pycogent 1.5.1 biology =0

A toolkit for statistical analysis of biological sequences
Maintained by: wen@FreeBSD.org
Port Added: 22 Jun 2009 12:47:26
Also Listed In: python
License: not specified in port

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PyCogent is a software library for genomic biology. It is a fully integrated
and thoroughly tested framework for: controlling third-party applications;
devising workflows; querying databases; conducting novel probabilistic
analyses of biological sequence evolution; and generating publication quality
graphics. It is distinguished by many unique built-in capabilities (such as
true codon alignment) and the frequent addition of entirely new methods for
the analysis of genomic data.

WWW:	http://pycogent.sourceforge.net/

CVSWeb : Sources : Main Web Site : Distfiles Availability : PortsMon

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NOTE: FreshPorts displays only required dependencies information. Optional dependencies are not covered.
Required To Build: math/py-numpy, lang/cython, textproc/py-sphinx, databases/py-sqlalchemy06, lang/python27
Required To Run: math/py-numpy, lang/cython, textproc/py-sphinx, databases/py-sqlalchemy06, lang/python27, lang/python27
There are no ports dependent upon this port

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To install the port: cd /usr/ports/biology/pycogent/ && make install clean
To add the package: pkg_add -r pycogent

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Configuration Options

     No options to configure

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Master Sites:

http://heanet.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://sunet.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://iweb.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://switch.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://surfnet.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://kent.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://freefr.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://voxel.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://jaist.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://osdn.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://nchc.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://ncu.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://transact.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://softlayer.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://internode.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://ufpr.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

http://waix.dl.sourceforge.net/project/pycogent/PyCogent/1.5.1/

ftp://ftp.FreeBSD.org/pub/FreeBSD/ports/distfiles/

- Update to 1.5.1

- Fix *_DEPENDS after the repocopy of databases/py-sqlalchemy
  (This port doesn't yet support SQLAlchemy 0.7.X)
- Bump PORTREVISION

- Update to 1.5.0

- Update to 1.4.1

- Update to 1.4
- Update my mail address to FreeBSD

- Switch SourceForge ports to the new File Release System: categories starting
with B,C

PyCogent is a software library for genomic biology. It is a fully integrated
and thoroughly tested framework for: controlling third-party applications;
devising workflows; querying databases; conducting novel probabilistic
analyses of biological sequence evolution; and generating publication quality
graphics. It is distinguished by many unique built-in capabilities (such as
true codon alignment) and the frequent addition of entirely new methods for
the analysis of genomic data.

WWW:    http://pycogent.sourceforge.net/

PR:             ports/135863
Submitted by:   Wen Heping <wenheping at gmail.com>

12 vulnerabilities affecting 17 ports have been reported in the past 14 days

^* - modified, not new

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