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Port details
fastdnaml Faster DNAML, makes phylogenetic trees using maximum likelihood
1.2.2_2 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout 1.2.2_2Version of this port present on the latest quarterly branch.
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 search for ports maintained by this maintainer
Port Added: 2000-10-12 09:31:14
Last Update: 2022-09-07 21:58:51
Commit Hash: fb16dfe
License: GPLv2+
WWW:
https://www.life.illinois.edu/gary/programs/fastDNAml.html
Description:
fastDNAml is a program derived from Joseph Felsenstein's version 3.3 DNAML (part of his PHYLIP package). Users should consult the documentation for DNAML before using this program. fastDNAml is an attempt to solve the same problem as DNAML, but to do so faster and using less memory, so that larger trees and/or more bootstrap replicates become tractable. Much of fastDNAml is merely a recoding of the PHYLIP 3.3 DNAML program from PASCAL to C.
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (40 items)
Collapse this list.
  1. /usr/local/share/licenses/fastdnaml-1.2.2_2/catalog.mk
  2. /usr/local/share/licenses/fastdnaml-1.2.2_2/LICENSE
  3. /usr/local/share/licenses/fastdnaml-1.2.2_2/GPLv2+
  4. bin/fastDNAml
  5. bin/fastdnaml/ae2dnaml
  6. bin/fastdnaml/bootstrap
  7. bin/fastdnaml/categories
  8. bin/fastdnaml/categories_file
  9. bin/fastdnaml/checkpoint_summary
  10. bin/fastdnaml/clean_checkpoints
  11. bin/fastdnaml/clean_jumbles
  12. bin/fastdnaml/dnaml_progress
  13. bin/fastdnaml/fastDNAml_boot
  14. bin/fastdnaml/fastDNAml_loop
  15. bin/fastdnaml/frequencies
  16. bin/fastdnaml/global
  17. bin/fastdnaml/iterate_rates
  18. bin/fastdnaml/jumble
  19. bin/fastdnaml/min_info
  20. bin/fastdnaml/n_categories
  21. bin/fastdnaml/n_files
  22. bin/fastdnaml/out.PID
  23. bin/fastdnaml/outgroup
  24. bin/fastdnaml/printdata
  25. bin/fastdnaml/quickadd
  26. bin/fastdnaml/restart
  27. bin/fastdnaml/scores
  28. bin/fastdnaml/transition
  29. bin/fastdnaml/treefile
  30. bin/fastdnaml/treefile2prolog
  31. bin/fastdnaml/trees2NEXUS
  32. bin/fastdnaml/trees2prolog
  33. bin/fastdnaml/userlengths
  34. bin/fastdnaml/usertree
  35. bin/fastdnaml/usertrees
  36. bin/fastdnaml/weights
  37. bin/fastdnaml/weights_categories
  38. @owner
  39. @group
  40. @mode
Collapse this list.
Dependency lines:
  • fastdnaml>0:biology/fastdnaml
To install the port:
cd /usr/ports/biology/fastdnaml/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/fastdnaml
  • pkg install fastdnaml
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: fastdnaml
Flavors: there is no flavor information for this port.
distinfo:
SHA256 (fastDNAml_1.2.2.tar.gz) = 34690ec9a8e2fe1d86bea4a7cb10f7bc47e5e4c30719e1c9451210df4f160180 SIZE (fastDNAml_1.2.2.tar.gz) = 70005

Packages (timestamps in pop-ups are UTC):
fastdnaml
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest1.2.2_21.2.2_21.2.2_21.2.2_21.2.2_2-1.2.2_2-
FreeBSD:13:quarterly1.2.2_21.2.2_21.2.2_21.2.2_21.2.2_21.2.2_21.2.2_21.2.2_2
FreeBSD:14:latest1.2.2_21.2.2_21.2.2_21.2.2_21.2.2_21.2.2_2-1.2.2_2
FreeBSD:14:quarterly1.2.2_21.2.2_2-1.2.2_21.2.2_21.2.2_21.2.2_21.2.2_2
FreeBSD:15:latest1.2.2_21.2.2_2n/a1.2.2_2n/a1.2.2_21.2.2_21.2.2_2
This port has no dependencies.
There are no ports dependent upon this port

Configuration Options:
===> The following configuration options are available for fastdnaml-1.2.2_2: DOCS=on: Build and/or install documentation ===> Use 'make config' to modify these settings
Options name:
biology_fastdnaml
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. http://www.life.illinois.edu/gary/programs/fastDNAml/
Collapse this list.

Number of commits found: 22

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
07 Sep 2022 21:58:51
commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash: fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
1.2.2_2
07 Sep 2022 21:10:59
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
1.2.2_2
20 Jul 2022 14:20:57
commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 files touched by this commit
Tobias C. Berner (tcberner) search for other commits by this committer
biology: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Aaron Dalton <aaron@FreeBSD.org>
  *  Akinori MUSHA aka knu <knu@idaemons.org>
  *  Andrey Zakhvatov
  *  Bob Zimmermann <rpz@cse.wustl.edu>
  *  Camson Huynh <chuynh@biolateral.com.au>
  *  Dan Siercks <dsiercks@uwm.edu>
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Hannes Hauswedell <h2+fbsdports@fsfe.org>
  *  J. Bacon <jwb@FreeBSD.org>
  *  Jason Bacon <jwb@FreeBSD.org>
  *  Jeremy <karlj000@unbc.ca>
(Only the first 15 lines of the commit message are shown above View all of this commit message)
1.2.2_2
06 Apr 2021 14:31:07
commit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344ebcommit hash: 305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
1.2.2_2
12 Jan 2016 16:20:32
Revision:405891Original commit files touched by this commit
amdmi3 search for other commits by this committer
Convert LICENSE= "GPLxx # or later" to "GPLxx+"

Approved by:	portmgr blanket
1.2.2_2
20 Oct 2014 07:10:48
Revision:371237Original commit files touched by this commit
bapt search for other commits by this committer
Cleanup plist
1.2.2_2
16 Feb 2014 11:32:43
Revision:344535Original commit files touched by this commit
ehaupt search for other commits by this committer
Support staging
1.2.2_2
20 Sep 2013 15:55:44
Revision:327709Original commit files touched by this commit
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
1.2.2_2
19 Jun 2013 13:35:55
Revision:321249Original commit files touched by this commit
bsam search for other commits by this committer
. NOPORTDOCS -> PORT_OPTIONS:MDOCS;
. remove LICENSE_FILE for a standard license (GPLv2);
. trim Makefile headers.
1.2.2_2
26 Aug 2011 00:24:49
Original commit files touched by this commit
wen search for other commits by this committer
- Fix MASTER_SITES and WWW: line
- Add LICENSE
- Support CC/CFLAGS properly

PR:             ports/160083
Submitted by:   KATO Tsuguru <tkato432@yahoo.com>
1.2.2_1
02 Aug 2011 05:36:33
Original commit files touched by this commit
bapt search for other commits by this committer
Deprecate port with no more public distfiles
1.2.2_1
19 Mar 2011 12:38:54
Original commit files touched by this commit
miwi search for other commits by this committer
- Get Rid MD5 support
1.2.2_1
24 Nov 2005 00:04:00
Original commit files touched by this commit
pav search for other commits by this committer
- Add SHA256
1.2.2_1
04 Feb 2004 05:21:48
Original commit files touched by this commit
marcus search for other commits by this committer
Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.

(Part 2)
1.2.2
27 Jan 2004 20:51:07
Original commit files touched by this commit
trevor search for other commits by this committer
Add SIZE.
1.2.2
03 Nov 2003 21:01:28
Original commit files touched by this commit
linimon search for other commits by this committer
Pet portlint.
1.2.2
03 Nov 2003 20:44:32
Original commit files touched by this commit
edwin search for other commits by this committer
Date: Tue, 04 Nov 2003 00:42:55 +0900
From: Motomichi Matsuzaki <mzaki@e-mail.ne.jp>
Subject: Re: question about FreeBSD ports you maintain

Briefly, I have no time for maintaining ports.
So I wish to leave the maintainer position of these ports:

biology/fastdnaml
textproc/wv

Thanks you for maintaining the FreeBSD system.

                                        Best regards,
                                        Motomichi Matsuzaki
1.2.2
22 Oct 2003 09:29:55
Original commit files touched by this commit
osa search for other commits by this committer
Cosmetic fix: use %%DOCSDIR%% macro.
No functionally changes.

Submitted by:   Oleg Karachevtsev <ok@etrust.ru>
A part of PR:   57992
1.2.2
21 Feb 2003 11:01:38
Original commit files touched by this commit
knu search for other commits by this committer
De-pkg-comment.
08 Jul 2001 19:15:34
commit hash: fp1.15991@dev.null.freshports.orgcommit hash: fp1.15991@dev.null.freshports.orgcommit hash: fp1.15991@dev.null.freshports.orgcommit hash: fp1.15991@dev.null.freshports.org files touched by this commit
ijliao search for other commits by this committer
Add NOPORTDOCS support to pkg-plist    
24 Oct 2000 11:33:47
commit hash: fp1.5429@dev.null.freshports.orgcommit hash: fp1.5429@dev.null.freshports.orgcommit hash: fp1.5429@dev.null.freshports.orgcommit hash: fp1.5429@dev.null.freshports.org files touched by this commit
jeh search for other commits by this committer
gmake is needed    
12 Oct 2000 13:31:14
commit hash: fp1.4994@dev.null.freshports.orgcommit hash: fp1.4994@dev.null.freshports.orgcommit hash: fp1.4994@dev.null.freshports.orgcommit hash: fp1.4994@dev.null.freshports.org files touched by this commit
jeh search for other commits by this committer
Initial import of fastDNAml Version 1.2.2    

Number of commits found: 22