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* - Update download locations, update WWWPhilip M. Gollucci2009-02-042-3/+2
| | | | | | | Reported by: -fetch-original pointyhat run Notes: svn path=/head/; revision=227587
* Reset dyeske@gmail.com at his request.Mark Linimon2009-02-024-8/+2
| | | | | | | Hat: portmgr Notes: svn path=/head/; revision=227472
* - Update download locations, update WWWPhilip M. Gollucci2009-02-012-2/+2
| | | | | | | Reported by: -fetch-original pointyhat run Notes: svn path=/head/; revision=227349
* - Update download locationPav Lucistnik2009-01-311-2/+2
| | | | Notes: svn path=/head/; revision=227305
* - Update X.org ports to 7.4+ (few ports are more recent than the katamari).Florent Thoumie2009-01-234-5/+6
| | | | | | | | | | | - Bump PORTREVISION for all ports depending on libglut since the shlib version number went from 4 to 3. - Bump PORTREVISION for all ports depending on libXaw as libXaw.so.8 isn't installed anymore. - Couple of ports fixes (mostly missing xorg components added to USE_XORG). Notes: svn path=/head/; revision=226727
* - add LICENSE:Dirk Meyer2009-01-162-0/+4
| | | | Notes: svn path=/head/; revision=226267
* - Unbreak after p5-bioperl changed portrevisionPav Lucistnik2009-01-151-1/+1
| | | | Notes: svn path=/head/; revision=226209
* - Update to 3.0.3Martin Wilke2009-01-146-57/+122
| | | | | | | | PR: 130459 Submitted by: KATO Tsuguru <tkato432@yahoo.com> Notes: svn path=/head/; revision=226100
* Fix plist with perl 5.8.9.Anton Berezin2009-01-141-1/+2
| | | | | | | Approved by: portmgr (pav, implicit) Notes: svn path=/head/; revision=226081
* - Chase math/gsl slib bumpMartin Wilke2009-01-131-2/+2
| | | | | | | Reported by: pavbot Notes: svn path=/head/; revision=225963
* - Unbreak distinfo after portrevision bumpPav Lucistnik2009-01-092-4/+3
| | | | | | | Reported by: pointyhat Notes: svn path=/head/; revision=225602
* Bump PORTREVISION due to change of USE_FORTRAN=yes to GCC 4.3.Gerald Pfeifer2009-01-075-4/+5
| | | | Notes: svn path=/head/; revision=225403
* - Remove conditional checks relevant only on FreeBSD 5.x and olderPav Lucistnik2009-01-056-31/+1
| | | | Notes: svn path=/head/; revision=225288
* - Update to 4.2Martin Wilke2008-12-252-4/+4
| | | | | | | | PR: 129895 Submitted by: Wen Heping <wenheping@gmail.com> (maintainer) Notes: svn path=/head/; revision=224766
* Update to 1.92Philip M. Gollucci2008-12-242-4/+4
| | | | | | | | | Changes http://search.cpan.org/src/LDS/AcePerl-1.92/ChangeLog Approved by: gabor (mentor) Notes: svn path=/head/; revision=224672
* - Mark as brokenWesley Shields2008-12-161-0/+2
| | | | | | | | PR: ports/129597 Submitted by: Mauricio Herrera Cuadra <mauricio@arareko.net> (maintainer) Notes: svn path=/head/; revision=224307
* - update to 1.10Yen-Ming Lee2008-12-113-14/+21
| | | | Notes: svn path=/head/; revision=224091
* Reset nemoliu due to maintainer-timeouts and no response to email.Mark Linimon2008-12-081-1/+1
| | | | | | | Hat: portmgr Notes: svn path=/head/; revision=223984
* - Roll back to 4.6 as 4.7 is the development version and is constantly beingWesley Shields2008-11-115-110/+117
| | | | | | | | | | | re-rolled. - Move post-patch target into files/patch-xwin.c to remove sed invocation. - Respect NOPORTDATA and DATADIR. - Bring files/patch-aa back (to preserve history) and retire patch-makefile. - Fixup files/patch-xwin.c so it applies cleanly to this version. Notes: svn path=/head/; revision=222711
* Mark as broken since it has been re-rolled for the 4th(?) time.Wesley Shields2008-11-071-0/+2
| | | | Notes: svn path=/head/; revision=222520
* Distfile was re-rolled. The changes were to fix some bugs in the code.Wesley Shields2008-11-073-10/+13
| | | | | | | While I'm here, make it respect NOPORTDOCS. Notes: svn path=/head/; revision=222479
* Update to 4.7Wesley Shields2008-11-048-140/+309
| | | | | | | | PR: ports/128476 Submitted by: fulvio ciriaco <oivulf@gmail.com> Notes: svn path=/head/; revision=222400
* - Update to 2.8.1Dmitry Marakasov2008-10-234-150/+40
| | | | | | | | PR: 128057 Submitted by: Christian Sturm <athaba at inode dot at> Notes: svn path=/head/; revision=221933
* - UnbreakRong-En Fan2008-10-213-7/+42
| | | | | | | | PR: ports/128193 Submitted by: Mauricio Herrera Cuadra <mauricio at arareko.net> (maintainer) Notes: svn path=/head/; revision=221872
* - Update to 1.48Martin Wilke2008-10-113-19/+16
| | | | | | | | | PR: 127776 Submitted by: Wen heping <wenheping@gmail.com> Approved by: maintainer Notes: svn path=/head/; revision=221438
* - Update to 4.1Martin Wilke2008-09-303-8/+13
| | | | | | | | | | - Pass maintainership to submitter PR: 127683 Submitted by: Wen heping <wenheping@gmail.com> Notes: svn path=/head/; revision=221025
* - Respect PORTDOCS/PORTEXAMPLESPietro Cerutti2008-09-092-188/+186
| | | | | | | | Reported by: QA Tindie Approved by: portmgr Notes: svn path=/head/; revision=220308
* Reset sf@slappy.org due to maintainer-timeouts and no response to email.Mark Linimon2008-09-031-1/+1
| | | | | | | Hat: portmgr Notes: svn path=/head/; revision=219711
* - Fix buildPietro Cerutti2008-08-271-2/+2
| | | | | | | Reported by: QA Tindie Notes: svn path=/head/; revision=219325
* - Update to 3.68Pietro Cerutti2008-08-272-6/+5
| | | | Notes: svn path=/head/; revision=219315
* Add -lf2c, this is the correct dependency. Bump portrevision.Maho Nakata2008-08-222-0/+9
| | | | Notes: svn path=/head/; revision=219017
* Update CONFIGURE_ARGS for how we pass CONFIGURE_TARGET to configure script.Rong-En Fan2008-08-214-5/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Specifically, newer autoconf (> 2.13) has different semantic of the configure target. In short, one should use --build=CONFIGURE_TARGET instead of CONFIGURE_TARGET directly. Otherwise, you will get a warning and the old semantic may be removed in later autoconf releases. To workaround this issue, many ports hack the CONFIGURE_TARGET variable so that it contains the ``--build='' prefix. To solve this issue, under the fact that some ports still have configure script generated by the old autoconf, we use runtime detection in the do-configure target so that the proper argument can be used. Changes to Mk/*: - Add runtime detection magic in bsd.port.mk - Remove CONFIGURE_TARGET hack in various bsd.*.mk - USE_GNOME=gnometarget is now an no-op Changes to individual ports, other than removing the CONFIGURE_TARGET hack: = pkg-plist changed (due to the ugly CONFIGURE_TARGET prefix in * executables) - comms/gnuradio - science/abinit - science/elmer-fem - science/elmer-matc - science/elmer-meshgen2d - science/elmerfront - science/elmerpost = use x86_64 as ARCH - devel/g-wrap = other changes - print/magicfilter GNU_CONFIGURE -> HAS_CONFIGURE since it's not generated by autoconf Total # of ports modified: 1,027 Total # of ports affected: ~7,000 (set GNU_CONFIGURE to yes) PR: 126524 (obsoletes 52917) Submitted by: rafan Tested on: two pointyhat 7-amd64 exp runs (by pav) Approved by: portmgr (pav) Notes: svn path=/head/; revision=218938
* Unbreak building for 8-x.Boris Samorodov2008-08-152-4/+114
| | | | | | | Submitted by: Steve Kargl <sgk at troutmask.apl.washington.edu> at ports@ ML Notes: svn path=/head/; revision=218644
* - update PORTSCOUTDirk Meyer2008-08-121-1/+3
| | | | Notes: svn path=/head/; revision=218469
* - Update to 1.47Martin Wilke2008-08-113-53/+92
| | | | | | | | | PR: 125912 Submitted by: Wen heping <wenheping@gmail.com> Approved by: maintainer timeout Notes: svn path=/head/; revision=218425
* - Update to 2.1.3Philip M. Gollucci2008-07-313-4/+5
| | | | | | | Approved by: gabor (mentor) Notes: svn path=/head/; revision=217884
* - Remove USE_GCC where it can be satisfied with base compiler on followingPav Lucistnik2008-07-252-2/+0
| | | | | | | FreeBSD versions: 5.3 and up, 6.x, 7.x, 8-CURRENT Notes: svn path=/head/; revision=217485
* - Remove duplicates from MAKE_ENV after inclusion of CC and CXX in default ↵Pav Lucistnik2008-07-253-3/+5
| | | | | | | MAKE_ENV Notes: svn path=/head/; revision=217468
* - Delete biology/nab port after being marked DEPRECATED for three monthsPav Lucistnik2008-07-2415-1093/+0
| | | | | | | | PR: ports/125891 Submitted by: M. L. Dodson <mldodson@comcast.net> (maintainer) Notes: svn path=/head/; revision=217415
* Update my ports to my freebsd addressPhilip M. Gollucci2008-07-232-2/+2
| | | | | | | Approved by: araujo (mentor) Notes: svn path=/head/; revision=217338
* - respect NOPORTEXAMPLES/NOPORTDOCS and fix plistIon-Mihai Tetcu2008-07-122-14/+15
| | | | | | | | | - bump PORTREVISION Prompted by: QA Tindy run Notes: svn path=/head/; revision=216729
* - Update to 2.1.2c.Marcelo Araujo2008-07-112-5/+5
| | | | | | | | | | - Pass maintainership to submitter. PR: ports/125497 Submitted by: Philip M. Gollucci <pgollucci@p6m7g8.com> Notes: svn path=/head/; revision=216706
* - extened PORTSCOUTDirk Meyer2008-07-081-1/+1
| | | | Notes: svn path=/head/; revision=216541
* - Mark BROKEN: missing cpan dependency (interactive loop)Pav Lucistnik2008-07-071-0/+2
| | | | Notes: svn path=/head/; revision=216502
* - Bump portrevision after openbabel updateBeech Rintoul2008-07-071-1/+1
| | | | Notes: svn path=/head/; revision=216430
* - Update to 1.5.2.Felippe de Meirelles Motta2008-07-064-1355/+1063
| | | | | | | | | | PR: ports/124648 Submitted by: Mauricio Herrera Cuadra <mauricio@arareko.net> (maintainer) Reviewed by: lippe Approved by: gabor (mentor, implicit) Notes: svn path=/head/; revision=216421
* - Update to 1.45Beech Rintoul2008-07-043-26/+79
| | | | | | | | | PR: ports/125134 Submitted by: Wen heping <wenheping@gmail.com> Approved by: Mauricio Herrera Cuadra <mauricio@arareko.net> (maintainer) Notes: svn path=/head/; revision=216283
* - extend PORTSCOUTDirk Meyer2008-06-241-1/+1
| | | | Notes: svn path=/head/; revision=215701
* - Fix plist files installation.Felippe de Meirelles Motta2008-06-211-1/+2
| | | | | | | | | | - Bump PORTREVISION. Reported by: QA Tindy Approved by: gabor (mentor, implicit) Notes: svn path=/head/; revision=215432
* SSAHA is a software tool for very fast matching and alignment of DNAFelippe de Meirelles Motta2008-06-2136-0/+1362
| | | | | | | | | | | | | | | | sequences. It stands for Sequence Search and Alignment by Hashing Algorithm. It achieves its fast search speed by converting sequence information into a `hash table' data structure, which can then be searched very rapidly for matches. WWW: http://www.sanger.ac.uk/Software/analysis/SSAHA/ PR: ports/124525 Submitted by: Fernan Aguero <fernan@iib.unsam.edu.ar> Approved by: gabor (mentor, implicit) Notes: svn path=/head/; revision=215429