[gentoo-commits] repo/gentoo:master commit in: sci-biology/bwa/files/, sci-biology/bwa/

[David Seifert]

commit:     71f83be9beeb1ed4c39d0e0ad442a8aba54a2c8c
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sat Jan 25 19:38:35 2020 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sat Jan 25 19:38:35 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=71f83be9

sci-biology/bwa: Fix -fno-common bug

Closes: https://bugs.gentoo.org/706348
Package-Manager: Portage-2.3.85, Repoman-2.3.20
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 sci-biology/bwa/bwa-0.7.16a.ebuild             | 10 ++++++----
 sci-biology/bwa/files/bwa-0.7.16a-gcc-10.patch |  7 +++++++
 2 files changed, 13 insertions(+), 4 deletions(-)

diff --git a/sci-biology/bwa/bwa-0.7.16a.ebuild b/sci-biology/bwa/bwa-0.7.16a.ebuild
index 21fe67143bd..b29bf210169 100644
--- a/sci-biology/bwa/bwa-0.7.16a.ebuild
+++ b/sci-biology/bwa/bwa-0.7.16a.ebuild
@@ -1,7 +1,7 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=6
+EAPI=7
 
 inherit toolchain-funcs
 
@@ -11,12 +11,14 @@ 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 )
+PATCHES=(
+	"${FILESDIR}"/${PN}-0.7.15-Makefile.patch
+	"${FILESDIR}"/${PN}-0.7.16a-gcc-10.patch
+)
 DOCS=( NEWS.md README-alt.md README.md )
 
 src_configure() {

diff --git a/sci-biology/bwa/files/bwa-0.7.16a-gcc-10.patch b/sci-biology/bwa/files/bwa-0.7.16a-gcc-10.patch
new file mode 100644
index 00000000000..40056ffeaaa
--- /dev/null
+++ b/sci-biology/bwa/files/bwa-0.7.16a-gcc-10.patch
@@ -0,0 +1,7 @@
+--- a/rle.h
++++ b/rle.h
+@@ -32,3 +32,3 @@ extern "C" {
+ 
+-const uint8_t rle_auxtab[8];
++extern const uint8_t rle_auxtab[8];
+