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856 commits

Author SHA1 Message Date
Kris Kennaway
ae994c8ea8 Use libtool port instead of included version to avoid objformat a.out botch 2007-02-01 02:42:05 +00:00
Dirk Meyer
e904a42961 - add category gnustep 
PR:		103931
Approved by:	pav
 2007-01-31 18:18:14 +00:00
Maho Nakata
9dba1af857 Build fix. 
Submitted by:	kris via pointyhat and pav.
 2007-01-29 02:13:52 +00:00
Ion-Mihai Tetcu
124ca189fb Update to 3.66 
PR:		ports/108434
Submitted by:	Marcelo Araujo
 2007-01-27 21:23:52 +00:00
Vasil Dimov
885510efe1 Fix master sites, un-deprecate and update biology/recombine to 1.41. 2007-01-25 12:22:50 +00:00
Vasil Dimov
b82ef03e30 Remove expired leaf port: 
2007-01-07 biology/coalesce: distfile disappeared from homepage

Actually the software is still available at:
http://evolution.gs.washington.edu/lamarc/coalesce.html, but it is
not supported by the authors. Last version is from 1995 and
biology/fluctuate can be used instead.
 2007-01-25 11:25:40 +00:00
Vasil Dimov
c4499324f3 Get rid of biology/coalesce dependency, it is deprecated and will be removed 
shortly.
 2007-01-25 11:10:43 +00:00
Vasil Dimov
4b65027977 Fix master site and un-deprecate 2007-01-25 11:01:25 +00:00
Martin Wilke
e52225d8c8 - Fix typo 2007-01-23 13:05:24 +00:00
Rong-En Fan
b06ef1af5b - Project moves to a new home. Change MASTER_SITES and WWW 
PR:		ports/108214
Submitted by:	Thomas Abthorpe <thomas at goodking.ca>
Approved by:	Fernan Aguero <fernan at iib.unsam.edu.ar> (maintainer)
 2007-01-22 23:22:53 +00:00
Maho Nakata
4406ddf947 Fix build. 
Submitted by:	kris via pointyhat.
 2007-01-19 06:41:03 +00:00
Maho Nakata
0f3556420c Forgot to commit a patch. Fixes build. 
Submitted by:	kris via pointyhat.
 2007-01-19 02:19:06 +00:00
Maho Nakata
8599517b90 * Migrate to gfortran. 
* Bump port revision.
 2007-01-17 05:30:10 +00:00
Boris Samorodov
22f2e343c5 . change dependencies: shells/bash2 -> shells/bash; 
. bump PORTREVISION (RUN_DEPENDS changes);
. for converters/konwert:
  - introduce PATCHLEVEL to be used instead of PORTREVISION at filenames;
  - update to new PATCHLEVEL=11.

PR:		107000 [1], 107046 [2], 107106 [3], 107114 [4]
Submitted by:	bsam (me)
Approved by:	all maintainers timeout three and a half week:
		mij at bitchx.it             [1]
		j.koopmann at seceidos.de    [2]
		chuynh at biolateral.com.au  [3]
		alexs at snark.rinet.ru      [4]
 2007-01-16 18:21:00 +00:00
Maho Nakata
0189d58a25 * Migrate to gfortran. 
* Bump port revision.
* fix build [1].

Submitted by:	kris [1]
 2007-01-16 04:41:41 +00:00
Dirk Meyer
d7f59ea8de - update to use new bsd.gnustep.mk 
Approved by:	gurkan@linuks.mine.nu
 2007-01-13 03:57:25 +00:00
Maho Nakata
667bd5ea91 * Migrate to gfortran. 
* Bump port revision.
 2007-01-12 12:21:21 +00:00
Maho Nakata
709a18cca2 Using gfortran42 only. not using gcc42. 
Bump portrevision.
 2007-01-12 05:40:57 +00:00
Maho Nakata
5d7fcfc438 Using only gfortran42. not gcc42. 
Bump portrevision.
 2007-01-12 05:39:18 +00:00
Maho Nakata
602b708bfb * Add dummy knob WANT_FORTRAN for future gfortran 
migration. currently it is not buildable with gfrotran42.
* Honor FC and FFLAGS.
 2007-01-09 02:37:43 +00:00
Maho Nakata
8ae475f6a8 migrated to gfortran. 2007-01-09 01:48:41 +00:00
Maho Nakata
397f4ace33 Migrated to gfortran. 2007-01-09 01:47:06 +00:00
Dirk Meyer
5779dde040 The BioCocoa framework provides developers with the opportunity to add 
support for reading and writing BEAST, Clustal, EMBL, Fasta, GCG-MSF, GDE,
Hennig86, NCBI, NEXUS, NONA, PDB, Phylip, PIR, Plain/Raw, Swiss-Prot and
TNT files by writing only three lines of code.
The framework is written in Cocoa (Objective-C).

WWW: http://bioinformatics.org/biococoa/
 2006-12-30 09:20:54 +00:00
Martin Wilke
96867a420d - Update to 1.0.1 
- Update MASTER_SITES
- Pass maintainership to submitter

PR:		ports/107246
Submitted by:	Fernan Aguero<fernan@iib.unsam.edu.ar> (maintainer)
 2006-12-29 23:40:53 +00:00
Aaron Dalton
dda8ae5412 Update to v0.15 2006-12-27 18:58:26 +00:00
Mark Linimon
5977ae11ec Reset tonymaher@optusnet.com.au due to maintainer-timeouts and no response 
to email.

Hat:		portmgr
 2006-12-26 12:46:34 +00:00
Martin Wilke
5f0f9b3c0a - Update to 5.1.2 
- Update maintainer mail adresse

PR:		ports/107118
Submitted by:	M. L. Dodson <bdodson@houston.rr.com> (maintainer)
 2006-12-23 21:45:17 +00:00
Rong-En Fan
93e8068e88 - Update to 1.03 
PR:		ports/106300
Submitted by:	chinsan
Approved by:	maintainer timeout (15 days)
 2006-12-19 06:47:45 +00:00
Mark Linimon
e0cde90bd9 Reset dbader@ece.unm.edu due to timeouts and no response to email. 
Hat:		portmgr
 2006-12-13 13:20:20 +00:00
Mark Linimon
2db91e4f1f Reset whitekid@gmail.com after timeouts and no response to email. 
Hat:		portmgr
 2006-12-13 12:56:01 +00:00
Gabor Kovesdan
93e805e722 - Update to 2.1.3 
- Fix fetching
- Remove old patch and use MAKE_ARGS instead
- portlint(1) and whitespace

Approved by:	erwin (mentor)
 2006-12-10 12:39:32 +00:00
Gabor Kovesdan
ac97872da3 - Deprecate 
- Set EXPIRATION_DATE

Approved by:	erwin (mentor)
 2006-12-10 12:37:38 +00:00
Dirk Meyer
cb4e8b9a8e - Local/Tools/Resources now global 2006-12-09 09:40:38 +00:00
Rong-En Fan
c1e393d3a9 - Respect X11BASE 
Approved by:	portmgr (linimon)
 2006-12-09 07:49:55 +00:00
Frank J. Laszlo
4ffcd931fe - Update to 0.14 
Submitted by:	Jin-Shan Tseng <tjs@cdpa.nsysu.edu.tw>
Approved by:	maintainer timeout (3 months)
 2006-12-07 15:43:27 +00:00
Rong-En Fan
146e6417d0 - Mark broken on amd64 < 6. We got following 
cc -O -pipe  -fPIC  -g -Wall -DACEDB4  -I. -I./wh -DFREEBSD -c -O -pipe  -fPIC  -g -Wall -DACEDB4 -c arraysub.c
arraysub.c: In function `stackused':
arraysub.c:54: error: unrecognizable insn:
(insn 44 22 24 2 arraysub.c:53 (set (reg:SI 1 dx [66])
        (subreg:SI (plus:DI (subreg:DI (reg:SI 7 sp) 0)
	                (const_int -1 [0xffffffffffffffff])) 0)) -1 (nil)
			    (nil))
arraysub.c:54: internal compiler error: in extract_insn, at recog.c:2083

Reported by:	pointyhat via kris
Approved by:	Philip M. Gollucci (maintainer)
 2006-12-04 04:13:30 +00:00
Dmitry Sivachenko
274e5c4ab3 Correct path to Compress::Zlib.pm after recent p5-Compress-Zlib update. 2006-12-03 12:45:59 +00:00
Rong-En Fan
365cb9a6e2 - Respect X11BASE 
Approved by:	maintainer (implicit)
 2006-12-02 20:34:11 +00:00
Pav Lucistnik
d750615763 - Use features of bsd.wx.mk, especially USE_WX 
PR:		ports/101613
Submitted by:	alepulver
 2006-12-01 07:39:02 +00:00
Martin Wilke
bdfb7058a1 - Respect X11BASE 
PR:		ports/105891
Submitted by:	trasz
 2006-11-27 22:03:22 +00:00
Rong-En Fan
47d8f620ab - Update to 1.91 
- Unbreak on amd64

PR:		ports/105414
Submitted by:	rafan
Approved by:	maintainer timeout (15 days)
 2006-11-27 02:35:16 +00:00
Thierry Thomas
dd746cb883 - Upgrade to the latest beta and unbreak; 
- Add a regression-test target;

- Fix plist for WITHOUT_SAMPLES.

PR:		ports/104685
Approved by:	maintainer's time-out (1 month)
 2006-11-21 22:35:28 +00:00
Dirk Meyer
1efa3fa64a - cleanup patches 2006-11-12 16:59:53 +00:00
Dirk Meyer
b8fd717fad - fix build on non i386 archs 
Submitted by:	Gürkan Sengün
 2006-11-10 14:51:56 +00:00
Dirk Meyer
1d8ba7db66 Adun is a new extendible molecular simulation program that also 
includes data management and analysis capabilities.

WWW: http://diana.imim.es/Adun
Submitted by:	Gürkan Sengün
Reviewed by:	dinoex
 2006-11-09 20:16:54 +00:00
Martin Wilke
58c1e960b2 - Update to 1.42 
PR:		ports/104635
Submitted by:	Thomas Abthorpe <thomas@goodking.ca>
Approved by:	maintainer
 2006-10-31 13:25:21 +00:00
Martin Wilke
37c6f45ce2 - Update to 34.t26.b3 
PR:		ports/104508
Submitted by:	Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer)
 2006-10-31 09:02:04 +00:00
Sam Lawrance
1969eb5f6b Distfile now checksums successfully. 
PR:		ports/104341
Submitted by:	Frank J. Laszlo <laszlof@vonostingroup.com>
Approved by:	portmgr (marcus)
 2006-10-14 16:13:49 +00:00
Joe Marcus Clarke
29747f458a Chase the GNOME X11BASE to LOCALBASE move, and fix the build with the 
new freetype2 where needed.

Submitted by:	mezz, ahze, pav, and many others
Approved by:	portmgr (implicit, kris)
 2006-10-14 08:54:54 +00:00
Pav Lucistnik
deff0d8ddd - Add hmmer 5.09 application 2006-10-10 11:31:42 +00:00