From 8ee85fd0668f17101b4dd8ad1b35ee0194521184 Mon Sep 17 00:00:00 2001
From: David Seifert <soap@gentoo.org>
Date: Sat, 24 Sep 2016 17:03:46 +0200
Subject: [PATCH] sci-libs/libmems: Allow for compiling with GCC 6

Gentoo-bug: 594814
* Patch taken from Debian
* Add sub-slot operator for dev-libs/boost
* Delete .la files

Package-Manager: portage-2.3.1
---
 .../files/libmems-1.6_p1-fix-c++14.patch      | 18 +++++++++++++
 ..._p1-r1.ebuild => libmems-1.6_p1-r2.ebuild} | 27 ++++++++++++++-----
 2 files changed, 38 insertions(+), 7 deletions(-)
 create mode 100644 sci-libs/libmems/files/libmems-1.6_p1-fix-c++14.patch
 rename sci-libs/libmems/{libmems-1.6_p1-r1.ebuild => libmems-1.6_p1-r2.ebuild} (64%)

diff --git a/sci-libs/libmems/files/libmems-1.6_p1-fix-c++14.patch b/sci-libs/libmems/files/libmems-1.6_p1-fix-c++14.patch
new file mode 100644
index 000000000000..bde8efeb4c9c
--- /dev/null
+++ b/sci-libs/libmems/files/libmems-1.6_p1-fix-c++14.patch
@@ -0,0 +1,18 @@
+Description: Correct compilation with g++-6
+Author: Gert Wollny <gw.fossdev@gmail.com>
+Bug-Debian: https://bugs.debian.org/811870
+Forwarded: yes
+Bug: https://sourceforge.net/p/mauve/bugs/46/
+Last-Update: 2016-06-30
+
+--- a/libMems/ProgressiveAligner.cpp
++++ b/libMems/ProgressiveAligner.cpp
+@@ -1599,7 +1599,7 @@
+ 		c.SetLeftEnd(child_1, ancestral_matches[mI]->LeftEnd(1));
+ 		c.SetOrientation(child_1, ancestral_matches[mI]->Orientation(1));
+ 		c.SetLength(ancestral_matches[mI]->Length(1), child_1);
+-		cga_list.push_back(make_tuple(c.Copy(), &bs[mI], ancestral_matches[mI]));
++		cga_list.push_back(boost::tuples::make_tuple(c.Copy(), &bs[mI], ancestral_matches[mI]));
+ 	}
+ 
+ 	stack<node_id_t> node_stack;
diff --git a/sci-libs/libmems/libmems-1.6_p1-r1.ebuild b/sci-libs/libmems/libmems-1.6_p1-r2.ebuild
similarity index 64%
rename from sci-libs/libmems/libmems-1.6_p1-r1.ebuild
rename to sci-libs/libmems/libmems-1.6_p1-r2.ebuild
index ac61e5455337..c00e615cd49b 100644
--- a/sci-libs/libmems/libmems-1.6_p1-r1.ebuild
+++ b/sci-libs/libmems/libmems-1.6_p1-r2.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2016 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 # $Id$
 
@@ -12,16 +12,15 @@ SRC_URI="https://dev.gentoo.org/~jlec/distfiles/${P}.tar.xz"
 
 SLOT="0"
 LICENSE="GPL-2"
-IUSE="doc"
+IUSE="doc static-libs"
 KEYWORDS="~amd64 ~x86"
 
-CDEPEND="
-	dev-libs/boost
+RDEPEND="
+	dev-libs/boost:=
 	sci-libs/libgenome
 	sci-libs/libmuscle"
-DEPEND="${CDEPEND}
+DEPEND="${RDEPEND}
 	doc? ( app-doc/doxygen )"
-RDEPEND="${CDEPEND}"
 
 PATCHES=(
 	"${FILESDIR}"/${P}-build.patch
@@ -29,9 +28,23 @@ PATCHES=(
 	"${FILESDIR}"/${P}-gcc-4.7.patch
 	"${FILESDIR}"/${P}-broken-constness.patch
 	"${FILESDIR}"/${P}-format-security.patch
-	)
+	"${FILESDIR}"/${P}-fix-c++14.patch
+)
 
 src_prepare() {
 	default
 	eautoreconf
 }
+
+src_configure() {
+	econf \
+		--enable-shared \
+		$(use_enable static-libs static)
+}
+
+src_install() {
+	default
+
+	# package provides .pc files
+	find "${D}" -name '*.la' -delete || die
+}
-- 
2.26.2