From 98cf655c4ad6185416665c2ba02269dc3bbc985a Mon Sep 17 00:00:00 2001
From: Justin Lecher <jlec@gentoo.org>
Date: Thu, 18 Oct 2012 18:00:45 +0000
Subject: sci-biology/shrimp: Do not install elf in usr/share, #438652

Package-Manager: portage-2.2.0_alpha141/cvs/Linux x86_64
Manifest-Sign-Key: 0x70EB7916
---
 sci-biology/shrimp/shrimp-2.0.1.ebuild | 29 +++++++++++++++--------------
 1 file changed, 15 insertions(+), 14 deletions(-)

(limited to 'sci-biology/shrimp/shrimp-2.0.1.ebuild')

diff --git a/sci-biology/shrimp/shrimp-2.0.1.ebuild b/sci-biology/shrimp/shrimp-2.0.1.ebuild
index c8d8c0072874..81f1bb11185d 100644
--- a/sci-biology/shrimp/shrimp-2.0.1.ebuild
+++ b/sci-biology/shrimp/shrimp-2.0.1.ebuild
@@ -1,8 +1,8 @@
-# Copyright 1999-2011 Gentoo Foundation
+# Copyright 1999-2012 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/shrimp-2.0.1.ebuild,v 1.5 2011/03/07 15:33:02 tomka Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/shrimp/shrimp-2.0.1.ebuild,v 1.6 2012/10/18 18:00:44 jlec Exp $
 
-EAPI="2"
+EAPI=4
 
 inherit flag-o-matic toolchain-funcs
 
@@ -14,20 +14,20 @@ SRC_URI="http://compbio.cs.toronto.edu/shrimp/releases/SHRiMP_${MY_PV}.src.tar.g
 
 LICENSE="as-is"
 SLOT="0"
-IUSE=""
 KEYWORDS="amd64 x86"
-
-DEPEND=">=sys-devel/gcc-4.3[openmp]"
-RDEPEND="${DEPEND}"  # -lgomp
+IUSE="custom-cflags"
 
 S=${WORKDIR}/SHRiMP_${MY_PV}
 
 pkg_setup() {
-	tc-has-openmp || die "At least gcc-4.3 is required for openmp support."
+	if [[ ${CC} == *gcc* ]] &&	! tc-has-openmp; then
+		elog "Please set CC to an OPENMP capable compiler (e.g. gcc[openmp] or icc"
+		die "C compiler lacks OPENMP support"
+	fi
 }
 
 src_prepare() {
-	sed -i -e '1 a #include <stdint.h>' common/dag_glue.cpp || die #294811
+	sed -e '1 a #include <stdint.h>' -i common/dag_glue.cpp || die
 	# respect LDFLAGS wrt 331823
 	sed -i -e "s/LDFLAGS/LIBS/" -e "s/\$(LD)/& \$(LDFLAGS)/" \
 		-e 's/-static//' Makefile || die
@@ -35,14 +35,15 @@ src_prepare() {
 
 src_compile() {
 	append-flags -fopenmp
+	use custom-cflags || append-flags -O3 # per instructions in BUILDING
 	tc-export CXX
-	emake CXXFLAGS="${CXXFLAGS}" LDFLAGS="${LDFLAGS}" || die
+	emake CXXFLAGS="${CXXFLAGS}" LDFLAGS="${LDFLAGS}"
 }
 
 src_install() {
-	rm bin/README || die
-	dobin bin/* || die
+	rm bin/README
+	dobin bin/*
 	insinto /usr/share/${PN}
-	doins -r utils || die
-	dodoc HISTORY README TODO SPLITTING_AND_MERGING || die
+	doins -r utils
+	dodoc HISTORY README TODO SPLITTING_AND_MERGING
 }
-- 
cgit v1.2.3-65-gdbad