aboutsummaryrefslogtreecommitdiff
path: root/biology
Commit message (Collapse)AuthorAgeFilesLines
* - Switch to build with lang/ruby19Thomas Abthorpe2013-10-101-1/+1
| | | | | | | | | - No PORTREVISION bump, option is off by default With hat: portmgr Notes: svn path=/head/; revision=330025
* Update BioCocoa to the latest release.David Chisnall2013-10-083-75/+68
| | | | | | | Approved by: bapt (mentor) Notes: svn path=/head/; revision=329819
* - Update to 0.5.1Wen Heping2013-10-043-4/+4
| | | | Notes: svn path=/head/; revision=329270
* - Update to 1.7Sunpoet Po-Chuan Hsieh2013-10-033-12/+12
| | | | | | | | | - Support STAGEDIR Changes: http://search.cpan.org/dist/Bio-GFF3/Changes Notes: svn path=/head/; revision=329204
* biology/avida: add <unistd.h>, <typoinfo> for modern compilersJohn Marino2013-10-012-0/+20
| | | | Notes: svn path=/head/; revision=329003
* - Remove NO_STAGE as these have been tested to be safeBryan Drewery2013-09-252-2/+0
| | | | | | | With hat: portmgr Notes: svn path=/head/; revision=328226
* Use value of BOINC_CLIENT_HOME in pkg-messageRene Ladan2013-09-242-2/+3
| | | | Notes: svn path=/head/; revision=328119
* - Add stagedir supportRene Ladan2013-09-231-12/+17
| | | | | | | - Rewrap lines Notes: svn path=/head/; revision=328069
* Respect 'make check-sanity' for this port too.Rene Ladan2013-09-231-2/+1
| | | | Notes: svn path=/head/; revision=328033
* Fix NO_STAGE attributionBaptiste Daroussin2013-09-221-1/+1
| | | | Notes: svn path=/head/; revision=327888
* Add NO_STAGE all over the place in preparation for the staging support (cat: ↵Baptiste Daroussin2013-09-2094-114/+117
| | | | | | | biology) Notes: svn path=/head/; revision=327709
* Mark BROKEN, fails checksumBryan Drewery2013-09-181-0/+2
| | | | | | | With hat: portmgr Notes: svn path=/head/; revision=327550
* Add an explicit dependency on pkgconfAntoine Brodin2013-09-081-1/+1
| | | | | | | Approved by: portmgr (bapt) Notes: svn path=/head/; revision=326710
* - Use single space after WWW:Sunpoet Po-Chuan Hsieh2013-09-071-1/+1
| | | | Notes: svn path=/head/; revision=326658
* - convert to the new perl5 frameworkAndrej Zverev2013-09-074-4/+7
| | | | | | | Approved by: portmgr (bapt@, blanket) Notes: svn path=/head/; revision=326575
* - Make ports use the libc provided iconv implementation on 10-CURRENTGuido Falsi2013-09-043-3/+5
| | | | | | | | | | | | | after r254273 - Fix a bunch of ports to properly work after this - Mark converters/libiconv as IGNORE for systems with iconv in libc Reviewed by: bapt Approved by: portmgr (bapt) Discussed with: bapt, bsam (who both contributed ideas and code) Notes: svn path=/head/; revision=326307
* - Add WWWSunpoet Po-Chuan Hsieh2013-08-291-2/+1
| | | | | | | | - Use single space after WWW: - Remove Author line Notes: svn path=/head/; revision=325610
* - Disconnect ports removed in r325546Bryan Drewery2013-08-291-1/+0
| | | | Notes: svn path=/head/; revision=325558
* Update to latest GNUstep core libraries.David Chisnall2013-08-288-412/+85
| | | | | | | | | | | | | | Update dependent packages with more recent releases. Remove old and bit-rotted ones. Switch to using clang 3.3 and libobjc2 1.7 by default, so modern Objective-C features work out of the box and remove a lot of configurable options for sub-optimal (and, often, unsupported / deprecated upstream) configurations. Take maintainership of GNUstep-related ports. Several of the ports left in have scary warnings which mean that they are likely broken in lots of cases. Future commits will fix them. Approved by: bapt Notes: svn path=/head/; revision=325546
* Make sure to respect CC and CXX, this fixes the build on head without gccBaptiste Daroussin2013-08-281-2/+2
| | | | Notes: svn path=/head/; revision=325508
* Update math/gsl to 1.16 and adjust some dependent portsBrendan Fabeny2013-08-261-2/+2
| | | | Notes: svn path=/head/; revision=325401
* - Update to 2.3.5Wen Heping2013-08-204-442/+9
| | | | | | | | | - Add LICENSE - Remove pkg-message since license changed upstream - Do not install test files as example Notes: svn path=/head/; revision=325050
* biology/tinker: Regenerate distinfo to unbreak fetchJohn Marino2013-08-182-2/+3
| | | | | | | | | | | | Apparently the distfile was rerolled. The sizes of the file are only a few bytes apart. Since the master site never changed, it's reasonable just to regenerate the distinfo and bump the PORTREVISION. PR: 180664 Approved by: bapt/culot (mentors, implicit) Notes: svn path=/head/; revision=324901
* Replace USE_GCC=4.6+ and USE_GCC=4.4+ by USE_GCC=yes.Gerald Pfeifer2013-08-171-1/+1
| | | | | | | | | | | | | | | | | Right now this is a noop in the former case and a noop in the latter case unless lang/gcc44 has been installed explicitly. This puts a bit more emphasis on standardizing on a canonical version "current" GCC and makes it easier to update that canonical version by changing the default in Mk/bsd.gcc.mk and updating the lang/gcc port. That is, USE_GCC=yes means "use a decent/modern version of GCC" without having to worry about details. Approved by: portmgr (bdrewery) Notes: svn path=/head/; revision=324851
* - Remove MAKE_JOBS_SAFE variableAlex Kozlov2013-08-1410-10/+0
| | | | | | | Approved by: portmgr (bdrewery) Notes: svn path=/head/; revision=324744
* biology/libgenome: Mark jobs unsafeJohn Marino2013-08-141-0/+2
| | | | | | | Approved by: bapt/culot (mentors, implicit) Notes: svn path=/head/; revision=324692
* - update libdg to 2.1.0Dirk Meyer2013-08-092-5/+5
| | | | Notes: svn path=/head/; revision=324437
* - Pet portlint: remove blank line among *_DEPENDSSunpoet Po-Chuan Hsieh2013-08-061-1/+0
| | | | Notes: svn path=/head/; revision=324315
* - Convert to new perl frameworkAndrej Zverev2013-08-062-2/+4
| | | | | | | | | - Trim Makefile header Approved by: wen@ (maintainer) Notes: svn path=/head/; revision=324306
* - Convert to new perl frameworkMathieu Arnold2013-08-032-2/+2
| | | | | | | - Remove MAKE_JOBS_SAFE=yes, it's the default. Notes: svn path=/head/; revision=324191
* - Convert to new perl frameworkAndrej Zverev2013-08-032-2/+2
| | | | | | | - Trim Makefile header Notes: svn path=/head/; revision=324181
* - Convert to new perl frameworkMathieu Arnold2013-08-028-24/+19
| | | | | | | | - Trim Makefile header - Remove MAKE_JOBS_SAFE=yes, it's the default. Notes: svn path=/head/; revision=324174
* - Update to 1.6Philippe Audeoud2013-08-012-4/+5
| | | | | | | | - Convert to new perl5 framework - Changelog: http://cpansearch.perl.org/src/RBUELS/Bio-GFF3-1.6/Changes Notes: svn path=/head/; revision=324103
* KDE3 and QT3 expired on 2013-07-01, remove these ports.Rene Ladan2013-07-266-187/+0
| | | | | | | | | | | | | | | | | | | Unfortunately, this also affects some ports using QT3 as a GUI toolkit. Changes to infrastructure files: - bsd.kde.mk : obsolete, remove - bsd.qt.mk : note that a CONFLICTS_BUILD line can probably go after a while - CHANGES : document the removals from bsd.port.mk - KNOBS : remove KDE and QT (KDE4 and QT4 should be used instead) - MOVED : add the removed ports PR: ports/180745 Submitted by: rene Approved by: portmgr (bapt) Exp-run by: bapt Notes: svn path=/head/; revision=323748
* - Update to 3.0Wen Heping2013-07-203-32/+46
| | | | | | | | - Convert to optionsNG - Drop maintainership Notes: svn path=/head/; revision=323349
* - Update to 0.56Wen Heping2013-07-203-3/+13
| | | | Notes: svn path=/head/; revision=323340
* - Update to 2.37Wen Heping2013-07-203-3/+7
| | | | | | | Changes: http://cpansearch.perl.org/src/LDS/Bio-Graphics-2.37/Changes Notes: svn path=/head/; revision=323339
* - Update to 36.3.6Wen Heping2013-07-195-23/+30
| | | | | | | - Drop maintainership Notes: svn path=/head/; revision=323293
* - Update to 6.2.06Martin Wilke2013-07-154-13/+23
| | | | | | | | PR: 180518 Submitted by: Ports Fury Notes: svn path=/head/; revision=323046
* - Update to 4.4.2Martin Wilke2013-07-152-3/+3
| | | | | | | | PR: 180515 Submitted by: Ports Fury Notes: svn path=/head/; revision=323044
* - Update to 7.31.0Sunpoet Po-Chuan Hsieh2013-07-111-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | - Bump PORTREVISION for ftp/curl shlib change - Add TEST_DEPENDS - Convert to new options framework - Adjust options: - Add COOKIES - Add CYASSL, NSS, POLARSSL, THREADED_RESOLVER, TLS_SRP [1] - Add GSSAPI and SPNEGO [2] - Remove KERBEROS4 - Rename LIBIDN to IDN - Remove TRACKMEMORY [1] - Sort option handler - Add SLAVEDIRS: ftp/curl-hiphop - Cosmetic change - Cleanup Makefile header - While I'm here, fix typo (PORTREVSION) in x11-wm/ede/Makefile Changes: http://curl.haxx.se/changes.html PR: ports/172325 (-exp run), ports/177369 (based on) [1] Submitted by: Hirohisa Yamaguchi <umq@ueo.co.jp> [1], hrs (via email) [2] Exp run by: miwi Notes: svn path=/head/; revision=322783
* Convert from USE_MOTIF to USES=motifBaptiste Daroussin2013-07-101-6/+2
| | | | Notes: svn path=/head/; revision=322624
* Convert from USE_MOTIF to USES=motifBaptiste Daroussin2013-07-093-7/+4
| | | | | | | | | | While here: - trim headers - Remove indefinite article from comment - convert USE_GMAKE to USES=gmake Notes: svn path=/head/; revision=322587
* Fix some PORT_OPTIONS conversionsAntoine Brodin2013-06-301-1/+1
| | | | Notes: svn path=/head/; revision=322100
* Convert to USES=imakeBaptiste Daroussin2013-06-281-10/+4
| | | | | | | Trim headers Notes: svn path=/head/; revision=321974
* Fix some screw ups introduced in r319847.Raphael Kubo da Costa2013-06-242-4/+4
| | | | | | | | | | | | | I'm not sure if the submitter of ports/179224 didn't even test his patch or if the distfile was re-rolled in a bizarre way. Anyway, fix distfile and also cd into the correct directories to actually build the port. PR: ports/179790 Notes: svn path=/head/; revision=321697
* Remove stale (since r321246) pkg-plist file.Boris Samorodov2013-06-191-39/+0
| | | | Notes: svn path=/head/; revision=321327
* . introdice optionsNG to the port;Boris Samorodov2013-06-192-98/+26
| | | | | | | | | | | | | | . remove shlib ABI version from LIB_DEPENDS; . introduce EXAMPLE option (do not install examples to DOCSDIR); . bump PORTREVISION; . get use of PLIST_FILES, PORTDOCS and PORTEXAMPLES at Makefile; . get rid of pkg-plist; . trim Makefile heades; . remove acticle from COMMENT; . simplify install commands. Notes: svn path=/head/; revision=321317
* . NOPORTDOCS -> PORT_OPTIONS:MDOCS;Boris Samorodov2013-06-192-18/+14
| | | | | | | | | | | . introduce EXAMPLES option (do not install examples to DOCSDIR); . bump PORTREVISION; . make use of PLIST_FILES, PORTDOCS and PORTEXAMPLES at Makefile; . get rid of pkg-plist; . simpify install commands. Notes: svn path=/head/; revision=321316
* . NOPORTDOCS -> PORT_OPTIONS:MDOCS;Boris Samorodov2013-06-192-42/+17
| | | | | | | | | | | | | | . mute mdir commands and unmute install commands; . do not use mkdir for parent directories (mkdir implies "-p"); . introduce EXAMPLE option (do not install examples to DOCSDIR); . bump PORTREVISION; . make use of PLIST_FILES, PORTDOCS and PORTEXAMPLES at Makefile; . get rid of pkg-plist; . use standard DOCSDIR and EXAMPLESDIR (instead of a PREFIX/foo/bar path); . trim Makefile headers. Notes: svn path=/head/; revision=321315