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* - Respect X11BASEMartin Wilke2006-11-271-2/+2
| | | | | | | | PR: ports/105891 Submitted by: trasz Notes: svn path=/head/; revision=178134
* - Update to 1.91Rong-En Fan2006-11-273-38/+5
| | | | | | | | | | | - Unbreak on amd64 PR: ports/105414 Submitted by: rafan Approved by: maintainer timeout (15 days) Notes: svn path=/head/; revision=178088
* - Upgrade to the latest beta and unbreak;Thierry Thomas2006-11-214-230/+274
| | | | | | | | | | | | - Add a regression-test target; - Fix plist for WITHOUT_SAMPLES. PR: ports/104685 Approved by: maintainer's time-out (1 month) Notes: svn path=/head/; revision=177766
* - cleanup patchesDirk Meyer2006-11-121-3/+0
| | | | Notes: svn path=/head/; revision=177110
* - fix build on non i386 archsDirk Meyer2006-11-101-2/+2
| | | | | | | Submitted by: Gürkan Sengün Notes: svn path=/head/; revision=177002
* Adun is a new extendible molecular simulation program that alsoDirk Meyer2006-11-0910-0/+607
| | | | | | | | | | | includes data management and analysis capabilities. WWW: http://diana.imim.es/Adun Submitted by: Gürkan Sengün Reviewed by: dinoex Notes: svn path=/head/; revision=176957
* - Update to 1.42Martin Wilke2006-10-313-121/+90
| | | | | | | | | PR: ports/104635 Submitted by: Thomas Abthorpe <thomas@goodking.ca> Approved by: maintainer Notes: svn path=/head/; revision=175802
* - Update to 34.t26.b3Martin Wilke2006-10-313-4/+7
| | | | | | | | PR: ports/104508 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=175755
* Distfile now checksums successfully.Sam Lawrance2006-10-141-4/+0
| | | | | | | | | PR: ports/104341 Submitted by: Frank J. Laszlo <laszlof@vonostingroup.com> Approved by: portmgr (marcus) Notes: svn path=/head/; revision=175301
* Chase the GNOME X11BASE to LOCALBASE move, and fix the build with theJoe Marcus Clarke2006-10-142-5/+7
| | | | | | | | | | new freetype2 where needed. Submitted by: mezz, ahze, pav, and many others Approved by: portmgr (implicit, kris) Notes: svn path=/head/; revision=175261
* - Add hmmer 5.09 applicationPav Lucistnik2006-10-104-10/+38
| | | | Notes: svn path=/head/; revision=175196
* Chase pdf library and bump PORTREVISION.Alex Dupre2006-10-091-1/+2
| | | | Notes: svn path=/head/; revision=175052
* - Allow wxWidgets 2.6 alongside 2.4, this port works with bothPav Lucistnik2006-10-091-4/+3
| | | | | | | | PR: ports/102168 Approved by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=175040
* - Update to 0.98dCheng-Lung Sung2006-10-062-4/+4
| | | | | | | | | PR: ports/103408 Submitted by: chinsan Approved by: maintainer (timeout) Notes: svn path=/head/; revision=174628
* Add gmap 2006.04.21, a Genomic Mapping and Alignment Program for mRNACheng-Lung Sung2006-09-298-0/+105
| | | | | | | | | | and EST Sequences. PR: ports/103651 Submitted by: Bob Zimmermann <rpz at cse.wustl.edu> Notes: svn path=/head/; revision=174086
* Unbreak: molden has been updated on Aug 17, with the same DISTNAME.Thierry Thomas2006-09-174-23/+35
| | | | | | | Changelog at <http://www.cmbi.ru.nl/molden/HISTORY>. Notes: svn path=/head/; revision=173242
* Fix build on amd64Maho Nakata2006-09-172-4/+4
| | | | | | | Submitted by: kris Notes: svn path=/head/; revision=173233
* BROKEN on amd64 and ia64: Does not buildKris Kennaway2006-09-171-0/+4
| | | | Notes: svn path=/head/; revision=173183
* BROKEN: Size mismatch. Since this is unmaintained, deprecate and scheduleKris Kennaway2006-09-041-0/+4
| | | | | | | for termination on 2006-12-01 Notes: svn path=/head/; revision=172186
* NO_CDROM and NO_PACKAGE are not appropriate hereKris Kennaway2006-09-031-3/+1
| | | | Notes: svn path=/head/; revision=171967
* Schedule these broken ports for termination on 2006-12-01Kris Kennaway2006-09-022-0/+4
| | | | Notes: svn path=/head/; revision=171889
* Folding@Home is a distributed computing project -- people from through out thePav Lucistnik2006-08-285-0/+61
| | | | | | | | | | | | | | | | | world download and run software to band together to make one of the largest supercomputers in the world. Every computer makes the project closer to our goals. Folding@Home uses novel computational methods coupled to distributed computing, to simulate problems thousands to millions of times more challenging than previously achieved. WWW: http://folding.standford.edu PR: ports/101235 Submitted by: Yonatan <onatan@gmail.com> Notes: svn path=/head/; revision=171590
* - s,INSTALLS_SHLIB,USE_LDCONFIG,gCheng-Lung Sung2006-08-141-1/+1
| | | | | | | | | | - these include astro/ audio/ biology/ chinese/ maintained by ports@ PR: ports/101916 Submitted by: Gea-Suan Lin <gslin_AT_gslin dot org> Notes: svn path=/head/; revision=170572
* Mark as broken for i386 4.xEdwin Groothuis2006-08-101-1/+7
| | | | | | | | PR: ports/101789 Submitted by: Scott Flatman <sf@slappy.org> Notes: svn path=/head/; revision=170319
* Unmark BROKEN, it seems to be caused by a stale distfile on ftp-master.Erwin Lansing2006-08-031-2/+0
| | | | Notes: svn path=/head/; revision=169590
* Mark BROKEN: checksum mismatchErwin Lansing2006-08-031-0/+2
| | | | Notes: svn path=/head/; revision=169574
* Mark broken due to checksum mismatchErwin Lansing2006-08-031-0/+2
| | | | Notes: svn path=/head/; revision=169571
* - Update to 5.10Pav Lucistnik2006-07-172-8/+8
| | | | Notes: svn path=/head/; revision=168105
* - Fix pkg-plist [1]Rong-En Fan2006-07-102-12/+19
| | | | | | | | | - pet portlint(1) Noticed by: pointyhat via linimon [1] Notes: svn path=/head/; revision=167335
* - Update to 2.4.3Rong-En Fan2006-07-088-234/+147
| | | | | | | | | | | - Pass maintainersip to submitter PR: 99901 Submitted by: Scott Flatman <sf slappy.org> Approved by: delphij (mentor, implicit) Notes: svn path=/head/; revision=167176
* - Use the correct MASTER_SITE_SUBDIR, make it fetchableRong-En Fan2006-07-041-1/+1
| | | | | | | | | PR: 99757 Submitted by: Jin-Shan Tseng <tjs@cdpa.nsysu.edu.tw> Approved by: delphij (mentor, implicit) Notes: svn path=/head/; revision=166892
* Mark as BROKEN on sparc64 due to internal compiler error.Mark Linimon2006-07-031-1/+7
| | | | Notes: svn path=/head/; revision=166874
* Update to 1.10 (maintained by others) and unbreak.Maho Nakata2006-07-0311-268/+50
| | | | Notes: svn path=/head/; revision=166799
* o Update to 0.99rc1Maho Nakata2006-07-015-39/+203
| | | | | | | | | | | | o add data dir to have working port[1] PR: 95121[1] Submitted by: Sangwoo Shim <sangwoos at gmail.com>[1] This commit is a result of hacks at the CodeFest Akihabara 2006 hosted by FSIJ. Notes: svn path=/head/; revision=166687
* - Provide SSE optimized application as an optionPav Lucistnik2006-06-242-1/+12
| | | | Notes: svn path=/head/; revision=166241
* - Instruct amd64 users to libmap libpthread.so.2 to libc_r.so.6Pav Lucistnik2006-06-222-3/+15
| | | | Notes: svn path=/head/; revision=166045
* SIMAP (Similarity Matrix of Proteins) is a public database of pre-calculatedPav Lucistnik2006-06-197-0/+110
| | | | | | | | | | | | | | | protein similarities that plays a key role in many bioinformatics methods. It contains about all currently published protein sequences and is continuously updated. The computational effort for keeping SIMAP up-to-date is constantly increasing. Please help to update SIMAP by calculating protein similarities on your computer. WWW: http://boinc.bio.wzw.tum.de/boincsimap/ Notes: svn path=/head/; revision=165801
* Re-add CONFIGURE_TARGET and fix libm detection.Thierry Thomas2006-06-181-1/+5
| | | | | | | | PR: ports/99072 (fu2) Submitted by: Josh Tolbert <hemi (at) puresimplicity.net> (maintainer) Notes: svn path=/head/; revision=165707
* - Upgrade to to 1.9.9 and unbreak;Thierry Thomas2006-06-174-146/+134
| | | | | | | | | | - Take maintainership. PR: ports/99072 Submitted by: Josh Tolbert <hemi (at) puresimplicity.net> Notes: svn path=/head/; revision=165669
* USE_SIZE was obsoleted in rev. 1.484 of bsd.port.mk more thanErwin Lansing2006-06-111-1/+0
| | | | | | | | | 2 years ago. Clean out the last traces of it. With hat: portmgr Notes: svn path=/head/; revision=165111
* - Update PORTREVISION to match latest release (see main web site)Pav Lucistnik2006-06-113-8/+27
| | | | | | | | | | - Update the port to add other architectures (amd64) PR: ports/98764 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=165078
* - Update to 34.t25.d9Pav Lucistnik2006-06-092-5/+5
| | | | | | | | PR: ports/98761 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=164922
* Update biology/ncbi-toolkit to the latest release.Ion-Mihai Tetcu2006-06-063-5/+11
| | | | | | | | | | | | | | | Quoting from www.ncbi.nlm.nih.gov/blast/blast_whatsnew.shtml Major changes include: blastall now uses the new engine by default, resulting in significant performance improvements and enabling query concatenation for all program types. PR: ports/98570 Submitted by: maintainer Approved by: lawrance (mentor, implict) Notes: svn path=/head/; revision=164601
* - Add MASTER_SITEErwin Lansing2006-06-062-30/+31
| | | | | | | | | | | - Use DATADIR PR: 97603 Submitted by: miwi Approved by: maintainer timeout Notes: svn path=/head/; revision=164587
* - Update to 34.t25.d8 [1]Erwin Lansing2006-06-052-5/+5
| | | | | | | | | | | - While I'm here, pet portlint [2] PR: 98398 [1] Submitted by: miwi [1], self [2] Approved by: maintainer [1] Notes: svn path=/head/; revision=164525
* - update to 34.t25.d7Sergey Matveychuk2006-05-243-77/+7
| | | | | | | | | | - add MASTER_SITE_LOCAL as a second master site PR: ports/97310 Submitted by: maintainer Notes: svn path=/head/; revision=163293
* BROKEN: UnfetchableKris Kennaway2006-05-211-0/+2
| | | | Notes: svn path=/head/; revision=163002
* - Update to 3.15Sergey Matveychuk2006-05-202-4/+4
| | | | | | | | | PR: ports/96941 Submitted by: Paul Schmehl <pauls@utdallas.edu> Approved by: maintainer timeout Notes: svn path=/head/; revision=162900
* - Updated from 0.07 to 0.12Aaron Dalton2006-05-193-12/+25
| | | | | | | | | | | | | | | | | | | | | | | | | Approved by: tobez (implicit) 0.08 20/Feb/2006 15:14 Improved referential integrity between nodes, taxa, and data. Implemented Fastnexus parser Node object silently implements Bio::Tree::NodeI interface if BioPerl is installed Tree object silently implements Bio::Tree::TreeI interface if BioPerl is installed Added convertor methods for XML and CIPRES Implemented more Matrix methods Implemented symbol tables in Bio::Phylo::Util::CONSTANT Implemented visit method for listable objects Implemented caching infrastructure for calculations Changed object-model to inside-out arrays Added Biodiversity measures code by Aki Mimoto Moved constants and exceptions to Bio::Phylo::Util::* Fixed memory leak due to circular references Notes: svn path=/head/; revision=162834
* Adding port biology/p5-Bio-Phylo, Phylogenetic analysis using perl.Aaron Dalton2006-05-135-0/+110
| | | | | | | Approved by: tobez (implicit) Notes: svn path=/head/; revision=162248
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