./biology/plink, Whole-genome association analysis toolset

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Branch: CURRENT, Version: 1.07nb1, Package name: plink-1.07nb1, Maintainer: bacon

PLINK is a free, open-source whole genome association analysis
toolset, designed to perform a range of basic, large-scale
analyses in a computationally efficient manner.

The focus of PLINK is purely on analysis of genotype/phenotype
data, so there is no support for steps prior to this (e.g. study
design and planning, generating genotype or CNV calls from raw
data). Through integration with gPLINK and Haploview, there is
some support for the subsequent visualization, annotation and
storage of results.


Required to run:
[lang/g95] [math/lapack] [math/blas] [devel/libf2c]

Required to build:
[pkgtools/cwrappers]

Master sites:

SHA1: d41a2d014ebc02bf11e5235292b50fad6dedd407
RMD160: ce22e2388fc711ac9938d21ffd3cb68512ba1150
Filesize: 2204.392 KB

Version history: (Expand)


CVS history: (Expand)


   2020-10-12 23:52:05 by Jason Bacon | Files touched by this commit (87) | Package updated
Log message:
math/blas, math/lapack: Install interchangeable BLAS system

Install the new interchangeable BLAS system created by Thomas Orgis,
currently supporting Netlib BLAS/LAPACK, OpenBLAS, cblas, lapacke, and
Apple's Accelerate.framework.  This system allows the user to select any
BLAS implementation without modifying packages or using package options, by
setting PKGSRC_BLAS_TYPES in mk.conf. See mk/blas.buildlink3.mk for details.

This commit should not alter behavior of existing packages as the system
defaults to Netlib BLAS/LAPACK, which until now has been the only supported
implementation.

Details:

Add new mk/blas.buildlink3.mk for inclusion in dependent packages
Install compatible Netlib math/blas and math/lapack packages
Update math/blas and math/lapack MAINTAINER approved by adam@
OpenBLAS, cblas, and lapacke will follow in separate commits
Update direct dependents to use mk/blas.buildlink3.mk
Perform recursive revbump
   2019-01-13 23:06:42 by Jason Bacon | Files touched by this commit (6)
Log message:
Multiple packages: Replace obsolete maintainer email

jwbacon@tds.net ==> bacon@NetBSD.org
   2018-01-01 02:18:03 by Roland Illig | Files touched by this commit (1)
Log message:
Cleanup: replace curly braces with parentheses.
   2017-09-03 10:37:04 by Thomas Klausner | Files touched by this commit (182)
Log message:
Comment out dead MASTER_SITES/HOMEPAGEs.
   2016-02-25 12:21:12 by Jonathan Perkin | Files touched by this commit (1)
Log message:
Use OPSYSVARS.
   2015-12-29 05:54:40 by David A. Holland | Files touched by this commit (61)
Log message:
Whitespace.
   2015-11-02 19:42:23 by Alistair G. Crooks | Files touched by this commit (38)
Log message:
Add SHA512 digests for distfiles for biology category.

Existing SHA1 digests verified, all found to be the same on the
machine holding the existing distfiles (morden).  Existing SHA1
digests retained for now as an audit trail.
   2013-12-10 15:20:49 by Jonathan Perkin | Files touched by this commit (1)
Log message:
Add socket libraries on SunOS.  Patch from Sebastian Wiedenroth.