Version BUmp, #354925

(Portage version: 2.2.0_alpha30/cvs/Linux x86_64)

2 files changed, 42 insertions, 2 deletions

diff --git a/sci-biology/bwa/ChangeLog b/sci-biology/bwa/ChangeLog
index cb7facb66cd8..f0d534e625f9 100644
--- a/sci-biology/bwa/ChangeLog
+++ b/sci-biology/bwa/ChangeLog
@@ -1,6 +1,11 @@
 # ChangeLog for sci-biology/bwa
-# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/ChangeLog,v 1.9 2010/10/09 20:15:55 weaver Exp $
+# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/ChangeLog,v 1.10 2011/05/01 09:19:52 jlec Exp $
+
+*bwa-0.5.9 (01 May 2011)
+
+  01 May 2011; Justin Lecher <jlec@gentoo.org> +bwa-0.5.9.ebuild:
+  Version BUmp, #354925
 
 *bwa-0.5.8a (09 Oct 2010)
 
diff --git a/sci-biology/bwa/bwa-0.5.9.ebuild b/sci-biology/bwa/bwa-0.5.9.ebuild
new file mode 100644
index 000000000000..97e541ed1774
--- /dev/null
+++ b/sci-biology/bwa/bwa-0.5.9.ebuild
@@ -0,0 +1,35 @@
+# Copyright 1999-2011 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/bwa-0.5.9.ebuild,v 1.1 2011/05/01 09:19:52 jlec Exp $
+
+EAPI=2
+
+inherit flag-o-matic toolchain-funcs
+
+DESCRIPTION="Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner"
+HOMEPAGE="http://bio-bwa.sourceforge.net/"
+SRC_URI="mirror://sourceforge/bio-bwa/${P}.tar.bz2"
+
+LICENSE="GPL-3"
+SLOT="0"
+IUSE=""
+KEYWORDS="~amd64 ~x86 ~x64-macos"
+
+src_prepare() {
+	sed -e "s/\$(CC) \$(CFLAGS)/\$(CC) \$(LDFLAGS) \$(CFLAGS)/" \
+		-i "${S}"/Makefile || die #336348
+	append-flags -pthread
+}
+
+src_compile() {
+	emake -e CC="$(tc-getCC)" || die
+}
+
+src_install() {
+	dobin bwa || die
+	doman bwa.1 || die
+	exeinto /usr/share/${PN}
+	doexe solid2fastq.pl || die
+	doexe qualfa2fq.pl || die
+	dodoc ChangeLog NEWS || die
+}