[gentoo-commits] proj/sci:master commit in: sci-biology/plinkseq/

["Martin Mokrejs" <mmokrejs@fold.natur.cuni.cz>]

commit:     1b4bf42026e44bf3a934c852e0f4cb4db84036c8
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sun May 10 19:20:25 2015 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sun May 10 19:20:25 2015 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=1b4bf420

sci-biology/plinkseq: new package

Package-Manager: portage-2.2.18

 sci-biology/plinkseq/ChangeLog            |  9 +++++++++
 sci-biology/plinkseq/metadata.xml         |  9 +++++++++
 sci-biology/plinkseq/plinkseq-0.10.ebuild | 31 +++++++++++++++++++++++++++++++
 3 files changed, 49 insertions(+)

diff --git a/sci-biology/plinkseq/ChangeLog b/sci-biology/plinkseq/ChangeLog
new file mode 100644
index 0000000..ade0615
--- /dev/null
+++ b/sci-biology/plinkseq/ChangeLog
@@ -0,0 +1,9 @@
+# ChangeLog for sci-biology/plinkseq
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+*plinkseq-0.10 (10 May 2015)
+
+  10 May 2015; Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> +metadata.xml,
+  +plinkseq-0.10.ebuild:
+  sci-biology/plinkseq: new package

diff --git a/sci-biology/plinkseq/metadata.xml b/sci-biology/plinkseq/metadata.xml
new file mode 100644
index 0000000..2bc8930
--- /dev/null
+++ b/sci-biology/plinkseq/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+  <herd>sci-biology</herd>
+  <maintainer>
+    <email>mmokrejs@fold.natur.cuni.cz</email>
+    <name>Martin Mokrejs</name>
+  </maintainer>
+</pkgmetadata>

diff --git a/sci-biology/plinkseq/plinkseq-0.10.ebuild b/sci-biology/plinkseq/plinkseq-0.10.ebuild
new file mode 100644
index 0000000..153c161
--- /dev/null
+++ b/sci-biology/plinkseq/plinkseq-0.10.ebuild
@@ -0,0 +1,31 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit toolchain-funcs
+
+DESCRIPTION="C/C++ library for working with human genetic variation data"
+HOMEPAGE="http://atgu.mgh.harvard.edu/plinkseq"
+SRC_URI="http://psychgen.u.hpc.mssm.edu/plinkseq_downloads/plinkseq-src-latest.tgz -> ${P}.tgz"
+# https://bitbucket.org/statgen/plinkseq.git
+# http://pngu.mgh.harvard.edu/~purcell/plink/download.shtml
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE=""
+
+DEPEND="sys-libs/zlib"
+RDEPEND="${DEPEND}"
+
+src_prepare(){
+	sed -e "s/gcc/$(tc-getCC)/g;s/g++/$(tc-getCXX)/g;s/-O3/${CFLAGS}/g" -i config_defs.Makefile || die
+	sed -e "s/= -static/=/g" -i config_defs.Makefile || die
+}
+
+src_install(){
+	cd build/execs || die
+	dobin gcol browser pseq behead mm smp tab2vcf mongoose pdas
+}