Port details |
- njplot Phylogenetic tree drawing program
- 2.4 biology
=1 2.4Version of this port present on the latest quarterly branch.
- Maintainer: jrm@FreeBSD.org
- Port Added: 2008-05-14 14:07:25
- Last Update: 2018-12-11 15:04:12
- SVN Revision: 487239
- People watching this port, also watch:: tmux, font-misc-meltho, xclock, p5-Net-HTTP
- License: NONE
- WWW:
- http://pbil.univ-lyon1.fr/software/njplot.html
- Description:
- NJplot is a tree drawing program able to draw any phylogenetic tree expressed
in the Newick phylogenetic tree format (e.g., the format used by the PHYLIP
package). NJplot is especially convenient for rooting the unrooted trees
obtained from parsimony, distance or maximum likelihood tree-building methods.
The package contains the following programs:
njplot - draw phylogenetic trees and interactively modify them
newicktops - non-interactive version rendering into a PostScript file
newicktotxt - non-interactive version rendering into a text file
unrooted - draw unrooted circular trees
If you use NJplot in a published work, please cite the following reference:
Perriere, G. and Gouy, M. (1996) WWW-Query: An on-line retrieval system for
biological sequence banks. Biochimie, 78, 364-369.
WWW: http://pbil.univ-lyon1.fr/software/njplot.html
-
cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦
- Manual pages:
-
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- No installation instructions:
- This port has been deleted.
- PKGNAME: there is no package for this port: _LICENSE_RESTRICTED = delete-package delete-distfiles
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1479168824
SHA256 (njplot-2.4.tar.gz) = e470f7583691da2ad36a7cda4269bf64807f77cb27fe1e16cbfefc45942469d3
SIZE (njplot-2.4.tar.gz) = 83239
No package information for this port in our database- Sometimes this happens. Not all ports have packages. Perhaps there is a build error. Check the fallout link:
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- blastall : biology/ncbi-toolkit
- x11.pc : x11/libX11
- xmu.pc : x11-toolkits/libXmu
- xp.pc : x11/libXp
- xt.pc : x11-toolkits/libXt
- xpm.pc : x11/libXpm
- Runtime dependencies:
-
- x11.pc : x11/libX11
- xmu.pc : x11-toolkits/libXmu
- xp.pc : x11/libXp
- xt.pc : x11-toolkits/libXt
- xpm.pc : x11/libXpm
- Library dependencies:
-
- libXm.so.4 : x11-toolkits/open-motif
- There are no ports dependent upon this port
Configuration Options:
- ===> The following configuration options are available for njplot-2.4:
DOCS=on: Build and/or install documentation
===> Use 'make config' to modify these settings
- Options name:
- N/A
- USES:
- motif
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
Commit | Credits | Log message |
2.4 11 Dec 2018 15:04:12 |
jrm |
Remove biology/njplot
The author of both NJplot and SeaView says that NJplot can be considered
deprecated and replaced by SeaView. |
2.4 28 Nov 2016 15:19:42 |
jrm |
biology/njplot: Add site in MASTER_SITES because package builders are
timing out during fetch.
Approved by: AMDmi3 (mentor)
Differential Revision: https://reviews.freebsd.org/D8651 |
2.4 16 Nov 2016 14:52:53 |
jrm |
biology/njplot: Revive and update to version 2.4
Approved by: AMDmi3 (mentor)
Differential Revision: https://reviews.freebsd.org/D8518 |
2.1_3 28 Nov 2015 23:08:03 |
rene |
Remove expired ports:
2015-11-26 audio/pecl-id3: Broken for more than 6 months
2015-11-26 dns/geta: Broken for more than 6 months
2015-11-26 finance/openerp-web: Broken for more than 6 months
2015-11-26 devel/py-async: Further using of this module is not encouraged by
upstream
2015-11-26 chinese/kon2: Depends on expiring chinese/cce
2015-11-26 games/linux-skulltag: Depends on expiring audio/linux-fmodapi
2015-11-26 archivers/wzip: Broken for more than 6 months
2015-11-26 databases/sybtcl: Broken for more than 6 months
2015-11-26 biology/povchem: Broken for more than 6 months
2015-11-26 audio/btc: Broken for more than 6 months
2015-11-26 astro/wmglobe: Broken for more than 6 months
2015-11-26 graphics/pyro: Broken for more than 6 months
2015-11-26 graphics/jpeg2ps: Broken for more than 6 months
2015-11-26 chinese/gugod-clean: Broken for more than 6 months (Only the first 15 lines of the commit message are shown above ) |
2.1_3 25 Oct 2015 19:35:28 |
antoine |
Deprecate ports broken for more than 6 months |
2.1_3 05 Apr 2015 17:55:36 |
bapt |
Mark as broken unfetchable ports |
2.1_3 01 Jun 2014 11:26:39 |
ohauer |
- add stage support
- add OPTION for X11
- bump PORTREVISION |
2.1_2 21 Feb 2014 13:35:26 |
ehaupt |
Remove trailing whitespaces from category biology |
2.1_2 10 Feb 2014 13:54:28 |
ehaupt |
According to the Porter's Handbook (5.12.2.3.) default options must be added to
OPTIONS_DEFINE. This policy has been implemented only recently that's why we
have many ports violating this policy.
This patch adds the default options specified in the Porter's Handbook to
OPTIONS_DEFINE where they are being used. Ports maintained by
gnome@FreeBSD.org, kde@FreeBSD.org and x11@FreeBSD.org have been excluded.
Approved by: portmgr (bapt) |
2.1_2 03 Jan 2014 15:46:52 |
adamw |
Convert biology to MDOCS and MEXAMPLES |
2.1_2 22 Sep 2013 18:05:05 |
bapt |
Fix NO_STAGE attribution |
2.1_2 20 Sep 2013 15:55:44 |
bapt |
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology) |
2.1_2 10 Jul 2013 07:33:24 |
bapt |
Convert from USE_MOTIF to USES=motif |
2.1_2 24 Jun 2012 21:53:38 |
dougb |
s/X11BASE/LOCALBASE/, or equivalent.
The X11BASE variable is long gone, however these ports were not updated. |
2.1_2 02 May 2011 12:44:53 |
makc |
Bump PORTREVISION after open-mofit update |
2.1_1 19 Mar 2011 12:38:54 |
miwi |
- Get Rid MD5 support |
2.1_1 09 Jun 2009 15:33:28 |
amdmi3 |
Convert most of remaining ports that depend on xorg-libraries to
modular xorg.
- supply corresponding USE_XORG for all imake-using ports that need it
- USE_IMAKE no longer implies USE_XLIB in absence of USE_XORG
- retire USE_X_PREFIX which is not really used anywhere after the
above change
- a few minor nits like whitespace and SF macro
Tested by: 2 tinderbox runs by pav
Approved by: portmgr (pav) |
2.1 17 May 2008 16:52:34 |
pav |
- Update maintainer's email address
Submitted by: Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp> (maintainer) |
2.1 14 May 2008 14:07:01 |
pav |
NJplot is a tree drawing program able to draw any phylogenetic tree expressed
in the Newick phylogenetic tree format (e.g., the format used by the PHYLIP
package). NJplot is especially convenient for rooting the unrooted trees
obtained from parsimony, distance or maximum likelihood tree-building methods.
The package contains the following programs:
njplot - draw phylogenetic trees and interactively modify them
newicktops - non-interactive version rendering into a PostScript file
newicktotxt - non-interactive version rendering into a text file
unrooted - draw unrooted circular trees
If you use NJplot in a published work, please cite the following reference:
Perriere, G. and Gouy, M. (1996) WWW-Query: An on-line retrieval system for
biological sequence banks. Biochimie, 78, 364-369.
WWW: http://pbil.univ-lyon1.fr/software/njplot.html
PR: ports/118438
Submitted by: Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp> |