From e04e78ab9f20899f699eb5c871dc77727deac3da Mon Sep 17 00:00:00 2001
From: David Seifert <soap@gentoo.org>
Date: Sat, 2 Sep 2017 10:07:02 +0200
Subject: sci-biology/bwa: Bump to 0.7.16a

Package-Manager: Portage-2.3.8, Repoman-2.3.3
---
 sci-biology/bwa/Manifest           |  1 +
 sci-biology/bwa/bwa-0.7.16a.ebuild | 34 ++++++++++++++++++++++++++++++++++
 2 files changed, 35 insertions(+)
 create mode 100644 sci-biology/bwa/bwa-0.7.16a.ebuild

(limited to 'sci-biology/bwa')

diff --git a/sci-biology/bwa/Manifest b/sci-biology/bwa/Manifest
index 5589b9168380..d2daff2272eb 100644
--- a/sci-biology/bwa/Manifest
+++ b/sci-biology/bwa/Manifest
@@ -1,2 +1,3 @@
 DIST bwa-0.7.12.tar.bz2 184599 SHA256 701dcad147ae470d741717a72c369b338df7f80bff4bb8eee8176c66f16d608c SHA512 3ea093b861c1596d20b1ee0336468b66e52bc9f26e3d0bcbba0ddccc7fe9b1af2c7e1ed2a4e1366fe93fec348152becc126d5f4685dae54f05e6c582488b3abd WHIRLPOOL 4b8651dedf2e09980850e7212fc2a77dc86b06f708af2077cff28cc843858b15825a203e3e02e7728418e9eb539004404f7c4b234c1f65de6a7b7dfe4dcfd1d0
 DIST bwa-0.7.15.tar.bz2 189806 SHA256 2f56afefa49acc9bf45f12edb58e412565086cc20be098b8bf15ec07de8c0515 SHA512 cb862342aef1042751de55df095b4dac8344d9b41f00b0cca7f748829bf7fba71d15e4c7deaaa255eca6ee6af3ba58b370944ee702150cf17c29fb50ff25fa26 WHIRLPOOL 5d57d37339ff6c68c47ba0147ea21e4faa9a6cbbea2e66130e69bbb19802621ad22ae26889c06000109684961ed9d872605bffd469ddf97af2f1fdca3b8bd316
+DIST bwa-0.7.16a.tar.bz2 190773 SHA256 8fecdb5f88871351bbe050c18d6078121456c36ad75c5c78f33a926560ffc170 SHA512 8bbe223f79efd328d66adb88baf995e894f5944aad912ac1b464dc84dc9b4e22ddf77b60dcbe468e0eedc344ee58d08dc498777f0d2794a2c1e0ddd33dad606d WHIRLPOOL 624d94bb65fcfdbefa709f8e873b29f11d940c0ee54fc627a3305641bb15548de1162241ece07341623dae3b9970a49a7377dd0e634454cfef59a9c357f8b3ec
diff --git a/sci-biology/bwa/bwa-0.7.16a.ebuild b/sci-biology/bwa/bwa-0.7.16a.ebuild
new file mode 100644
index 000000000000..21fe67143bd2
--- /dev/null
+++ b/sci-biology/bwa/bwa-0.7.16a.ebuild
@@ -0,0 +1,34 @@
+# Copyright 1999-2017 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+inherit toolchain-funcs
+
+DESCRIPTION="Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner"
+HOMEPAGE="https://bio-bwa.sourceforge.net/"
+SRC_URI="mirror://sourceforge/bio-bwa/${P}.tar.bz2"
+
+LICENSE="GPL-3"
+SLOT="0"
+IUSE=""
+KEYWORDS="~amd64 ~x86 ~x64-macos"
+
+RDEPEND="dev-lang/perl"
+
+PATCHES=( "${FILESDIR}"/${PN}-0.7.15-Makefile.patch )
+DOCS=( NEWS.md README-alt.md README.md )
+
+src_configure() {
+	tc-export CC AR
+}
+
+src_install() {
+	dobin bwa
+
+	exeinto /usr/libexec/${PN}
+	doexe qualfa2fq.pl xa2multi.pl
+
+	einstalldocs
+	doman bwa.1
+}
-- 
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