py-biopython 1.59 biology =3

A collection of Python modules for bioinformatics
Maintained by: mauricio@arareko.net
Port Added: 31 Jul 2000 09:12:24
Also Listed In: python
License: not specified in port

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The Biopython Project is an international association of developers who are
providing freely available Python tools for use in areas of computational
molecular biology such as bioinformatics and genomics.

Biopython is a collection of Python packages and modules created by the
Biopython Project, intended to provide the basis for building bioinformatics
applications in the Python language.

Note that the current release is alpha quality, and not yet deemed to be
stable.

This port includes optional support for Biopython-CORBA, a CORBA interface
built to the BioCorba standard (http://biocorba.org/).

Authors: <biopython-dev@biopython.org>
WWW:     http://biopython.org/

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, print/py-reportlab, devel/py-setuptools, lang/python27
Required To Run: math/py-numpy, print/py-reportlab, devel/py-setuptools, lang/python27
There are no ports dependent upon this port

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To install the port: cd /usr/ports/biology/py-biopython/ && make install clean
To add the package: pkg_add -r py27-biopython

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Configuration Options

     No options to configure

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Master Sites:

http://www.biopython.org/DIST/

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

- Update to 1.59

PR:             ports/165582
Submitted by:   wen@ (myself)
Approved by:    Mauricio Herrera Cuadra <mauricio@arareko.net> (maintainer, via
email)

- remove maintainer tags from pkg-descr

Approved by:    portmgr
Approved by:    bapt (mentor)

- Update to 1.57

PR:             ports/156329
Submitted by:   Wen Heping (myself)
Approved by:    maintainer

- Move over to python2.5 or higher
- While here kick md5

- Update to 1.54

PR:             ports/148274
Submitted by:   Ju Pengfei <jupengfei@gmail.com>
Approved by:    maintainer
Feature safe:   yes

- Update to 1.53

PR:             ports/142221
Submitted by:   Wen Heping (myself)
Approved by:    maintainer

- Update to 138038

PR:             138038
Submitted by:   Wen Heping <wenheping@gmail.com>
Approved by:    maintainer

- Update to 1.48

PR:             127776
Submitted by:   Wen heping <wenheping@gmail.com>
Approved by:    maintainer

- Update to 1.47

PR:             125912
Submitted by:   Wen heping <wenheping@gmail.com>
Approved by:    maintainer timeout

- Update to 1.45

PR:             ports/125134
Submitted by:   Wen heping <wenheping@gmail.com>
Approved by:    Mauricio Herrera Cuadra <mauricio@arareko.net> (maintainer)

- Fix typos.

Reported by:    stas@

- Update to 1.43

PR:             111817
Submitted by:   "P.BandieraPaiva" <paiva@unifesp.br>
Approved by:    maintainer

- Update to 1.42

PR:             ports/104635
Submitted by:   Thomas Abthorpe <thomas@goodking.ca>
Approved by:    maintainer

Update to 1.41
Take MAINTAINER
Add SHA256

PR:             88792
Submitted by:   Mauricio Herrera Cuadra <mauricio@arareko.net>

Fix build on Python 2.4

Spotted by:     kris

With portmgr hat on, reset inactive maintainer.  These ports are now up
for adoption.

- Fix build on amd64 (crude hack to pass -fPIC to c++ compiles)

Reported by:    pointyhat via kris
Tested on:      arved's box

- Update to 1.30

PR:             ports/71400
Submitted by:   Stefan Walter <sw@gegenunendlich.de>
Approved by:    maintainer timeout (2 months)

BROKEN: Does not build

SIZEify (maintainer timeout)

Upgrade to 1.23.

Approved by:    maintainer timeout

Define USE_PERL5_BUILD, not erroneous USE_PERL.

Submitted by:   Oliver Eikemeier

Define USE_PERL to make Perl available for (mostly deprecated)
"perl -pi -e" construction.

Use the FIND and XARGS macros introduced in bsd.port.mk 1.391.

Cosmetic fix: use %%DOCSDIR%% macro.
No functionally changes.

Submitted by:   Oleg Karachevtsev <ok@etrust.ru>
A part of PR:   57992

Fix python version detection routines to cope with python 2.3's
boolean representation.

Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.

Use $PYNUMERIC in the dependencies.

- Update to version 1.00a4    

- Update the included (optional) Biopython-CORBA pacakge to version 0.3.0   - If
CORBA support is included, the default ORB has changed from omniORB to     ORBit
  - PORTREVISION bump    

- Update to version 1.00.a3   - Use pkg-req to check the installed version of
Python    

Update to version 1.00.a2    

Use $FILESDIR rather than hard-coded path.    

Update to 1.00.a1; change MAINTAINER to my new address.   Many changes to port,
including addition of CORBA functionality.    

math/numpy was renamed to math/py-numeric.    

Convert category biology to new layout.  

Update to 0.90.d03    

Don't break package building on Satoshi's cluster. Explicitly depend   on
python1.5:lang/python15.    

Upgrade to 0.90.d02.    

Add py-biopython, is a collection of Python packages and modules created   by
the Biopython Project, intended to provide the basis for building  
bioinformatics applications in the Python language.    

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

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