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Port details
p5-Bio-NEXUS Object-oriented Perl API for the NEXUS file format
0.78 biology on this many watch lists=0 search for ports that depend on this port
Maintained by: perl@FreeBSD.org search for ports maintained by this maintainer
Port Added: 22 Aug 2009 20:40:26
Also Listed In: perl5
License: not specified in port


Bio::NEXUS package provides an object-oriented, Perl-based
applications programming interface (API) to the NEXUS file
format of Maddison, et al., 1997 (Syst. Biol. 46:590-621).
NEXUS is a powerful and extensible format designed for use
in evolutionary analysis, including the analysis of molecular
sequence data as well as classical morphological and life-history
data. NEXUS is the input or output format for software such as
PAUP*, MacClade, Mesquite, SIMMAP, MrBayes, Nexplorer, and
so on.  This package also contains the demonstration applications
nexplot.pl (plot character data with a tree) and nextool.pl
(allowing programmatic editing, e.g., selecting particular
clades or subsets of data). 

WWW: http://search.cpan.org/dist/Bio-NEXUS/
SVNWeb : Main Web Site : Distfiles Availability : PortsMon

NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Required To Build:
  1. devel/p5-Clone-PP
  2. lang/perl5.16
Required To Run:
  1. devel/p5-Clone-PP
  2. lang/perl5.16
There are no ports dependent upon this port

To install the port: cd /usr/ports/biology/p5-Bio-NEXUS/ && make install clean
To add the package: pkg install biology/p5-Bio-NEXUS


Configuration Options
     No options to configure

Master Sites:
  1. ftp://ftp.auckland.ac.nz/pub/perl/CPAN/modules/by-module/Bio/
  2. ftp://ftp.cpan.org/pub/CPAN/modules/by-module/Bio/
  3. ftp://ftp.cpan.org/pub/CPAN/modules/by-module/Bio/
  4. ftp://ftp.funet.fi/pub/languages/perl/CPAN/modules/by-module/Bio/
  5. ftp://ftp.kddlabs.co.jp/lang/perl/CPAN/modules/by-module/Bio/
  6. ftp://ftp.mirrorservice.org/sites/cpan.perl.org/CPAN/modules/by-module/Bio/
  7. ftp://ftp.sunet.se/pub/lang/perl/CPAN/modules/by-module/Bio/
  8. http://backpan.perl.org/modules/by-module/Bio/
  9. http://cpan.metacpan.org/modules/by-module/Bio/
  10. http://distcache.FreeBSD.org/ports-distfiles/
  11. http://ftp.jaist.ac.jp/pub/CPAN/modules/by-module/Bio/
  12. http://ftp.twaren.net/Unix/Lang/CPAN/modules/by-module/Bio/
  13. http://www.cpan.dk/modules/by-module/Bio/
  14. http://www.cpan.dk/modules/by-module/Bio/
  15. http://www.cpan.org/modules/by-module/Bio/

Number of commits found: 12

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
20 Oct 2014 07:10:48
Original commit files touched by this commit  0.78
Revision:371237
bapt search for other commits by this committer
Cleanup plist
31 Jan 2014 12:47:07
Original commit files touched by this commit  0.78
Revision:341989
miwi search for other commits by this committer
- Stage support
20 Sep 2013 15:55:44
Original commit files touched by this commit  0.78
Revision:327709
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
02 Aug 2013 18:52:11
Original commit files touched by this commit  0.78
Revision:324174
mat search for other commits by this committer
- Convert to new perl framework
- Trim Makefile header
- Remove MAKE_JOBS_SAFE=yes, it's the default.
29 Mar 2013 00:44:54
Original commit files touched by this commit  0.78
Revision:315509
eadler search for other commits by this committer
For perl@ owned ports:

- Fix COMMENT
- Trim header
11 Feb 2012 02:04:41
Original commit files touched by this commit  0.78
sunpoet search for other commits by this committer
- Update to 0.78
- Sort TEST_DEPENDS, MAN1, MAN3 and PLIST

Changes:        http://search.cpan.org/dist/Bio-NEXUS/doc/changes.txt
09 Feb 2012 01:23:59
Original commit files touched by this commit  0.77
wen search for other commits by this committer
- Update to 0.77
21 Jan 2012 17:40:15
Original commit files touched by this commit  0.76
eadler search for other commits by this committer
At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450
ports use BUILD_DEPENDS:= ${RUN_DEPENDS}. This patch fixes ports that are
currently broken. This is a temporary measure until we organically stop using
:= or someone(s) spend a lot of time changing all the ports over.

Explicit duplication > := > = and this just moves ports one step to the left

Approved by:    portmgr
25 Dec 2010 16:55:41
Original commit files touched by this commit  0.76
sunpoet search for other commits by this committer
- Use canonical format for FreeBSD.org MAINTAINER addresses
- Remove obsolete MD5 checksum while I'm here

PR:             ports/152844
Submitted by:   sunpoet (myself)
Approved by:    miwi (with portmgr hat)
25 Sep 2010 08:14:02
Original commit files touched by this commit  0.76
wen search for other commits by this committer
- Update to 0.76
07 Sep 2010 07:15:24
Original commit files touched by this commit  0.75
wen search for other commits by this committer
- Update to 0.75
- Reset maintainer to perl@
22 Aug 2009 20:39:51
Original commit files touched by this commit  0.72
miwi search for other commits by this committer
Bio::NEXUS package provides an object-oriented, Perl-based
applications programming interface (API) to the NEXUS file
format of Maddison, et al., 1997 (Syst. Biol. 46:590-621).
NEXUS is a powerful and extensible format designed for use
in evolutionary analysis, including the analysis of molecular
sequence data as well as classical morphological and life-history
data. NEXUS is the input or output format for software such as
PAUP*, MacClade, Mesquite, SIMMAP, MrBayes, Nexplorer, and
so on.  This package also contains the demonstration applications
nexplot.pl (plot character data with a tree) and nextool.pl
(allowing programmatic editing, e.g., selecting particular
clades or subsets of data).

WWW: http://search.cpan.org/dist/Bio-NEXUS/

PR:             ports/137983
Submitted by:   Wen Heping <wenheping at gmail.com>

Number of commits found: 12

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