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* */*: bump PORTREVISION after OpenMPI upgradeThierry Thomas2024-02-181-1/+1
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* *: Bump PORTREVISIONs for math/mpc update to 1.3.1Gerald Pfeifer2023-04-231-1/+1
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* biology/hhsuite: Disable on 32-bit architectures following upstream adviceYuri Victorovich2022-10-011-0/+2
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* biology/hhsuite: fix build on armv7Robert Clausecker2022-10-011-2/+0
| | | | PR: 266736
* biology/hhsuite: Broken on armv7Yuri Victorovich2022-09-091-0/+2
| | | | Reported by: fallout
* Add WWW entries to port MakefilesStefan Eßer2022-09-071-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | It has been common practice to have one or more URLs at the end of the ports' pkg-descr files, one per line and prefixed with "WWW:". These URLs should point at a project website or other relevant resources. Access to these URLs required processing of the pkg-descr files, and they have often become stale over time. If more than one such URL was present in a pkg-descr file, only the first one was tarnsfered into the port INDEX, but for many ports only the last line did contain the port specific URL to further information. There have been several proposals to make a project URL available as a macro in the ports' Makefiles, over time. This commit implements such a proposal and moves one of the WWW: entries of each pkg-descr file into the respective port's Makefile. A heuristic attempts to identify the most relevant URL in case there is more than one WWW: entry in some pkg-descr file. URLs that are not moved into the Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr files in order to preserve them. There are 1256 ports that had no WWW: entries in pkg-descr files. These ports will not be touched in this commit. The portlint port has been adjusted to expect a WWW entry in each port Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as deprecated. Approved by: portmgr (tcberner)
* biology/hhsuite: Revert commit "Broken on systems where OpenMP isn't enabled"Yuri Victorovich2022-08-041-4/+0
| | | | | | | | | IT was added by mistake. The failures on armv7 are due to -march=native. This reverts commit 0f20e25bb0c89821c657ce7d8424f6e6ad1c9a45. Reported by: pkubaj@
* biology/hhsuite: Broken on systems where OpenMP isn't enabledYuri Victorovich2022-08-041-0/+4
| | | | Reported by: fallout
* biology/hhsuite: check for omp.h on all architecturesPiotr Kubaj2022-04-271-6/+6
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* biology/hhsuite: drop HAVE_POWER8 on powerpc64Piotr Kubaj2022-04-211-1/+2
| | | | powerpc64 uses PPC970 as a baseline.
* biology/hhsuite: fix packaging on powerpcPiotr Kubaj2021-11-161-0/+6
| | | | | | | | | pkg-static: Unable to access file /wrkdirs/usr/ports/biology/hhsuite/work/stage/usr/local/bin/hhalign_omp:No such file or directory pkg-static: Unable to access file /wrkdirs/usr/ports/biology/hhsuite/work/stage/usr/local/bin/hhblits_ca3m:No such file or directory pkg-static: Unable to access file /wrkdirs/usr/ports/biology/hhsuite/work/stage/usr/local/bin/hhblits_omp:No such file or directory pkg-static: Unable to access file /wrkdirs/usr/ports/biology/hhsuite/work/stage/usr/local/bin/hhsearch_omp:No such file or directory powerpc doesn't have LLVM with libomp.
* biology/hhsuite: Fix build on aarch64Mikael Urankar2021-09-131-1/+3
| | | | Approved by: portmgr (build fix blanket)
* biology/hhsuite: fix build on powerpc64*Piotr Kubaj2021-07-081-10/+4
| | | | hhsuite now supports VSX.
* 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/hhsuite: Update 3.2.0 -> 3.3.0Yuri Victorovich2020-08-271-2/+1
| | | | | | | Reported by: portscout Notes: svn path=/head/; revision=546314
* biology/hhsuite: fix build on powerpc64 elfv2Piotr Kubaj2020-05-111-1/+4
| | | | | | | | | Use GCC instead of Clang: /usr/lib/clang/10.0.0/include/mmintrin.h:216:19: error: use of undeclared identifier '__builtin_ia32_punpckhbw' return (__m64)__builtin_ia32_punpckhbw((__v8qi)__m1, (__v8qi)__m2); Notes: svn path=/head/; revision=534934
* - Update net/openmpi to 4.0.3 (openmpi 1 is deprecated)Danilo Egea Gondolfo2020-04-191-3/+2
| | | | | | | | | - Remove option for net/openmpi2 from science/pnetcdf (net/openmpi2 is deprecated and will be removed) - Fix science/gromacs plist when MPI option is enabled - Bump PORTREVISION for all the consumers of net/openmpi Notes: svn path=/head/; revision=532095
* Drop dependency on devel/openmpJan Beich2020-03-081-2/+1
| | | | | | | | | | - Drop if devel/llvm* was used as a substitute Approved by: yuri, rene (earlier version) Differential Revision: https://reviews.freebsd.org/D23020 Notes: svn path=/head/; revision=528082
* devel/openmp: update to 9.0.0Jan Beich2019-09-211-1/+1
| | | | | | | | | | | - Connect tests to the framework to help QA remaining patches - Force rebuild all consumers after https://reviews.llvm.org/D59783 Changes: http://llvm.org/viewvc/llvm-project/openmp/tags/RELEASE_900/final/?view=log ABI: https://abi-laboratory.pro/tracker/timeline/llvm_openmp/ Notes: svn path=/head/; revision=512535
* biology/hhsuite: fix build on powerpc64Piotr Kubaj2019-08-051-2/+7
| | | | | | | | | | | This port can't use Altivec. Instead, it's possible to use GCC's translation layer from SSE. Adjust build flags to do it. PR: 239645 Approved by: yuri (maintainer), tcberner (mentor) Differential Revision: https://reviews.freebsd.org/D21160 Notes: svn path=/head/; revision=508177
* Bump PORTREVISION for ports depending on the canonical version of GCCGerald Pfeifer2019-07-261-0/+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
* biology/hhsuite: Fix build on platforms where SIMD instruction set doesn't ↵Yuri Victorovich2019-05-221-0/+6
| | | | | | | | | | | exist or isn't detected. It forces it to default to SSE2 on amd64/i386 and relaxes the SIMD requirement on all other platforms. Reported by: fallout Notes: svn path=/head/; revision=502244
* New port: biology/hhsuite: Remote protein homology detection suiteYuri Victorovich2019-05-191-0/+26
Notes: svn path=/head/; revision=502015
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