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* biology/hyphy: Update to 2.5.30Joseph Mingrone2021-04-082-4/+4
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* One more small cleanup, forgotten yesterday.Mathieu Arnold2021-04-071-1/+0
| | | | Reported by: lwhsu
* Remove # $FreeBSD$ from Makefiles.Mathieu Arnold2021-04-061-1/+0
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* biology/hyphy: Update to 2.5.29Joseph Mingrone2021-02-252-4/+4
| | | | | | | https://github.com/veg/hyphy/releases/tag/2.5.29 Notes: svn path=/head/; revision=566516
* biology/hyphy: Update to 2.5.28Joseph Mingrone2021-02-233-4/+5
| | | | | | | https://github.com/veg/hyphy/releases/tag/2.5.28 Notes: svn path=/head/; revision=566423
* biology/hyphy: Update to version 2.5.27Joseph Mingrone2021-01-272-4/+4
| | | | | | | https://github.com/veg/hyphy/releases/tag/2.5.27 Notes: svn path=/head/; revision=563045
* biology/hyphy: Update to version 2.5.26Joseph Mingrone2021-01-152-5/+4
| | | | | | | https://github.com/veg/hyphy/releases/tag/2.5.26 Notes: svn path=/head/; revision=561665
* biology/hyphy: Remove USES=compiler:openmpJoseph Mingrone2021-01-111-1/+2
| | | | | | | | | | USES=compiler:openmp still forces building with GCC. This is no longer necessary on tier 1 platforms, which have openmp in the base system. PR: 247753, 252379 Notes: svn path=/head/; revision=561239
* biology/hyphy: Update to version 2.5.25Joseph Mingrone2021-01-112-4/+4
| | | | | | | https://github.com/veg/hyphy/releases/tag/2.5.25 Notes: svn path=/head/; revision=561185
* biology/hyphy: Update to version 2.5.24Joseph Mingrone2020-12-202-4/+4
| | | | | | | https://github.com/veg/hyphy/releases/tag/2.5.24 Notes: svn path=/head/; revision=558773
* biology/hyphy: Update to version 2.5.23Joseph Mingrone2020-11-192-4/+4
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.23 Notes: svn path=/head/; revision=555698
* biology/hyphy: Update to version 2.5.22Joseph Mingrone2020-11-182-4/+4
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.22hf Notes: svn path=/head/; revision=555628
* biology/hyphy: Update to version 2.5.21Joseph Mingrone2020-10-304-16/+5
| | | | Notes: svn path=/head/; revision=553693
* biology/hyphy: Update to version 2.5.20Joseph Mingrone2020-10-163-4/+15
| | | | Notes: svn path=/head/; revision=552526
* biology/hyphy: Update to version 2.5.19Joseph Mingrone2020-10-133-24/+4
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.19 Notes: svn path=/head/; revision=552165
* biology/hyphy: Update to version 2.5.18 and add AVX optionJoseph Mingrone2020-09-023-6/+29
| | | | | | | | The AVX option is off by default, because hyphy will crash on systems without advanced vector extensions support. Notes: svn path=/head/; revision=547370
* biology/hyphy: Update to version 2.5.17Joseph Mingrone2020-08-202-4/+4
| | | | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.16 https://github.com/veg/hyphy/releases/tag/2.5.17 Notes: svn path=/head/; revision=545538
* biology/hyphy: Update to version 2.5.15Joseph Mingrone2020-06-282-4/+4
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.15 Notes: svn path=/head/; revision=540728
* biology/hyphy: Update to version 2.5.14Joseph Mingrone2020-05-303-438/+438
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.14 Notes: svn path=/head/; revision=537106
* biology/hyphy: Update to version 2.5.12Joseph Mingrone2020-05-033-5/+5
| | | | | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.11 https://github.com/veg/hyphy/releases/tag/2.5.12 Notes: svn path=/head/; revision=533731
* biology/hyphy: Update to version 2.5.10Joseph Mingrone2020-04-252-4/+4
| | | | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.9 https://github.com/veg/hyphy/releases/tag/2.5.10 Notes: svn path=/head/; revision=532908
* biology/hyphy: Update to version 2.5.8Joseph Mingrone2020-03-283-5/+7
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.8 Notes: svn path=/head/; revision=529331
* biology/hyphy: Update to version 2.5.7Joseph Mingrone2020-03-202-4/+4
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.7 Notes: svn path=/head/; revision=528753
* biology/hyphy: Update to version 2.5.6Joseph Mingrone2020-03-173-5/+4
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.6 Notes: svn path=/head/; revision=528590
* biology/hyphy: Update to version 2.5.5Joseph Mingrone2020-03-023-15/+4
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases/tag/2.5.5 Notes: svn path=/head/; revision=527606
* biology/hyphy: Update to version 2.5.4Joseph Mingrone2020-02-215-211/+45
| | | | | | | Upstream changes: https://github.com/veg/hyphy/releases Notes: svn path=/head/; revision=526622
* Bump PORTREVISION for ports depending on the canonical version of GCCGerald Pfeifer2019-07-261-1/+1
| | | | | | | | | | | | | | | | | | as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3 to GCC 9.1 under most circumstances now after revision 507371. This includes ports - with USE_GCC=yes or USE_GCC=any, - with USES=fortran, - using Mk/bsd.octave.mk which in turn features USES=fortran, and - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang, c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib plus, everything INDEX-11 shows with a dependency on lang/gcc9 now. PR: 238330 Notes: svn path=/head/; revision=507372
* Change cmake default behaviour to outsource.Tobias C. Berner2018-12-251-1/+1
| | | | | | | | | | | | | | Ports that build out of source now simply can use "USES=cmake" instead of "USES=cmake:outsource". Ports that fail to build out of source now need to specify "USES=cmake:insource". I tried to only set insource where explictely needed. PR: 232038 Exp-run by: antoine Notes: svn path=/head/; revision=488341
* Bump PORTREVISION for ports depending on the canonical version of GCCGerald Pfeifer2018-12-121-0/+1
| | | | | | | | | | | | | | | | | | defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t GCC 8.2 under most circumstances. This includes ports - with USE_GCC=yes or USE_GCC=any, - with USES=fortran, - using Mk/bsd.octave.mk which in turn features USES=fortran, and - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang, c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib plus, as a double check, everything INDEX-11 showed depending on lang/gcc7. PR: 231590 Notes: svn path=/head/; revision=487272
* biology/hyphy: Update to version 2.3.14.16Joseph Mingrone2018-10-203-5/+11
| | | | | | | | | | | | | | | | | | | This pulls in fixes after the 2.3.14 release. Upstream changes for version 2.3.14: https://github.com/veg/hyphy/releases/tag/2.3.14 Subsequent fixes: https://github.com/veg/hyphy/commit/1ecac31 https://github.com/veg/hyphy/commit/bec6833 https://github.com/veg/hyphy/commit/9847438 https://github.com/veg/hyphy/commit/02dcedd https://github.com/veg/hyphy/commit/8f44d3c https://github.com/veg/hyphy/commit/5297c30 https://github.com/veg/hyphy/commit/3d88d3e Notes: svn path=/head/; revision=482495
* biology/hyphy: Update to version 2.3.13Joseph Mingrone2018-05-223-5/+10
| | | | Notes: svn path=/head/; revision=470664
* biology/hyphy: Bump PORTREVISION after upstream rerolled releaseJoseph Mingrone2018-05-143-14/+4
| | | | | | | | | Also, remove patch that upstream incorporated in new tarball. Upstream issue: https://github.com/veg/hyphy/issues/796 Notes: svn path=/head/; revision=469922
* New port, biology/hyphy: Hypothesis testing using PhylogeniesJoseph Mingrone2018-05-116-0/+644
WWW: http://www.hyphy.org/ Notes: svn path=/head/; revision=469604
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