From adf47f7e0b7623ad7740c8226b95a69f978072ba Mon Sep 17 00:00:00 2001
From: David Seifert <soap@gentoo.org>
Date: Sat, 4 Jun 2016 23:17:19 +0200
Subject: sci-biology/bowtie: version bump

Package-Manager: portage-2.3.0_rc1
---
 sci-biology/bowtie/Manifest            |  2 +-
 sci-biology/bowtie/bowtie-2.2.8.ebuild | 61 ----------------------------------
 sci-biology/bowtie/bowtie-2.2.9.ebuild | 61 ++++++++++++++++++++++++++++++++++
 3 files changed, 62 insertions(+), 62 deletions(-)
 delete mode 100644 sci-biology/bowtie/bowtie-2.2.8.ebuild
 create mode 100644 sci-biology/bowtie/bowtie-2.2.9.ebuild

(limited to 'sci-biology/bowtie')

diff --git a/sci-biology/bowtie/Manifest b/sci-biology/bowtie/Manifest
index c41c82115fab..0d7cf9c6f58b 100644
--- a/sci-biology/bowtie/Manifest
+++ b/sci-biology/bowtie/Manifest
@@ -1,3 +1,3 @@
 DIST bowtie-1.1.2-src.zip 7713258 SHA256 b1e9ccc825207efd1893d9e33244c681bcb89b9b2b811eb95a9f5a92eab637ae SHA512 3d3d69bc3a865bb577b5a91440215d0d5b606c7a8751d565e606e36adbfbdef695b1718ae81cd3e2682a39ca7784c4d00976441e7618264ad99b04c7f53c36e8 WHIRLPOOL 08cb824bf7a1ddfbe6692de67191aacf44776d7d4e0ab66bd2a13ecfffd087bc28cdde4c7285c781fa4759de0a239e68f87b702bcc2e24c9b81fda5804360ce7
 DIST bowtie2-2.2.6-source.zip 5728779 SHA256 1000e90cdd90c3ca43c69d0d0ad951e190d36a6981a546f430a90ce86d64bfc8 SHA512 3ab5a5475cf214affd91e0d1782fd2d6dedccd979e3c809b5dfb272726d99ff1c7b59d92e387b187a7c2e43557786a1085186ccb96588de91212caf2eb94ce4f WHIRLPOOL 4fb02b3a0d76bbee0fe9abf91a71405922568bc38e593d5740df6279bad6f8b668df0debb0a81f3d3c23623558f34d842dd662a6838cf2d7f0fc8945fd00a298
-DIST bowtie2-2.2.8-source.zip 5734037 SHA256 4a36edf62c761082da1f7e7fcf363ec4ce022bd5e7c76dd3ab63fa6f0137c05b SHA512 be059498a6cb0d422b4cb0734c2067e55c66659d1e708c540d937aa52c967fc13081757fb44b8d42967b44ac6768fb00ad31fac63d69d09f2dcfd49cf4cffd62 WHIRLPOOL 6e980cc4b09280894572ffe5897387d8b414bb190a77fa53ecbae168a40dcc23afa2eee34da043e77c8e8c2d00b2da562c7d5d4a3dd7e440f8b88655b6fe56cb
+DIST bowtie2-2.2.9-source.zip 5734235 SHA256 35b3cd8efc4c1c1efac6d94e626183bf4f8608b3a745fedd294c8fba46308201 SHA512 ead8f7641f3231638d986f9e500bc4ec7afe1e542048465bfcc2e93e2b2d2e499f0dd8aa5c1e3e21df285c9d195b187682eb7e12be4a408f6c50fb97c0e0a205 WHIRLPOOL ed8894096997ddd724c8999971a82b14bfa8149a23c040463c6f347ddce070a8c44baeb21bc1adc41a756e0e02c8f4861b967477c2f3469a71ca58b7d3e60aac
diff --git a/sci-biology/bowtie/bowtie-2.2.8.ebuild b/sci-biology/bowtie/bowtie-2.2.8.ebuild
deleted file mode 100644
index 6e664202dfdf..000000000000
--- a/sci-biology/bowtie/bowtie-2.2.8.ebuild
+++ /dev/null
@@ -1,61 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=6
-
-inherit eutils toolchain-funcs
-
-DESCRIPTION="Popular short read aligner for Next-generation sequencing data"
-HOMEPAGE="http://bowtie-bio.sourceforge.net/bowtie2/"
-SRC_URI="mirror://sourceforge/project/${PN}-bio/${PN}2/${PV}/${PN}2-${PV}-source.zip"
-
-LICENSE="GPL-3"
-SLOT="2"
-KEYWORDS="~amd64 ~x86"
-
-IUSE="examples cpu_flags_x86_sse2 +tbb"
-
-RDEPEND="dev-lang/perl
-	tbb? ( dev-cpp/tbb )"
-DEPEND="${RDEPEND}
-	app-arch/unzip"
-
-S="${WORKDIR}/${PN}2-${PV}"
-
-DOCS=( AUTHORS NEWS TUTORIAL )
-HTML_DOCS=( doc/{manual.html,style.css} )
-
-pkg_pretend() {
-	if ! use cpu_flags_x86_sse2 ; then
-		eerror "This package requires a CPU supporting the SSE2 instruction set."
-		die "SSE2 support missing"
-	fi
-}
-
-src_compile() {
-	emake \
-		CC="$(tc-getCC)" \
-		CPP="$(tc-getCXX)" \
-		CXX="$(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
-}
diff --git a/sci-biology/bowtie/bowtie-2.2.9.ebuild b/sci-biology/bowtie/bowtie-2.2.9.ebuild
new file mode 100644
index 000000000000..6e664202dfdf
--- /dev/null
+++ b/sci-biology/bowtie/bowtie-2.2.9.ebuild
@@ -0,0 +1,61 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+inherit eutils toolchain-funcs
+
+DESCRIPTION="Popular short read aligner for Next-generation sequencing data"
+HOMEPAGE="http://bowtie-bio.sourceforge.net/bowtie2/"
+SRC_URI="mirror://sourceforge/project/${PN}-bio/${PN}2/${PV}/${PN}2-${PV}-source.zip"
+
+LICENSE="GPL-3"
+SLOT="2"
+KEYWORDS="~amd64 ~x86"
+
+IUSE="examples cpu_flags_x86_sse2 +tbb"
+
+RDEPEND="dev-lang/perl
+	tbb? ( dev-cpp/tbb )"
+DEPEND="${RDEPEND}
+	app-arch/unzip"
+
+S="${WORKDIR}/${PN}2-${PV}"
+
+DOCS=( AUTHORS NEWS TUTORIAL )
+HTML_DOCS=( doc/{manual.html,style.css} )
+
+pkg_pretend() {
+	if ! use cpu_flags_x86_sse2 ; then
+		eerror "This package requires a CPU supporting the SSE2 instruction set."
+		die "SSE2 support missing"
+	fi
+}
+
+src_compile() {
+	emake \
+		CC="$(tc-getCC)" \
+		CPP="$(tc-getCXX)" \
+		CXX="$(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
+}
-- 
cgit v1.2.3-65-gdbad