p5-Bio-Phylo 0.16 biology =0

Phylogenetic analysis using perl

There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org
Port Added: 13 May 2006 17:50:16
Also Listed In: perl5

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This is the base class for the Bio::Phylo package. All other modules 
inherit from it, the methods defined here are applicable to all. Consult 
the manual for usage examples: Bio::Phylo::Manual.

WWW: http://search.cpan.org/dist/Bio-Phylo/
Author: Rutger Vos <rvosa@sfu.ca>

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

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Required To Build: devel/p5-Exception-Class, math/p5-Math-Random, devel/p5-IO-String, biology/p5-bioperl, textproc/p5-SVG, devel/p5-Module-Build, lang/perl5.8
Required To Run: devel/p5-Exception-Class, math/p5-Math-Random, devel/p5-IO-String, biology/p5-bioperl, textproc/p5-SVG, devel/p5-Module-Build, lang/perl5.8, lang/perl5.8

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To install the port: cd /usr/ports/biology/p5-Bio-Phylo/ && make install clean
To add the package: pkg_add -r p5-Bio-Phylo

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Configuration Options

     No options to configure

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Master Sites:

ftp://ftp.funet.fi/pub/languages/perl/CPAN/modules/by-module/Bio/

ftp://ftp.cpan.org/pub/CPAN/modules/by-module/Bio/

http://www.cpan.dk/modules/by-module/Bio/

http://ring.nict.go.jp/archives/lang/perl/CPAN/modules/by-module/Bio/

http://ring.sakura.ad.jp/archives/lang/perl/CPAN/modules/by-module/Bio/

http://ring.riken.jp/archives/lang/perl/CPAN/modules/by-module/Bio/

ftp://ftp.kddlabs.co.jp/lang/perl/CPAN/modules/by-module/Bio/

ftp://ftp.dti.ad.jp/pub/lang/CPAN/modules/by-module/Bio/

ftp://ftp.sunet.se/pub/lang/perl/CPAN/modules/by-module/Bio/

ftp://mirror.hiwaay.net/CPAN/modules/by-module/Bio/

ftp://ftp.mirrorservice.org/sites/ftp.funet.fi/pub/languages/perl/CPAN/modules/by-module/Bio/

ftp://csociety-ftp.ecn.purdue.edu/pub/CPAN/modules/by-module/Bio/

ftp://ftp.isu.net.sa/pub/CPAN/modules/by-module/Bio/

ftp://ftp.cs.colorado.edu/pub/perl/CPAN/modules/by-module/Bio/

ftp://cpan.pop-mg.com.br/pub/CPAN/modules/by-module/Bio/

http://at.cpan.org/modules/by-module/Bio/

ftp://ftp.chg.ru/pub/lang/perl/CPAN/modules/by-module/Bio/

ftp://ftp.auckland.ac.nz/pub/perl/CPAN/modules/by-module/Bio/

http://backpan.cpan.org/modules/by-module/Bio/

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

Reset aaron's port maintainerships due to many maintainer-timeouts.

- Take advantage of CPAN macro from bsd.sites.mk, change
${MASTER_SITE_PERL_CPAN} to CPAN.

PR:             ports/122674
Submitted by:   Philip M. Gollucci <pgollucci@p6m7g8.com>
Reworked by:    araujo (myself)
Approved by:    portmgr (pav)

Welcome bsd.perl.mk.  Add support for constructs such as USE_PERL5=5.8.0+.
Drop support for antique perl.

Work done by:   gabor
Sponsored by:   Google Summer of Code 2007
Hat:            portmgr

Bump to v0.16.

PR:             111719
Submitted by:   araujo@bsdmail.org

- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.

Update to v0.15

- Update to 0.14

Submitted by:   Jin-Shan Tseng <tjs@cdpa.nsysu.edu.tw>
Approved by:    maintainer timeout (3 months)

- Updated from 0.07 to 0.12

Approved by:    tobez (implicit)

0.08 20/Feb/2006 15:14
                       Improved referential integrity between nodes,
                                taxa, and data.
                       Implemented Fastnexus parser
                       Node object silently implements Bio::Tree::NodeI
                                interface if BioPerl is installed
                       Tree object silently implements Bio::Tree::TreeI
                                interface if BioPerl is installed
                       Added convertor methods for XML and CIPRES
                       Implemented more Matrix methods
                       Implemented symbol tables in Bio::Phylo::Util::CONSTANT
                       Implemented visit method for listable objects
                       Implemented caching infrastructure for calculations
                       Changed object-model to inside-out arrays
                       Added Biodiversity measures code by Aki Mimoto
                       Moved constants and exceptions to Bio::Phylo::Util::*
                       Fixed memory leak due to circular references

Adding port biology/p5-Bio-Phylo, Phylogenetic analysis using perl.

Approved by:    tobez (implicit)

10 vulnerabilities affecting 29 ports have been reported in the past 14 days

^* - modified, not new

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