sci-biology/primer3: Fix building with GCC 7

Closes: https://bugs.gentoo.org/638604
Package-Manager: Portage-2.3.19, Repoman-2.3.6

diff --git a/sci-biology/primer3/files/primer3-2.3.7-gcc7.patch b/sci-biology/primer3/files/primer3-2.3.7-gcc7.patch
new file mode 100644 (file)
index 0000000..a04ee1a
--- /dev/null
+++ b/sci-biology/primer3/files/primer3-2.3.7-gcc7.patch
@@ -0,0 +1,17 @@
+--- a/src/thal.c
++++ b/src/thal.c
+@@ -426,12 +426,12 @@
+              "Illegal type");
+    o->align_end_1 = -1;
+    o->align_end_2 = -1;
+-   if ('\0' == oligo_f) {
++   if ('\0' == oligo_f[0]) {
+       strcpy(o->msg, "Empty first sequence");
+       o->temp = 0.0;
+       return;
+    }
+-   if ('\0' == oligo_r) {
++   if ('\0' == oligo_r[0]) {
+       strcpy(o->msg, "Empty second sequence");
+       o->temp = 0.0;
+       return;

diff --git a/sci-biology/primer3/primer3-2.3.7.ebuild b/sci-biology/primer3/primer3-2.3.7.ebuild
index d0dbc7363681f038e91f9c0390920ef12194e35c..4c6c9ce7bf44796bd67339a0ee0d994ebc5455e7 100644 (file)
--- a/sci-biology/primer3/primer3-2.3.7.ebuild
+++ b/sci-biology/primer3/primer3-2.3.7.ebuild
@@ -1,30 +1,34 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2017 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=6
 
-inherit eutils toolchain-funcs
+inherit toolchain-funcs
 
 DESCRIPTION="Primer Design for PCR reactions"
 HOMEPAGE="http://primer3.sourceforge.net/"
 SRC_URI="mirror://sourceforge/project/${PN}/${PN}/${PV}/${P}.tar.gz"
 
-SLOT="0"
 LICENSE="GPL-2"
-IUSE=""
+SLOT="0"
 KEYWORDS="~amd64 ~ppc ~ppc64 ~sparc ~x86 ~amd64-linux ~x86-linux ~ppc-macos ~sparc-solaris"
 
 DEPEND="dev-lang/perl"
 RDEPEND=""
 
-PATCHES=( "${FILESDIR}"/${PN}-2.3.4-buildsystem.patch )
+PATCHES=(
+       "${FILESDIR}"/${PN}-2.3.4-buildsystem.patch
+       "${FILESDIR}"/${PN}-2.3.7-gcc7.patch
+)
 
 src_prepare() {
        default
        if [[ ${CHOST} == *-darwin* ]]; then
                sed -e "s:LIBOPTS ='-static':LIBOPTS =:" -i Makefile || die
        fi
+}
 
+src_configure() {
        tc-export CC CXX AR RANLIB
 }
 
@@ -32,16 +36,18 @@ src_compile() {
        emake -C src
 }
 
-src_test () {
+src_test() {
        emake -C test | tee "${T}"/test.log
        grep -q "\[FAILED\]" && die "test failed. See "${T}"/test.log"
 }
 
-src_install () {
+src_install() {
        dobin src/{long_seq_tm_test,ntdpal,oligotm,primer3_core}
-       dodoc src/release_notes.txt example
+
        insinto /opt/primer3_config
-       doins -r src/primer3_config/* primer3*settings.txt
+       doins -r src/primer3_config/. primer3*settings.txt
+
+       dodoc src/release_notes.txt example
        docinto html
        dodoc primer3_manual.htm
 }