Unanimity is a C++ library + applications to generate and process accurate
consensus sequences from Pacific Biosciences sequence data.
The core binary, CCS (circular consensus calling) takes multiple reads of the
same SMRTbell sequence and combines them, employing a statistical model, to
produce one high quality consensus sequence.
WWW: https://github.com/PacificBiosciences/unanimity
biology/unanimity: Remove erroneous BROKEN
Unsure why this was marked unfetchable. Fetch works fine and the port is
still useful, though it cannot be upgraded to newer releases, which are
closed-source.
biology/unanimity and dependencies: Flag as no longer open source
PacBio now provides unanimity only as a binary package through bioconda.
See https://github.com/PacificBiosciences/ccs.
Bump PORTREVISION for ports depending on the canonical version of GCC
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
Change cmake default behaviour to outsource.
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
Bump PORTREVISION for ports depending on the canonical version of GCC
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
More precisely specify USES=compiler to fix build on gcc-based
platforms such as powerpc64.
Tested on powerpc64, amd64.
Approved by: portmgr (tier-2 blanket)
