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Port details
bolt-lmm Mixed model association testing and variance component analysis
2.3.4 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port 2.3.2Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2019-05-26 03:37:05
Last Update: 2019-08-13 16:30:22
SVN Revision: 508832
License: GPLv3
Description:
SVNWeb : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (9 items)
  1. /usr/local/share/licenses/bolt-lmm-2.3.4/catalog.mk
  2. /usr/local/share/licenses/bolt-lmm-2.3.4/LICENSE
  3. /usr/local/share/licenses/bolt-lmm-2.3.4/GPLv3
  4. bin/bolt
  5. share/bolt-lmm/tables/LDSCORE.1000G_EUR.tab.gz
  6. share/bolt-lmm/tables/genetic_map_hg17_withX.txt.gz
  7. share/bolt-lmm/tables/genetic_map_hg18_withX.txt.gz
  8. share/bolt-lmm/tables/genetic_map_hg19_withX.txt.gz
  9. share/bolt-lmm/tables/genetic_map_hg38_withX.txt.gz
Collapse this list.
Dependency lines:
  • bolt-lmm>0:biology/bolt-lmm
To install the port: cd /usr/ports/biology/bolt-lmm/ && make install clean
To add the package: pkg install bolt-lmm
PKGNAME: bolt-lmm
Flavors: there is no flavor information for this port.
distinfo:

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. gmake : devel/gmake
  2. gcc9 : lang/gcc9
  3. as : devel/binutils
Runtime dependencies:
  1. gcc9 : lang/gcc9
Library dependencies:
  1. libnlopt.so : math/nlopt
  2. libopenblas.so : math/openblas
  3. libboost_program_options.so : devel/boost-libs
There are no ports dependent upon this port

Configuration Options

USES:

Master Sites:
  1. https://data.broadinstitute.org/alkesgroup/BOLT-LMM/downloads/

Number of commits found: 4

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
13 Aug 2019 15:30:22
Original commit files touched by this commit  2.3.4
Revision:508832
jwb search for other commits by this committer
biology/bolt-lmm: Upgrade to 2.3.4

Remove previously upstreamed patches
New Makefile patch that preserves default behavior and should be palatable
to upstream
04 Aug 2019 23:48:22
Original commit files touched by this commit  2.3.2_2
Revision:508135
jwb search for other commits by this committer
PR:             239613
Submitted by:   pkubaj
26 Jul 2019 20:46:57
Original commit files touched by this commit  2.3.2_1
Revision:507372
gerald search for other commits by this committer
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
26 May 2019 03:36:49
Original commit files touched by this commit  2.3.2
Revision:502673
jwb search for other commits by this committer
biology/bolt-lmm: Mixed model association testing and variance component
analysis

The BOLT-LMM software package currently consists of two main algorithms, the
BOLT-LMM algorithm for mixed model association testing, and the BOLT-REML
algorithm for variance components analysis (i.e., partitioning of
SNP-heritability and estimation of genetic correlations).

Number of commits found: 4

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