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296 commits

Author SHA1 Message Date
FUJISHIMA Satsuki
fe5926b918 chase checksum for repacked distfile almost an year ago. 
Maintainer does not have previous distfile.
As the distfile for this port is not distributable, it is OK to me to change
distinfo now.

PR:		31010
Submitted by:	maintainer
 2001-11-06 13:32:44 +00:00
Akinori MUSHA
b98ad00ebf Add ruby-bio (BioRuby), an integrated environment for Bioinformatics 
written in Ruby.
 2001-10-24 06:21:52 +00:00
Ying-Chieh Liao
4a7dfcd8cd update WWW and master site 
PR:		31011
Submitted by:	maintainer
 2001-10-22 06:36:14 +00:00
Akinori MUSHA
912498462e Remove a redundant trailing space. 2001-10-21 07:55:45 +00:00
Johann Visagie
c8206ca064 - Update the included (optional) Biopython-CORBA pacakge to version 0.3.0 
- If CORBA support is included, the default ORB has changed from omniORB to
  ORBit
- PORTREVISION bump
 2001-10-02 08:31:31 +00:00
Johann Visagie
cdda6a705b Add nclever 4.0, a character-based version of NCBI's Entrez program. 
PR:		30783
Submitted by:	Tony Maher <tonym@biolateral.com.au>
 2001-09-26 09:22:02 +00:00
Johann Visagie
1074957b97 - Add NO_LATEST_LINK, which should've been there in the first place. :-( 2001-09-20 15:11:14 +00:00
Johann Visagie
8565b5de56 - Add installation of include files 
- Bump PORTREVISION

PR:		30660
Submitted by:	Tony Maher <tonym@biolateral.com.au> (MAINTAINER)
 2001-09-19 13:03:18 +00:00
Mario Sergio Fujikawa Ferreira
064782fb41 style fix: un"echo" commands 
Approved by:	MAINTAINER
 2001-09-13 03:50:40 +00:00
Mario Sergio Fujikawa Ferreira
dfd533edaa Update to 3.9 
PR:		30398
Submitted by:	MAINTAINER
 2001-09-13 01:13:52 +00:00
Andrey A. Chernov
5676988fbd Bump png major 2001-09-11 03:32:41 +00:00
Anton Berezin
8091bed6f3 Fix a buglet with the use of XFREE86_VERSION without including 
bsd.port.pre.mk first.

Spotted by:	Dan Langille <dan@langille.org>
 2001-09-06 22:36:38 +00:00
Anton Berezin
fc3d9f8482 Make biology/rasmol work at all color depths. 
PR:		30406
Submitted by:	Glenn Johnson <gjohnson@srrc.ars.usda.gov>
 2001-09-06 21:25:13 +00:00
Johann Visagie
5f3039ab60 - Update to version 1.00.a3 
- Use pkg-req to check the installed version of Python
 2001-09-06 12:42:36 +00:00
Johann Visagie
22c3e2138e - Update to version 3.1 
PR:		30176
Submitted by:	David A. Bader <dbader@eece.unm.edu> (MAINTAINER)
 2001-08-29 12:00:08 +00:00
Johann Visagie
b77bfb26fc - Update to version 1.0.3 
PR:		30175
Submitted by:	David A. Bader <dbader@eece.unm.edu> (MAINTAINER)
 2001-08-29 11:53:29 +00:00
Johann Visagie
3953bc07d2 - Update to version 1.2.4 2001-08-22 14:43:45 +00:00
Johann Visagie
4e8aeac440 - Update port to version 2.2g 2001-08-22 13:18:10 +00:00
Johann Visagie
8aff3a669c Add seqio 1.2.2, a set of C functions which can read/write 
biological sequence files.

PR:		29922
Submitted by:	Tony Maher <tonym@biolateral.com.au>
 2001-08-22 12:07:26 +00:00
Johann Visagie
2149e94178 - Update to version 3.6.a2.1 - since the distribution tarball hadn't been 
renamed between versions, this port failed checksum.
- Apply some whitespace edits and cut pkg-descr down to size to placate
  portlint.

Reported by:	Jason Stajich <jason@chg.mc.duke.edu>
Approved by:	No response from MAINTAINER
 2001-08-22 10:02:27 +00:00
Johann Visagie
db0bae3c16 - Move the (very) long list of manpages from the port Makefile to a separate 
file.

Inspired by:	nectar's treatment of security/heimdal
 2001-08-20 12:41:11 +00:00
Trevor Johnson
6113f46e0d Update to 0.95. 
Compile molecule_tools.cpp with -O0 on all architectures, not just
the Alpha, to avoid g++ pessimization.

Submitted by:	Matthew Emmerton <matt@gsicomp.on.ca>
 2001-08-20 11:12:44 +00:00
Kris Kennaway
7a82bf9bb9 Remove a patch turd from the pkg-plist 2001-08-20 06:47:56 +00:00
Johann Visagie
490da9f942 Add treeviewx 0.1.1, a phylogenetic tree viewer. 
PR:		29770
Submitted by:	Tony Maher <tonym@biolateral.com.au>
 2001-08-17 08:39:28 +00:00
Johann Visagie
133a08c54d Add p5-bioperl-devel 0.9.0, 
a collection of Perl modules for
bioinformatics (developer's release).
 2001-08-14 09:36:36 +00:00
Johann Visagie
767182618a Update to version 1.75 2001-08-13 11:27:36 +00:00
Johann Visagie
102c91c252 - Properly list run-time dependencies in RUN_DEPENDS in Makefile. 
- Deploy %%PERL_VER%% and %%PERL_ARCH%% pragmas consistently throughout
  pkg-plist.  (Ouch, that was embarrassing.)
- Bump PORTREVISION due to the above.
- Update my email address and the project's URL in pkg-descr.
 2001-08-13 10:26:44 +00:00
Ying-Chieh Liao
676731ee70 upgrade to 0.26 
drop maintainership
 2001-08-09 17:37:03 +00:00
Johann Visagie
f7b5a60b9b Add lamarc 2001.08.06, 
a package of programs for computing
population parameters.
 2001-08-07 08:17:58 +00:00
Johann Visagie
043c249d98 Add recombine 1.40, a program to fit population models across sites. 2001-08-06 14:49:53 +00:00
Johann Visagie
52619bca7a Add fluctuate 1.30, a program to fit population models. 2001-08-06 14:45:39 +00:00
Johann Visagie
cd0583a2a8 Add coalesce 1.50, a program to fit population models. 2001-08-06 14:41:58 +00:00
Johann Visagie
a4dc6fd25a Correct my email address. 2001-08-06 14:26:51 +00:00
Johann Visagie
199894f656 Add migrate 1.2, 
a program to estimate population sizes and
migration rates.
 2001-08-06 13:07:46 +00:00
Johann Visagie
8a04d259ee Update maintainer's email address. 
Approved by:	MAINTAINER
 2001-08-06 10:50:02 +00:00
Johann Visagie
e391dae637 - Update port to version 2.0.1 
- Add two new EMBASSY applications, MEME and HMMER.
 2001-08-03 11:32:42 +00:00
Mario Sergio Fujikawa Ferreira
2409be3f61 add USE_XLIB 
PR:		29330
Submitted by:	bento, Patrick Li <pat@databits.net>
 2001-07-30 21:05:54 +00:00
Steve Price
73d28d48ac This port require bison to build so add USE_BISON. 2001-07-25 17:57:49 +00:00
Johann Visagie
3ea351668d Remove obsolete pointer to online documentation. 2001-07-11 13:58:12 +00:00
Johann Visagie
ff28a890c2 Update package's URL; my email address. 2001-07-11 13:33:34 +00:00
Bill Fenner
8df1bc22f6 Update Tony Maher's email address. 2001-07-10 16:35:08 +00:00
Maxim Sobolev
ec7b561464 ${PREFIX}/share/${PORTNAME} --> ${DATADIR} 2001-07-10 13:54:22 +00:00
Johann Visagie
bb7cb3d31e Update to version 1.00.a2 2001-07-09 09:57:51 +00:00
Ying-Chieh Liao
a39c693c25 Add NOPORTDOCS support to pkg-plist 2001-07-08 18:15:34 +00:00
Johann Visagie
3bd1feafc5 Update to version 1.3.0 
PR:		28761
Submitted by:	Patrick Li <pat@databits.net>
 2001-07-06 09:22:22 +00:00
Johann Visagie
7ddb2910c6 - General clean-up of port. 
- Install PDF and HTML documentation.
- Take over maintainership.

Approved by:	Silence from previous maintainer; no objections from -ports
 2001-07-05 08:58:12 +00:00
Johann Visagie
b4e642da75 - Update to version 0.7.1 
- Add a build-time message to inform the user of available options.
 2001-07-04 13:22:13 +00:00
Johann Visagie
819158bfa4 - Add %%PORTDOCS%% support to pkg-plist. 
- $INSTALL_MAN -> $INSTALL_DATA in Makefile where appropriate.

PR:		28668
Submitted by:	Patrick Li <pat@databits.net>
 2001-07-04 12:16:13 +00:00
Johann Visagie
f046432f9c Add grappa 1.0.2, Genome Rearrangements Analysis and Phylogeny 
Software.

PR:		28541
Submitted by:	dbader@eece.unm.edu
 2001-07-04 08:39:40 +00:00
Johann Visagie
9d8379b1a4 Add %%PORTDOCS%% support to pkg-plist, and tweak Makefile slightly to support 
it.

PR:		28665
Submitted by:	Patrick Li <pat@databits.net>
 2001-07-04 08:12:21 +00:00