted by:	Yuri Victorovich <yuri@rawbw.com>

Changes:
  head/biology/Makefile
  head/biology/py-bx-python/
  head/biology/py-bx-python/Makefile
  head/biology/py-bx-python/distinfo
  head/biology/py-bx-python/pkg-descr