52 lines
1 KiB
Bash
52 lines
1 KiB
Bash
# Copyright 1999-2015 Gentoo Foundation
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# Distributed under the terms of the GNU General Public License v2
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# $Id$
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EAPI=5
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AUTOTOOLS_AUTORECONF=true
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inherit autotools-utils flag-o-matic toolchain-funcs
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DESCRIPTION="Transcript assembly, differential expression, and differential regulation for RNA-Seq"
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HOMEPAGE="http://cufflinks.cbcb.umd.edu/"
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SRC_URI="http://cufflinks.cbcb.umd.edu/downloads/${P}.tar.gz"
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SLOT="0"
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LICENSE="Artistic"
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IUSE="debug"
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KEYWORDS="~amd64 ~x86"
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DEPEND="
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|| (
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(
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>=sci-biology/samtools-0.1.18
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sci-libs/htslib
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)
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<sci-biology/samtools-1
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)
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>=dev-libs/boost-1.47.0:=
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<dev-libs/boost-1.56.0:=
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dev-cpp/eigen:3
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"
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RDEPEND="${DEPEND}"
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PATCHES=(
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"${FILESDIR}"/${P}-hts.patch
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"${FILESDIR}"/${P}-flags.patch
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)
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src_prepare() {
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append-cppflags $($(tc-getPKG_CONFIG) --cflags eigen3)
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autotools-utils_src_prepare
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}
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src_configure() {
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local myeconfargs=(
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--disable-optim
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--with-boost-libdir="${EPREFIX}/usr/$(get_libdir)/"
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--with-bam="${EPREFIX}/usr/"
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$(use_enable debug)
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)
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autotools-utils_src_configure
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}
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