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| author |   Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-08-26 10:45:50 +0200 |
|---|---|---|
| committer | Martin Mokrejš <mmokrejs@fold.natur.cuni.cz> | 2016-08-26 10:45:50 +0200 |
| commit | 12cca09b9ad1ee543efaf15e08be3deb844fd741 (patch) | |
| tree | 82e364b0286588a0f8579f74d14f587f46fc5ee9 | |
| parent | sci-biology/vcflib: new package, works though is not ideal (diff) | |
| download | sci-12cca09b.tar.gz sci-12cca09b.tar.bz2 sci-12cca09b.zip | |
sci-biology/germline: new package
Package-Manager: portage-2.3.0
| -rw-r--r-- | sci-biology/germline/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/germline/germline-1.5.1.ebuild | 35 | ||||
| -rw-r--r-- | sci-biology/germline/metadata.xml | 12 |
3 files changed, 48 insertions, 0 deletions
diff --git a/sci-biology/germline/Manifest b/sci-biology/germline/Manifest new file mode 100644 index 000000000..3e5e3171f --- /dev/null +++ b/sci-biology/germline/Manifest @@ -0,0 +1 @@ +DIST germline-1-5-1.tar.gz 853549 SHA256 a30b64686a5b3300a7334c98fc09508fd5987c76ab91e149f7c4907d138a7a08 SHA512 d274106a332016f11abaa6aaedf5ca46743647b9074a55e593a3779b965a9cce0607edb06f79e0b380ea81fb0a7112b3fe7518a45c96586dbf4172ed8e820f3e WHIRLPOOL 282352653418eca3f477e629a7eb096d05154ee2b37a642f3ff4858881ff31ffaad82ba77fb14b575774419846863d8fe6e1350d398c70601d6745be534bf552 diff --git a/sci-biology/germline/germline-1.5.1.ebuild b/sci-biology/germline/germline-1.5.1.ebuild new file mode 100644 index 000000000..e2402fcbe --- /dev/null +++ b/sci-biology/germline/germline-1.5.1.ebuild @@ -0,0 +1,35 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=6 + +inherit versionator toolchain-funcs + +MY_PV=$(replace_all_version_separators '-') + +DESCRIPTION="Find shared segments of Identity by Descent (IBD) between pairs of individuals" +HOMEPAGE="http://www.cs.columbia.edu/~gusev/germline + http://genome.cshlp.org/content/19/2/318.full" +SRC_URI="http://www.cs.columbia.edu/~gusev/${PN}/${PN}-${MY_PV}.tar.gz" + +LICENSE="GPL-2" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="dev-libs/boost" +RDEPEND="${DEPEND}" + +S="${WORKDIR}"/${PN}-${MY_PV} + +src_prepare(){ + sed -e "s/-O3 /${CXXFLAGS} /;s/g++/$(tc-getCXX)/" -i Makefile || die + sed -e "s#diff -q -s test/expected.match test/generated.match#diff -q -s test/expected.match test/generated.match || cat test/generated.err#" -i Makefile || die + sed -e "s/^all: clean germline bmatch test/all: clean germline bmatch/" -i Makefile || die + default +} + +src_install(){ + dobin germline parse_bmatch +} diff --git a/sci-biology/germline/metadata.xml b/sci-biology/germline/metadata.xml new file mode 100644 index 000000000..f68a1b6fa --- /dev/null +++ b/sci-biology/germline/metadata.xml @@ -0,0 +1,12 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mmokrejs@fold.natur.cuni.cz</email> + <name>Martin Mokrejs</name> + </maintainer> + <maintainer type="project"> + <email>sci-biology@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> +</pkgmetadata> |