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137 Commits

Author SHA1 Message Date
Neil Blakey-Milner
6613c7d522 Update to emboss 1.1.0, fixing some style bugs too. 
PR:		ports/20519
Submitted by:	Johann Visagie <johann@egenetics.com> (maintainer)
 2000-08-12 16:15:48 +00:00
Will Andrews
dff24b9ce1 Upgrade to 0.90.d02. 
PR:		20383
Submitted by:	maintainer
 2000-08-05 16:01:27 +00:00
Chris D. Faulhaber
128571445c Fix MASTER_SITES 
PR:		20120
Submitted by:	Maintainer
 2000-08-01 23:31:19 +00:00
Neil Blakey-Milner
ed9505e0ad Add emboss, the European Molecular Biology Open Software Suite 
PR:		ports/20317
Submitted by:	Johann Visagie <johann@egenetics.com>
 2000-07-31 19:13:54 +00:00
Neil Blakey-Milner
7c7638c998 Add py-biopython, is a collection of Python packages and modules created 
by the Biopython Project, intended to provide the basis for building
bioinformatics applications in the Python language.

PR:		ports/20260
Submitted by:	Johann Visagie <johann@egenetics.com>
 2000-07-31 12:12:24 +00:00
Neil Blakey-Milner
4634742f54 Add BioPerl, a collection of Perl5 mods for bioinformatics/genomics 
PR:		ports/20252
Submitted by:	Johann Visagie <johann@egenetics.com>
 2000-07-28 14:06:03 +00:00
Neil Blakey-Milner
167641b4f4 Add p5-AcePerl, a perl interface to the ACEDB genome database system 
PR:		ports/20223
Submitted by:	Johann Visagie <johann@egenetics.com>
 2000-07-28 13:16:10 +00:00
Neil Blakey-Milner
7fb6a7b182 Add sim4, an implementation of the sim4 algorithm for aligning expressed 
DNA with genomic sequences

PR:		ports/20219
Submitted by:	Johann Visagie <johann@egenetics.com>
 2000-07-27 14:33:00 +00:00
Alexander Langer
7d609004d5 Add xdrawchem 0.82 - a program for drawing molecules 2000-07-19 13:23:02 +00:00
Steve Price
fdc60854fd Activating the chemeq, clustalw, paml, and phylip ports. 2000-07-10 03:26:57 +00:00
Steve Price
61cc06a312 Adding phylip version 3.5. 
This is a FREE package of programs for inferring phylogenies and carrying
out certain related tasks.  At present it contains 30 programs, which carry
out different algorithms on different kinds of data.

PR:		19705
Submitted by:	David A. Bader <dbader@cielo.eece.unm.edu>
 2000-07-10 03:25:48 +00:00
Steve Price
54c8d2b706 Add paml version 3.01. 
A set of utilities for performing Phylogenetic Analysis by Maximum
Likelihood (PAML).

PR:		19753
Submitted by:	David A. Bader <dbader@cielo.eece.unm.edu>
 2000-07-10 03:21:05 +00:00
Steve Price
8546beeba5 Adding clustalw version 1.81. 
A CLUSTAL W Multiple Sequence Alignment Program.

PR:		19746
Submitted by:	David A. Bader <dbader@cielo.eece.unm.edu>
 2000-07-10 03:17:40 +00:00
Steve Price
22dbc333ba Adding chemeq version 1.10. 
Outputs LaTeX code for chemical reactions.

PR:		19374
Submitted by:	Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
 2000-07-10 03:14:19 +00:00
Steve Price
89b7d2a446 - Use GTK_CONFIG/GLIB_CONFIG instead of hardcoded gtk12-config/glib12-config 
- Support CC/CFLAGS/PREIFX/LOCALBASE/X11BASE/MAKE/etc. properly

PR:		19623
Submitted by:	KATO Tsuguru <tkato@prontomail.ne.jp>
 2000-07-07 19:59:26 +00:00
Kris Kennaway
31f1a8ed6a Unbreak by extracting the correct distfile 
Noticed by:	bento
 2000-07-03 02:50:58 +00:00
Alexander Langer
6e6f6588ba ...local-distfiles... -> MASTER_SITE_LOCAL 2000-06-20 10:04:12 +00:00
Alexander Langer
4ac4fd59ba fc is ftn77 now, adjust accordingly. 
PR:		19160, 19161
Submitted by:	Glenn Johnson <gjohnson@nola.srrc.usda.gov>
Reviewed by:	will
 2000-06-11 19:51:59 +00:00
Alexander Langer
9ce1c4c8ae Update to version 1.0.3 
PR:		19094
Submitted by:	maintainer

While I'm hear, clean up the port, e.g.:
* Don't create/delete PATCHDIR while building this port
* put the distfile, which is unversioned, to my local-distfiles space.
* remove/reorder some actions, such as stripping twice.

Reviewed by:	will
 2000-06-11 15:13:50 +00:00
Will Andrews
db03c16270 Clean up this port so that it installs stuff in a more proper location 
as per hier(7) and Porter's Handbook.

PR:		18929
Submitted by:	MAINTAINER
 2000-06-09 04:59:14 +00:00
Akinori MUSHA
8e834d3b4a Update to the latest version as of 5 June. 
PR:		ports/19113, ports/19115
Submitted by:	Maintainer
 2000-06-08 08:51:03 +00:00
Will Andrews
a500b8cdd1 Fix build for 4.0 and later. Make DESCR shorter. 
PR:		19092
Submitted by:	MAINTAINER
 2000-06-07 17:10:12 +00:00
Will Andrews
fd97d4c549 Update to 3.6. 
PR:		19091
Submitted by:	MAINTAINER
 2000-06-07 16:59:47 +00:00
Will Andrews
50355f4ae3 Convert to usable F77 binary, especially on 4.0 and newer. 
PR:		19090
Submitted by:	MAINTAINER
 2000-06-07 16:20:59 +00:00
Will Andrews
6ffa86e6f5 Fix MD5 checksum. Since I was unable to find an older version of the 
distfile, I can't say what changes were made.

PR:		18986
Submitted by:	Andreas Schulz <ats@first.gmd.de>
 2000-06-04 20:30:01 +00:00
Steve Price
8753dd350d Fix this port after the recent PORT{NAME,VERSION} changes. portlint(1) 
while I'm here.
 2000-05-28 04:03:36 +00:00
Steve Price
330a51b60a Update to version 2000.04.26. 2000-05-28 03:56:30 +00:00
Kris Kennaway
8ab244856f Chase the checksum (lots of code changes) 
Noticed by:	bento
 2000-04-24 09:45:46 +00:00
Satoshi Asami
4190a2434c WRKSRC-related fixes. 2000-04-16 10:44:52 +00:00
Michael Haro
a0cb9ec98b update with the new PORTNAME/PORTVERSION variables 2000-04-08 22:04:57 +00:00
Kris Kennaway
027f59c9d8 Remove andy@icc.surw.chel.su as maintainer from his ports..he doesn't 
have time to maintain them.

Approved by:	andy
 2000-03-29 07:19:16 +00:00
Satoshi Asami
b2fc2bafbb Add virtual category "linux" to Linux apps and support libs/utils. 2000-02-28 08:34:04 +00:00
Kris Kennaway
4ee66cfcae Chase the checksum (minor source changes) 
Noticed by:	bento
 2000-02-27 08:20:01 +00:00
Michael Haro
ad37132999 update URLs 2000-02-24 02:02:22 +00:00
Michael Haro
e404ea3fc8 update WWW 2000-02-24 02:01:02 +00:00
Chris Piazza
5791028902 Forgot to remove this line 2000-02-06 19:20:09 +00:00
Chris Piazza
2c01d8fee6 Don't strip things we don't know how to strip 
PR:		16445
Submitted by:	Alexander Langer <alex@cichlids.com>
 2000-01-31 03:50:25 +00:00
Michael Haro
6ba32b931f fix some pkg/MESSAGE stuff 2000-01-29 20:01:39 +00:00
Chris Piazza
310a67c711 Update to ver 1.2.2 
PR:		15955
Submitted by:	Alexander Langer <alex@cichlids.com>
 2000-01-14 20:30:36 +00:00
Vanilla I. Shu
79dcbbd160 Bump glib12 's share library version to 3, 
and portlint.
 1999-10-09 18:42:12 +00:00
Steve Price
4e4e75044d f77(1) on the Alpha doesn't grok '-malign-double' so only use it on the 
i386 port.
 1999-09-27 01:59:53 +00:00
Tim Vanderhoek
9dbc794cb4 Enforce random pkg/COMMENT rules, including the one that states Emacs 
should be spelled corrcetly, although I rather liked "Emasc".
 1999-09-18 04:56:11 +00:00
Tim Vanderhoek
a17666dc26 Grammar and WWW: fix. 1999-09-18 04:42:33 +00:00
Steve Price
ad9b8e4f9f Update to new version. 
PR:		13459
Submitted by:	maintainer
 1999-09-18 03:26:35 +00:00
Satoshi Taoka
73ec58caa5 Compile-error 
PR:		13513
Submitted by:	Glenn Johnson <gljohns@bellsouth.net>
 1999-09-10 07:39:26 +00:00
Satoshi Taoka
a1f39d4413 Compile error 
PR:		13613
Submitted by:	maintainer
 1999-09-08 16:32:18 +00:00
Satoshi Taoka
a6ade68cd4 Added gperiodic and xmolwt 1999-09-06 20:09:12 +00:00
Satoshi Taoka
e134a23a22 Displays a periodic table of the elements. 
PR:		12690
Submmitted by:	Andrey Zakhvatov <andy@icc.surw.chel.su>
Reviewed by:	Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
 1999-09-06 20:08:26 +00:00
Satoshi Taoka
2a1c4bb993 This program calculate formula weight and percent of each elements. 
PR:		ports/13467
Submitted by:	Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
 1999-09-06 20:04:15 +00:00
Chris Piazza
2174e47129 Distfile changed on the MASTER_SITE. I have no idea if this 
was functional or not, as there isn't a version number anywhere.
Support CC in patch-aa, too...
 1999-08-31 03:57:56 +00:00