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GCTA should modify the LAPACK functios calls, this is a temporary fix.
See <https://github.com/jianyangqt/gcta/issues/59>.
PR: 273219
Approved by: jwb@
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Add USE_GCC to work around this issue with clang:
/usr/ports/biology/gcta/work/gcta-1.94.1/submods/plink-ng/2.0/ \
plink2_base.h:1008:23: error: argument to '__builtin_neon_vshrq_n_v' \
must be a constant integer
return R_CAST(VecW, _mm_srli_epi64(R_CAST(__m128i, vv), ct));
/usr/lib/clang/14.0.5/include/arm_neon.h:25260:24: note: expanded from \
macro 'vshrq_n_u64'
__ret = (uint64x2_t) __builtin_neon_vshrq_n_v((int8x16_t)__s0, __p1, 51);
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Too many changes since v1.26 to list here
Changes: https://yanglab.westlake.edu.cn/software/gcta/#Download
Reported by: pkg-fallout
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Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.
This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.
Approved by: portmgr (tcberner)
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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)
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... in preparation to upgrading math/eigen to 3.4.0.
This version of gcta (1.26.0) doesn't support eigen-3.4.0, and
it can't be upgraded because latest versions of gcta use
Intel's closed source MKL library.
PR: 265032
Suggested by: tcberner@
Approved by: portmgr (interoperability)
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Reported by: lwhsu
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Replace compiler:openmp with compiler:c++11-lang
Clang build also requires localbase:ldflags
Build tested on amd64, i386 and powerpc64 12.x-RELEASE
PR: port/247753, ports/252379
Notes:
svn path=/head/; revision=561231
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- Add some dependencies which might be detected by Find_Package but not registered;
- Bump PORTREVISION of consumers.
PR: 250833
Submitted by: /me
Approved by: tcberner@ (KDE / maintainer) + exp-run
Notes:
svn path=/head/; revision=557839
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PR: ports/250949
Reported by: lbartoletti
Notes:
svn path=/head/; revision=554467
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math/openblas update the library name changed in openblas.
Notes:
svn path=/head/; revision=534185
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GCTA (Genome-wide Complex Trait Analysis) was originally designed to estimate
the proportion of phenotypic variance explained by genome- or chromosome-wide
SNPs for complex traits (the GREML method), and has subsequently extended for
many other analyses to better understand the genetic architecture of complex
traits.
Notes:
svn path=/head/; revision=531770
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