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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/htslib: Upgrade to 1.10.2Jason W. Bacon2020-08-031-1/+1
| | | | | | | | | | | | Numerous bug fixes and enhancements since 1.9: https://github.com/samtools/htslib/tags Bump PORTREVISION on dependents that don't require additional patching PR: 248089 Notes: svn path=/head/; revision=544090
* devel/boost-*: update to 1.72.0Jan Beich2019-12-111-1/+1
| | | | | | | | | | Changes: http://www.boost.org/users/history/version_1_72_0.html PR: 241449 Exp-run by: antoine Differential Revision: https://reviews.freebsd.org/D22136 Notes: svn path=/head/; revision=519824
* biology/unanimity and dependencies: Flag as no longer open sourceJason W. Bacon2019-11-241-1/+3
| | | | | | | | PacBio now provides unanimity only as a binary package through bioconda. See https://github.com/PacificBiosciences/ccs. Notes: svn path=/head/; revision=518334
* devel/boost-*: update to 1.71.0Jan Beich2019-08-191-1/+1
| | | | | | | | | | Changes: http://www.boost.org/users/history/version_1_71_0.html PR: 238827 Exp-run by: antoine Differential Revision: https://reviews.freebsd.org/D20774 Notes: svn path=/head/; revision=509290
* 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
* devel/boost-*: update to 1.70.0Jan Beich2019-04-121-0/+1
| | | | | | | | | | Changes: http://www.boost.org/users/history/version_1_70_0.html PR: 235956 Exp-run by: antoine Differential Revision: https://reviews.freebsd.org/D19303 Notes: svn path=/head/; revision=498698
* biology/pbbam: Upgrade to 0.18.0 releaseJason W. Bacon2019-02-194-23/+47
| | | | | | | In preparation for unanimity upgrade Notes: svn path=/head/; revision=493399
* Bump PORTREVISION for ports depending on the canonical version of GCCGerald Pfeifer2018-12-121-1/+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
* devel/boost-*: update to 1.69.0Jan Beich2018-12-121-1/+1
| | | | | | | | | | Changes: http://www.boost.org/users/history/version_1_69_0.html PR: 232525 Exp-run by: antoine Differential Revision: https://reviews.freebsd.org/D17645 Notes: svn path=/head/; revision=487266
* More precisely specify USES=compiler to fix build on gcc-basedMark Linimon2018-09-181-1/+1
| | | | | | | | | | | platforms such as powerpc64. Tested on powerpc64, amd64. Approved by: portmgr (tier-2 blanket) Notes: svn path=/head/; revision=479990
* devel/boost-*: update to 1.68.0Jan Beich2018-08-091-0/+1
| | | | | | | | | | | | - Switch to C++14 for libboost_system to support C++14 consumers Changes: http://www.boost.org/users/history/version_1_68_0.html PR: 229569 Exp-run by: antoine Differential Revision: https://reviews.freebsd.org/D16165 Notes: svn path=/head/; revision=476723
* biology/pbbam: PacBio BAM C++ library, with SWIG bindingsJason W. Bacon2018-04-234-0/+181
Approved by: jrm (mentor) Differential Revision: https://reviews.freebsd.org/D15154 Notes: svn path=/head/; revision=468100
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