commit: 87642b198308aa88ce351b935b79a58a08cf164b Author: Ted Tanberry <ted.tanberry <AT> gmail <DOT> com> AuthorDate: Sat Oct 10 17:48:48 2015 +0000 Commit: Marius Brehler <marbre <AT> linux <DOT> sungazer <DOT> de> CommitDate: Sat Oct 10 17:48:48 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=87642b19
sci-biology/bowtie: Version bump to 2.2.6 dev-cpp/tbb is now supported with 'tbb' USE flag. sci-biology/bowtie/ChangeLog | 6 ++++ sci-biology/bowtie/bowtie-2.2.6.ebuild | 54 ++++++++++++++++++++++++++++++++++ 2 files changed, 60 insertions(+) diff --git a/sci-biology/bowtie/ChangeLog b/sci-biology/bowtie/ChangeLog index 42bdbdf..6530be0 100644 --- a/sci-biology/bowtie/ChangeLog +++ b/sci-biology/bowtie/ChangeLog @@ -2,6 +2,12 @@ # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 # $Id$ +*bowtie-2.2.6 (10 Oct 2015) + + 10 Oct 2015; Ted Tanberry <[email protected]> +bowtie-2.2.6.ebuild: + sci-biology/bowtie: Version bump to 2.2.6, support dev-cpp/tbb with + USE flag. + *bowtie-1.1.2 (10 Oct 2015) 10 Oct 2015; Ted Tanberry <[email protected]> +bowtie-1.1.2.ebuild, diff --git a/sci-biology/bowtie/bowtie-2.2.6.ebuild b/sci-biology/bowtie/bowtie-2.2.6.ebuild new file mode 100644 index 0000000..fce2985 --- /dev/null +++ b/sci-biology/bowtie/bowtie-2.2.6.ebuild @@ -0,0 +1,54 @@ +# Copyright 1999-2015 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +inherit eutils toolchain-funcs + +DESCRIPTION="Short read aligner supporting gaps, matches to N nucleotides, no end-to-end requirement" +HOMEPAGE="http://bowtie-bio.sourceforge.net/bowtie2/"; +SRC_URI="mirror://sourceforge/project/${PN}-bio/${PN}2/${PV}/${PN}2-${PV}-source.zip" + +LICENSE="GPL-3" +SLOT="2" +KEYWORDS="~amd64 ~x86" + +IUSE="examples cpu_flags_x86_sse2 tbb" +REQUIRED_USE="cpu_flags_x86_sse2" + +RDEPEND="dev-lang/perl" +DEPEND="${RDEPEND} + app-arch/unzip + tbb? ( dev-cpp/tbb )" + +S="${WORKDIR}/${PN}2-${PV}" + +DOCS=( AUTHORS NEWS TUTORIAL ) +HTML_DOCS=( doc/{manual.html,style.css} ) + +src_compile() { + emake \ + CC="$(tc-getCC)" \ + CPP="$(tc-getCXX)" \ + CFLAGS="" \ + CXXFLAGS="" \ + EXTRA_FLAGS="${LDFLAGS}" \ + RELEASE_FLAGS="${CXXFLAGS} -msse2" \ + WITH_TBB="$(usex tbb 1 0)" +} + +src_install() { + dobin ${PN}2 ${PN}2-* + + exeinto /usr/libexec/${PN}2 + doexe scripts/* + + newman MANUAL ${PN}2.1 + einstalldocs + + if use examples; then + insinto /usr/share/${PN}2 + doins -r example + fi +}
