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| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-08-01 18:32:12 +0200 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-08-01 18:32:12 +0200 |
| commit | 1bc9bf063980829008293505ed8468e6495b3113 (patch) | |
| tree | e989a32ba49dbf402865c971638b3ff05c30cea7 /sci-biology/plink | |
| parent | sci-biology/msautil: respect CFLAGS (diff) | |
| download | sci-1bc9bf063980829008293505ed8468e6495b3113.tar.gz sci-1bc9bf063980829008293505ed8468e6495b3113.tar.bz2 sci-1bc9bf063980829008293505ed8468e6495b3113.zip | |
sci-biology/plink: version bump (non-maintainer)
Package-Manager: portage-2.3.0
Diffstat (limited to 'sci-biology/plink')
| -rw-r--r-- | sci-biology/plink/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/plink/metadata.xml | 16 | ||||
| -rw-r--r-- | sci-biology/plink/plink-1.90_pre160731.ebuild | 55 |
3 files changed, 72 insertions, 0 deletions
diff --git a/sci-biology/plink/Manifest b/sci-biology/plink/Manifest new file mode 100644 index 000000000..c93526052 --- /dev/null +++ b/sci-biology/plink/Manifest @@ -0,0 +1 @@ +DIST plink-1.90_pre160731.zip 1069338 SHA256 9cda19d4a4812d2c91f7407bcfd1d76106bce8b4899745c0139a92baf84b9c0a SHA512 184a3da42e514a8478de1da637d0f2d22bd9c178113d0096b937b6e2e0a8372897f2dba013be36ab518fa9b801fa6de0a410fea41d8673af612f53b36b98c79b WHIRLPOOL bdc290a9d0bd7778c68b1fa963b770082b9043392a5e81dfc666fd07f00a72ddd5ef307c451e522b489a0c5421d4cfc06b5fc2abed3549eeade0e86760cdd6fd diff --git a/sci-biology/plink/metadata.xml b/sci-biology/plink/metadata.xml new file mode 100644 index 000000000..c281934d9 --- /dev/null +++ b/sci-biology/plink/metadata.xml @@ -0,0 +1,16 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="project"> + <email>sci-biology@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> + <use> + <flag name="webcheck"> + add support for online update checking every time the program starts + </flag> + <flag name="R"> + add support R language + </flag> + </use> +</pkgmetadata> diff --git a/sci-biology/plink/plink-1.90_pre160731.ebuild b/sci-biology/plink/plink-1.90_pre160731.ebuild new file mode 100644 index 000000000..1048be07a --- /dev/null +++ b/sci-biology/plink/plink-1.90_pre160731.ebuild @@ -0,0 +1,55 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +inherit eutils toolchain-funcs + +DESCRIPTION="Whole genome association analysis toolset" +HOMEPAGE="http://pngu.mgh.harvard.edu/~purcell/plink/" +SRC_URI="https://www.cog-genomics.org/static/bin/plink160731/plink_src.zip -> ${P}.zip" + +LICENSE="GPL-3+" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND=" + app-arch/unzip + virtual/pkgconfig" +RDEPEND=" + sys-libs/zlib + virtual/cblas + virtual/lapack + " + +S="${WORKDIR}/" + +# Package collides with net-misc/putty. Renamed to p-link following discussion with Debian. +# Package contains bytecode-only jar gPLINK.jar. Ignored, notified upstream. + +src_prepare() { + sed \ + -e 's:zlib-1.2.8/zlib.h:zlib.h:g' \ + -i *.{c,h} || die + + sed \ + -e 's:g++:$(CXX):g' \ + -e 's:gcc:$(CC):g' \ + -e 's:gfortran:$(FC):g' \ + -i Makefile || die + tc-export PKG_CONFIG +} + +src_compile() { + emake \ + CXX=$(tc-getCXX) \ + CFLAGS="${CFLAGS}" \ + ZLIB="$($(tc-getPKG_CONFIG) --libs zlib)" \ + BLASFLAGS="$($(tc-getPKG_CONFIG) --libs lapack cblas)" +} + +src_install() { + newbin plink p-link +} |