FreshPorts -- The Place For Ports If you buy from Amazon USA, please support us by using this link.
Follow us
Blog
Twitter

I am looking for an LTO tape library. Do you have one to spare?
Port details
p5-Bio-Phylo Phylogenetic analysis using Perl
0.56 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: 13 May 2006 16:50:16
Also Listed In: perl5
License: ART10 GPLv1


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/
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. graphics/p5-GD
  2. math/p5-Math-CDF
  3. math/p5-Math-Random
  4. textproc/p5-PDF-API2
  5. textproc/p5-SVG
  6. graphics/p5-SWF-Builder
  7. textproc/p5-XML-LibXML
  8. textproc/p5-XML-Twig
  9. textproc/p5-XML-XML2JSON
  10. biology/p5-bioperl
  11. textproc/p5-libxml
  12. lang/perl5.16
Required To Run:
  1. graphics/p5-GD
  2. math/p5-Math-CDF
  3. math/p5-Math-Random
  4. textproc/p5-PDF-API2
  5. textproc/p5-SVG
  6. graphics/p5-SWF-Builder
  7. textproc/p5-XML-LibXML
  8. textproc/p5-XML-Twig
  9. textproc/p5-XML-XML2JSON
  10. biology/p5-bioperl
  11. textproc/p5-libxml
  12. lang/perl5.16
There are no ports dependent upon this port

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


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: 42

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  0.56
Revision:371237
bapt search for other commits by this committer
Cleanup plist
05 Jan 2014 12:07:21
Original commit files touched by this commit  0.56
Revision:338751
az search for other commits by this committer
- support stage
20 Sep 2013 15:55:44
Original commit files touched by this commit  0.56
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  0.56
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.
20 Jul 2013 10:04:33
Original commit files touched by this commit  0.56
Revision:323340
wen search for other commits by this committer
- Update to 0.56
16 Feb 2013 14:58:52
Original commit files touched by this commit  0.52
Revision:312356
culot search for other commits by this committer
- Update to 0.52 [1]
- Capitalize names (Perl) in COMMENT

PR:		ports/176003 [1]
Submitted by:	Gea-Suan Lin <gslin@gslin.org>
12 Jun 2012 18:55:28
Original commit files touched by this commit  0.50
sunpoet search for other commits by this committer
- Update to 0.50
- Add TEST_DEPENDS
- Sort PLIST
03 Jun 2012 15:12:49
Original commit files touched by this commit  0.49
sunpoet search for other commits by this committer
- Update to 0.49
01 Jun 2012 05:26:28
Original commit files touched by this commit  0.48_1
dinoex search for other commits by this committer
- update png to 1.5.10
03 May 2012 09:48:21
Original commit files touched by this commit  0.48
sunpoet search for other commits by this committer
- Update to 0.48
- Add BUILD_DEPENDS
11 Apr 2012 01:34:57
Original commit files touched by this commit  0.47
wen search for other commits by this committer
- Update to 0.47
05 Mar 2012 08:22:46
Original commit files touched by this commit  0.46
wen search for other commits by this committer
- Update to 0.46
29 Oct 2011 06:20:45
Original commit files touched by this commit  0.45
sunpoet search for other commits by this committer
- Update to 0.45
17 Oct 2011 01:38:22
Original commit files touched by this commit  0.43
sunpoet search for other commits by this committer
- Update to 0.43
09 Aug 2011 18:26:45
Original commit files touched by this commit  0.40
culot search for other commits by this committer
- Update to 0.40
- Add LICENSE (Artistic 1 & GPLv1)
01 Aug 2011 03:11:37
Original commit files touched by this commit  0.39
sunpoet search for other commits by this committer
- Update to 0.39
16 Jul 2011 06:08:34
Original commit files touched by this commit  0.38
sunpoet search for other commits by this committer
- Update to 0.38
- Sort MAN3 and PLIST
01 Apr 2011 08:34:03
Original commit files touched by this commit  0.36
wen search for other commits by this committer
- Update to 0.36
28 Feb 2011 01:30:15
Original commit files touched by this commit  0.35
wen search for other commits by this committer
- Update to 0.35
23 Dec 2010 06:33:33
Original commit files touched by this commit  0.34
wen search for other commits by this committer
- Update to 0.34
16 Dec 2010 08:19:56
Original commit files touched by this commit  0.33
wen search for other commits by this committer
- Update to 0.33
12 Dec 2010 21:29:40
Original commit files touched by this commit  0.32
pgollucci search for other commits by this committer
- Update to 0.32

With Hat:       perl@
Changes:        http://search.cpan.org/dist/Bio-Phylo/Changes
22 Nov 2010 08:50:40
Original commit files touched by this commit  0.31
wen search for other commits by this committer
- Update to 0.31
17 Nov 2010 06:24:38
Original commit files touched by this commit  0.30
wen search for other commits by this committer
- Update to 0.30

PR:             ports/152205
Submitted by:   Gea-Suan Lin <gslin@gslin.org>
09 Nov 2010 14:15:44
Original commit files touched by this commit  0.28
jadawin search for other commits by this committer
- Update to 0.28
25 Oct 2010 10:59:25
Original commit files touched by this commit  0.26
wen search for other commits by this committer
- Update to 0.26
- Reset maintainer to perl@
22 Oct 2010 09:29:44
Original commit files touched by this commit  0.22
wen search for other commits by this committer
- Update to 0.22
28 Mar 2010 06:47:48
Original commit files touched by this commit  0.21_1
dinoex search for other commits by this committer
- update to 1.4.1
Reviewed by:    exp8 run on pointyhat
Supported by:   miwi
09 Mar 2010 07:34:48
Original commit files touched by this commit  0.21
wen search for other commits by this committer
- Update to 0.21
03 Mar 2010 13:44:19
Original commit files touched by this commit  0.18
wen search for other commits by this committer
- Update to 0.18
- Adopt

Feature safe:   yes
05 Feb 2010 11:46:55
Original commit files touched by this commit  0.16_2
dinoex search for other commits by this committer
- update to jpeg-8
21 Dec 2009 02:19:12
Original commit files touched by this commit  0.16_1
dougb search for other commits by this committer
For ports maintained by ports@FreeBSD.org, remove names and/or
e-mail addresses from the pkg-descr file that could reasonably
be mistaken for maintainer contact information in order to avoid
confusion on the part of users looking for support. As a pleasant
side effect this also avoids confusion and/or frustration for people
who are no longer maintaining those ports.
31 Jul 2009 13:57:52
Original commit files touched by this commit  0.16_1
dinoex search for other commits by this committer
- bump all port that indirectly depends on libjpeg and have not yet been bumped
or updated
Requested by:   edwin
29 Apr 2008 05:27:10
Original commit files touched by this commit  0.16
linimon search for other commits by this committer
Reset aaron's port maintainerships due to many maintainer-timeouts.
17 Apr 2008 14:30:31
Original commit files touched by this commit  0.16
araujo search for other commits by this committer
- 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)
08 Sep 2007 00:53:15
Original commit files touched by this commit  0.16
linimon search for other commits by this committer
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
19 Jun 2007 20:15:59
Original commit files touched by this commit  0.16
aaron search for other commits by this committer
Bump to v0.16.

PR:             111719
Submitted by:   araujo@bsdmail.org
19 May 2007 20:32:57
Original commit files touched by this commit  0.15_1
flz search for other commits by this committer
- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.
27 Dec 2006 18:58:26
Original commit files touched by this commit  0.15
aaron search for other commits by this committer
Update to v0.15
07 Dec 2006 15:43:27
Original commit files touched by this commit  0.14
laszlof search for other commits by this committer
- Update to 0.14

Submitted by:   Jin-Shan Tseng <tjs@cdpa.nsysu.edu.tw>
Approved by:    maintainer timeout (3 months)
19 May 2006 23:18:32
Original commit files touched by this commit  0.12
aaron search for other commits by this committer
- 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
13 May 2006 16:48:15
Original commit files touched by this commit  0.07
aaron search for other commits by this committer
Adding port biology/p5-Bio-Phylo, Phylogenetic analysis using perl.

Approved by:    tobez (implicit)

Number of commits found: 42

Login
User Login
Create account

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD

This site
What is FreshPorts?
About the authors
FAQ
How big is it?
The latest upgrade!
Privacy
Forums
Blog
Contact

Search
Enter Keywords:
 
more...

Latest Vulnerabilities
asterisk11Nov 21
asterisk11Nov 21
phpmyadminNov 21
kde4-runtimeNov 20
kwebkitpartNov 20
yiiNov 19
chromiumNov 18
kde4-workspaceNov 17
dbusNov 11
wgetNov 08
konversation-kde4Nov 05
jenkinsOct 31
jenkins-ltsOct 31
twikiOct 31
libsshOct 29

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

* - modified, not new

All vulnerabilities


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds


Statistics
Graphs
NEW Graphs (Javascript)
Traffic

Calculated hourly:
Port count 24409
Broken 103
Deprecated 39
Ignore 360
Forbidden 1
Restricted 206
No CDROM 93
Vulnerable 18
Expired 0
Set to expire 35
Interactive 0
new 24 hours 5
new 48 hours7
new 7 days136
new fortnight153
new month205

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD
Valid HTML, CSS, and RSS.
Copyright © 2000-2014 Dan Langille. All rights reserved.