aboutsummaryrefslogtreecommitdiff
path: root/biology
Commit message (Collapse)AuthorAgeFilesLines
* SHA256ify (manually done and checked)Edwin Groothuis2006-01-222-1/+5
| | | | | | | Approved by: krion@ Notes: svn path=/head/; revision=154147
* SHA256ifyEdwin Groothuis2006-01-2230-0/+41
| | | | | | | Approved by: krion@ Notes: svn path=/head/; revision=154141
* Replace ugly "@unexec rmdir %D... 2>/dev/null || true" with @dirrmtryEdwin Groothuis2006-01-224-12/+12
| | | | | | | | Approved by: krion@ PR: ports/88711 (related) Notes: svn path=/head/; revision=154109
* Replace ugly "@unexec rmdir %D... 2>/dev/null || true" with @dirrmtryEdwin Groothuis2006-01-221-1/+1
| | | | Notes: svn path=/head/; revision=154104
* Utilize EXAMPLESDIR.Alexey Dokuchaev2006-01-201-3/+3
| | | | Notes: svn path=/head/; revision=153969
* - Resurrect, update to version 1.5 (literally 1.50 since I wanted to avoidAlexey Dokuchaev2006-01-195-0/+57
| | | | | | | | | | | | | | unnecessary PORTEPOCH bump) - Update MASTER_SITES and WWW line, provide backup download site - Come up with better port description - Reset maintainer to ports@ - Uphold CXX and CXXFLAGS - Clean up Makefile slightly - Don't install yet another copy of GPL and texts in French - Add SHA256 hash to distinfo Notes: svn path=/head/; revision=153895
* - Remove expired portsPav Lucistnik2006-01-1417-462/+0
| | | | Notes: svn path=/head/; revision=153501
* - Update to 2.0.20060101Pav Lucistnik2006-01-142-2/+4
| | | | | | | | PR: ports/91715 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=153495
* - Update to 2005.12.06Pav Lucistnik2006-01-144-44/+60
| | | | | | | | PR: ports/91714 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=153494
* - Chase openbabel updatePav Lucistnik2006-01-141-3/+2
| | | | Notes: svn path=/head/; revision=153451
* BROKEN: Broken dependencyKris Kennaway2006-01-141-0/+2
| | | | Notes: svn path=/head/; revision=153439
* - Update graphics/libglut to 6.4.1.Sergey Matveychuk2006-01-123-4/+7
| | | | | | | | | | | | | | - Shared lib version and PORTREVISION bumb for all affected ports. While I'm here: - Remove USE_MESA knob where it was (35 ports). It marked as depricated for 2 years. PR: ports/90247 Submitted by: Ermal Lu?i <eri--@albabsd.org> Notes: svn path=/head/; revision=153347
* Fix maintainer addressEdwin Groothuis2006-01-096-6/+6
| | | | | | | | | | | | | | | | | | | | | | | | From: Tony Maher <anthony.maher@uts.edu.au> To: Edwin Groothuis <edwin@FreeBSD.org> Subject: Re: ports/91537: maths/xgobi - download site moved/maintainer addressupdate Actually I need modify all my ports to use OptusNet rather than Biolateral. Is there an easy way to do this or should I submit a separate 1-line patch and PR for each port? biology/crimap biology/dna-qc biology/flip biology/primer3 biology/seqio biology/wise math/xgobi net/generic-nqs Submitted by: Tony Maher <anthony.maher@uts.edu.au> Notes: svn path=/head/; revision=153111
* Hash with SHA-256.Trevor Johnson2006-01-071-0/+1
| | | | Notes: svn path=/head/; revision=153010
* - Remove symlinks that belong to mtreePav Lucistnik2006-01-051-2/+0
| | | | | | | Approved by: maintainers Notes: svn path=/head/; revision=152842
* possible fix to unbreak biology/L-BreederEdwin Groothuis2006-01-029-107/+60
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | L-Breeder is currently marked unfetchable: http://people.freebsd.org/~fenner/portsurvey/biology.html#L-Breeder So I tried to investigate the problem and I'm now submitting my homework so it doesn't get lost. This is what I noticed: i) L-Breeder upstream sources have "stagnated for some time, but now a new simplified version is available" (sic, from the web site) So, the fetch issue is resolved. And the pkg-descr is also updated to reflect the new home page. However: ii) L-Breeder is now called LBreeder. I have changed PORTNAME to reflect this, although I don't know if this is the right thing to do. Should the port be moved to biology/LBreeder? Or perhaps just leaving PORTNAME pointing to the old name and then work inside the Makefile to point the build/install to the correct name? iii) the sources have been reorganized so I have to update the port's Makefile to reflect this. The attached patch works for me under FreeBSD-4.11 (although it's possible that I may have missed a dependency if I already have a required library installed in my box. Sorry, I don't have a tinderbox-like setup to test builds) iv) the program does not have a version number, nor did I find one by looking inside the sources. To avoid changing too much the port I just left PORTVERSION at 1.0 and bumped PORTREVISION to 6 Finally, do note that I am not a user of LBreeder, so I cannot test the program myself. I just noticed that by calling the executable I get a black X screen, that I can quit by pressing 'q' as documented in Readme.txt, but I can't tell myself if this is the expected behaviour. Nor do I know how to use the example files. Caveat emptor. PR: ports/90073 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> Approved by: maintainer timeout Notes: svn path=/head/; revision=152608
* - New upstream version; two patches incorporated.Tim Bishop2005-12-105-39/+9
| | | | | | | | | PR: 90140 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Approved by: clement (mentor) Notes: svn path=/head/; revision=150790
* Update to 1.3.1Emanuel Haupt2005-12-062-3/+3
| | | | | | | | PR: 90029 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Notes: svn path=/head/; revision=150559
* - Update to 2005.13.07 to make fetchable againTim Bishop2005-12-063-6/+31
| | | | | | | | | PR: 89976 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Approved by: clement (mentor) Notes: svn path=/head/; revision=150531
* - Update to 3.18 to make fetchable againTim Bishop2005-12-062-6/+11
| | | | | | | | | | | - Mark broken on 6.x upwards PR: 89977 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Approved by: clement (mentor) Notes: svn path=/head/; revision=150530
* Update to 0.5.1Marcus Alves Grando2005-12-063-23/+6
| | | | | | | | | | | Unbroken >= 502126 Add SHA256 PR: 89980 Submitted by: maintainer Notes: svn path=/head/; revision=150501
* - Fix fetch problemsTim Bishop2005-12-052-3/+5
| | | | | | | | | PR: 89971 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> (maintainer) Approved by: clement (mentor) Notes: svn path=/head/; revision=150478
* Add conflicts:Edwin Groothuis2005-12-041-1/+1
| | | | | | | | | CONFLICTS= p5-bioperl-1.[02468]* Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar>, Mauricio Herrera Cuadra <arareko@yahoo.com> Notes: svn path=/head/; revision=150422
* Add conflicst:Edwin Groothuis2005-12-041-0/+2
| | | | | | | | | CONFLICTS= p5-bioperl-1.[13579]* Submitted by: Mauricio Herrera Cuadra <arareko@yahoo.com>,Fernan Aguero <fernan@iib.unsam.edu.ar> Notes: svn path=/head/; revision=150421
* Fix port: biology/p5-bioperl-develEdwin Groothuis2005-12-041-0/+2
| | | | | | | | | | | | This patch adds a LATEST_LINK line in the Makefile to avoid duplication with the 'p5-bioperl' port in the packages/Latest directory. PR: ports/89916 Submitted by: Mauricio Herrera Cuadra <mauricio@arareko.net> Notes: svn path=/head/; revision=150343
* - Re-add p5-bioperl-devel, development version of biology/p5-bioperlSimon Barner2005-12-026-0/+2586
| | | | | | | | | | (A collection of Perl modules for bioinformatics) PR: ports/89497 Submitted by: Mauricio Herrera Cuadra <arareko@yahoo.com> Notes: svn path=/head/; revision=150267
* - Unbreak by updating to 4.4Simon Barner2005-12-014-25/+22
| | | | | | | | | | - Add dependecy to MESA PR: ports/89795 Submitted by: Johan van Selst <johans@stack.nl> Notes: svn path=/head/; revision=150137
* Add the right MASTER_SITE_SUBDIR, so that this port is fetchable fromBill Fenner2005-11-261-0/+1
| | | | | | | 20 sites instead of just 1. Notes: svn path=/head/; revision=149534
* - Add SHA256Pav Lucistnik2005-11-2416-0/+16
| | | | Notes: svn path=/head/; revision=149228
* - Drop old povchem.c checksumPav Lucistnik2005-11-241-1/+4
| | | | | | | - Add SHA256, SIZE Notes: svn path=/head/; revision=149227
* - BROKEN: Size mismatchPav Lucistnik2005-11-231-0/+2
| | | | Notes: svn path=/head/; revision=149226
* BROKEN: Size mismatchKris Kennaway2005-11-161-0/+2
| | | | Notes: svn path=/head/; revision=148425
* Mass-conversion to the USE_AUTOTOOLS New World Order. The code presentAde Lovett2005-11-152-2/+2
| | | | | | | | | | | | | | | | | | | | in bsd.autotools.mk essentially makes this a no-op given that all the old variables set a USE_AUTOTOOLS_COMPAT variable, which is parsed in exactly the same way as USE_AUTOTOOLS itself. Moreover, USE_AUTOTOOLS has already been extensively tested by the GNOME team -- all GNOME 2.12.x ports use it. Preliminary documentation can be found at: http://people.FreeBSD.org/~ade/autotools.txt which is in the process of being SGMLized before introduction into the Porters Handbook. Light blue touch-paper. Run. Notes: svn path=/head/; revision=148323
* - Mark it as DEPRECATED - master site disapearedRenato Botelho2005-11-111-0/+3
| | | | | | | | | | | - Set EXPIRATION_DATE PR: ports/88003 Submitted by: Jean Milanez Melo <jmelo@freebsdbrasil.com.br> Approved by: maintainer timeout (17 days) Notes: svn path=/head/; revision=147932
* - Mark it as DEPRECATED - master site disapearedRenato Botelho2005-11-111-0/+3
| | | | | | | | | | | - Set EXPIRATION_DATE PR: ports/88002 Submitted by: Jean Milanez Melo <jmelo@freebsdbrasil.com.br> Approved by: maintainer timeout (17 days) Notes: svn path=/head/; revision=147931
* - Mark it as DEPRECATED (mastersite disapeared)Renato Botelho2005-11-111-0/+3
| | | | | | | | | | | - Set EXPIRATION_DATE PR: ports/88000 Submitted by: Jean Milanez Melo <jmelo@freebsdbrasil.com.br> Approved by: maintainer timeout (16 days) Notes: svn path=/head/; revision=147930
* With portmgr hat on, reset maintainership of knu's ports since he hasMark Linimon2005-11-111-1/+1
| | | | | | | been inactive more than 6 months. We hope to see him back sometime. Notes: svn path=/head/; revision=147872
* Update to 1.41Marcus Alves Grando2005-11-115-44/+87
| | | | | | | | | | | Take MAINTAINER Add SHA256 PR: 88792 Submitted by: Mauricio Herrera Cuadra <mauricio@arareko.net> Notes: svn path=/head/; revision=147871
* Update to 3.14bMarcus Alves Grando2005-11-102-9/+11
| | | | | | | | | | | | | Update MASTER_SITES Add SHA256 Remove extra TABS PR: 88007 Submitted by: Jean Milanez Melo <jmelo@freebsdbrasil.com.br> Approved by: maintainer timeout, 14 days Notes: svn path=/head/; revision=147771
* Remove expired portsKris Kennaway2005-11-057-110/+0
| | | | Notes: svn path=/head/; revision=147349
* Bump PORTREVISION to chase the glib20 shared library update.Joe Marcus Clarke2005-11-054-3/+4
| | | | Notes: svn path=/head/; revision=147269
* Mark DEPRECATED since upstream is unmaintained and mastersite is gone.Sam Lawrance2005-10-291-0/+3
| | | | | | | | | PR: ports/88004 Submitted by: Jean Milanez Melo <jmelo@freebsdbrasil.com.br> Approved by: Tony Maher <anthony.maher@uts.edu.au> (maintainer) Notes: svn path=/head/; revision=146663
* BROKEN: UnfetchableKris Kennaway2005-10-281-0/+2
| | | | Notes: svn path=/head/; revision=146542
* Add p5-Bio-ASN1-EntrezGene, a Regular expression-based Perl Parser forEmanuel Haupt2005-10-155-0/+61
| | | | | | | | | | | NCBI Entrez Gene. PR: 87423 Submitted by: Mauricio Herrera Cuadra <mauricio@arareko.net> Approved by: novel (mentor) (implicit) Notes: svn path=/head/; revision=145476
* - Update to 20050605Sergey Matveychuk2005-10-115-20/+36
| | | | | | | | PR: ports/87266 Submitted by: maintainer Notes: svn path=/head/; revision=145033
* - Update to 3.13. It fixes fetching.Sergey Matveychuk2005-10-114-167/+61
| | | | | | | | PR: ports/87264 Submitted by: maintainer Notes: svn path=/head/; revision=145000
* Update to 0.9.8Maho Nakata2005-10-103-318/+363
| | | | Notes: svn path=/head/; revision=144778
* Checking MACHINE_ARCH is deprecated.Trevor Johnson2005-09-231-1/+1
| | | | Notes: svn path=/head/; revision=143440
* Update to version 7Herve Quiroz2005-09-203-47/+160
| | | | | | | | | PR: 86196 Submitted by: Tony Maher <anthony.maher@uts.edu.au> Approved by: maintainer Notes: svn path=/head/; revision=143213
* Don't strip static libraries on installation ;)Volker Stolz2005-09-141-1/+2
| | | | | | | (Unbreaks e.g. biology/nclever) Notes: svn path=/head/; revision=142695
generated by cgit v1.2.3 (git 2.25.1) at 2024-11-17 09:44:17 +0000