commit: 178526185526bc8e42c47646d3d00af81072a31d Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Thu Sep 1 10:05:22 2016 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Thu Sep 1 10:05:22 2016 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=17852618
sci-biology/brat_nova: yet another rewrite of sci-biology/brat and brat_bw Package-Manager: portage-2.3.0 sci-biology/brat_nova/brat_nova-20160103.ebuild | 38 +++++++++++++++++++++++++ sci-biology/brat_nova/metadata.xml | 8 ++++++ 2 files changed, 46 insertions(+) diff --git a/sci-biology/brat_nova/brat_nova-20160103.ebuild b/sci-biology/brat_nova/brat_nova-20160103.ebuild new file mode 100644 index 0000000..3a3fa2b --- /dev/null +++ b/sci-biology/brat_nova/brat_nova-20160103.ebuild @@ -0,0 +1,38 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +inherit toolchain-funcs + +DESCRIPTION="Bisulfite-aware short read mapper, FM-index, no InDel support (improved brat_bw)" +HOMEPAGE="http://compbio.cs.ucr.edu/brat/"; +SRC_URI="http://compbio.cs.ucr.edu/brat/downloads/brat_nova.tar.gz -> ${P}.tar.gz" + +LICENSE="GPL-3" +SLOT="0" +IUSE="" +KEYWORDS="~amd64 ~x86" + +DEPEND="" +RDEPEND="!sci-biology/brat + !sci-biology/brat_bw" + +S="${WORKDIR}"/"${PN}" + +src_prepare() { + sed \ + -e "s:g++:$(tc-getCXX):g" \ + -e "s:-O3 -w:${CFLAGS} ${LDFLAGS}:g" \ + -i Makefile || die +} + +src_install() { + dobin brat_bw build_bw trim acgt-count remove-dupl + # possible FILE_COLLISION + # on these with with sci-biology/brat + # trim acgt-count remove-dupl + # on these with sci-biology/brat_bw + # brat_bw build_bw trim acgt-count remove-dupl +} diff --git a/sci-biology/brat_nova/metadata.xml b/sci-biology/brat_nova/metadata.xml new file mode 100644 index 0000000..004c995 --- /dev/null +++ b/sci-biology/brat_nova/metadata.xml @@ -0,0 +1,8 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";> +<pkgmetadata> + <maintainer type="project"> + <email>[email protected]</email> + <name>Gentoo Biology Project</name> + </maintainer> + </pkgmetadata>
