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authorAndrey Kislyuk <weaver@gentoo.org>2009-03-16 04:36:47 +0000
committerAndrey Kislyuk <weaver@gentoo.org>2009-03-16 04:36:47 +0000
commitda28a9d0d4a8886799381740c15647602eb0c79d (patch)
tree2cb801a946c7092c0c6a86e97417cfbdcdd7151e /sci-biology
parentfix typo (diff)
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Import from Science overlay
(Portage version: 2.2_rc20/cvs/Linux 2.6.26-gentoo-r4 x86_64)
Diffstat (limited to 'sci-biology')
-rw-r--r--sci-biology/bowtie/ChangeLog13
-rw-r--r--sci-biology/bowtie/bowtie-0.9.9.1.ebuild28
-rw-r--r--sci-biology/bowtie/metadata.xml9
3 files changed, 50 insertions, 0 deletions
diff --git a/sci-biology/bowtie/ChangeLog b/sci-biology/bowtie/ChangeLog
new file mode 100644
index 000000000000..d9b7cca16b7b
--- /dev/null
+++ b/sci-biology/bowtie/ChangeLog
@@ -0,0 +1,13 @@
+# ChangeLog for sci-biology/bowtie
+# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bowtie/ChangeLog,v 1.1 2009/03/16 04:36:47 weaver Exp $
+
+*bowtie-0.9.9.1 (15 Mar 2009)
+
+ 15 Mar 2009; Andrey Kislyuk <weaver@gentoo.org> +metadata.xml,
+ +bowtie-0.9.9.1.ebuild:
+ Import from Science overlay
+
+ 27 Feb 2009; Andrey Kislyuk <weaver@gentoo.org> ChangeLog:
+ New package sci-biology/bowtie, ebuild written by me
+
diff --git a/sci-biology/bowtie/bowtie-0.9.9.1.ebuild b/sci-biology/bowtie/bowtie-0.9.9.1.ebuild
new file mode 100644
index 000000000000..dfcd68bedc13
--- /dev/null
+++ b/sci-biology/bowtie/bowtie-0.9.9.1.ebuild
@@ -0,0 +1,28 @@
+# Copyright 1999-2009 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bowtie/bowtie-0.9.9.1.ebuild,v 1.1 2009/03/16 04:36:47 weaver Exp $
+
+DESCRIPTION="An ultrafast memory-efficient short read aligner"
+HOMEPAGE="http://bowtie-bio.sourceforge.net/"
+SRC_URI="mirror://sourceforge/bowtie-bio/${P}-src.zip"
+
+LICENSE="Artistic"
+SLOT="0"
+IUSE=""
+KEYWORDS="~amd64 ~x86"
+
+DEPEND="app-arch/unzip"
+RDEPEND=""
+
+# NB: Bundles code from Maq (http://maq.sf.net) and the SeqAn library (http://www.seqan.de)
+
+src_unpack() {
+ unpack ${A}
+ sed -i 's/$(CXX) $(RELEASE_FLAGS)/$(CXX) $(CXXFLAGS) $(RELEASE_FLAGS)/' "${S}/Makefile" || die
+}
+
+src_install() {
+ dobin bowtie bowtie-* || die
+ newman MANUAL bowtie.1
+ dodoc AUTHORS NEWS TUTORIAL
+}
diff --git a/sci-biology/bowtie/metadata.xml b/sci-biology/bowtie/metadata.xml
new file mode 100644
index 000000000000..3302123e5718
--- /dev/null
+++ b/sci-biology/bowtie/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+ <maintainer>
+ <email>weaver@gentoo.org</email>
+ <name>Andrey Kislyuk</name>
+ </maintainer>
+ <herd>sci-biology</herd>
+</pkgmetadata>