[gentoo-commits] repo/gentoo:master commit in: sci-biology/t-coffee/

[gentoo-commits] repo/gentoo:master commit in: sci-biology/t-coffee/

[Sam James]

commit:     fa9a7ea0c0b732bdffa5a55fa0fd0ee2af59c92d
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Sat Jul 30 09:11:52 2022 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Sat Jul 30 09:13:37 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=fa9a7ea0

sci-biology/t-coffee: add github upstream metadata

Signed-off-by: Sam James <sam <AT> gentoo.org>

 sci-biology/t-coffee/metadata.xml | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/sci-biology/t-coffee/metadata.xml b/sci-biology/t-coffee/metadata.xml
index 6dd147768742..bc6621eb034f 100644
--- a/sci-biology/t-coffee/metadata.xml
+++ b/sci-biology/t-coffee/metadata.xml
@@ -14,4 +14,7 @@
 		estimate the level of consistency of each position within the new
 		alignment with the rest of the alignments.
 	</longdescription>
+	<upstream>
+		<remote-id type="github">cbcrg/tcoffee</remote-id>
+	</upstream>
 </pkgmetadata>

[gentoo-commits] repo/gentoo:master commit in: sci-biology/t-coffee/

[Sam James]

commit:     86e4c6c3cfd2420dab5aae7c13f05e78e686d073
Author:     Eli Schwartz <eschwartz93 <AT> gmail <DOT> com>
AuthorDate: Wed Mar 20 20:10:01 2024 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Wed Mar 20 23:46:18 2024 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=86e4c6c3

sci-biology/t-coffee: mark as LTO-unsafe, strict-aliasing unsafe

Closes: https://bugs.gentoo.org/862327
Signed-off-by: Eli Schwartz <eschwartz93 <AT> gmail.com>
Signed-off-by: Sam James <sam <AT> gentoo.org>

 sci-biology/t-coffee/t-coffee-11.00-r3.ebuild | 10 +++++++++-
 1 file changed, 9 insertions(+), 1 deletion(-)

diff --git a/sci-biology/t-coffee/t-coffee-11.00-r3.ebuild b/sci-biology/t-coffee/t-coffee-11.00-r3.ebuild
index 0064cc319f47..89966a0580d2 100644
--- a/sci-biology/t-coffee/t-coffee-11.00-r3.ebuild
+++ b/sci-biology/t-coffee/t-coffee-11.00-r3.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2022 Gentoo Authors
+# Copyright 1999-2024 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=8
@@ -31,6 +31,14 @@ PATCHES=(
 )
 
 src_configure() {
+	# -Werror=strict-aliasing
+	# https://bugs.gentoo.org/862327
+	# https://github.com/cbcrg/tcoffee/issues/60
+	#
+	# Do not trust with LTO either
+	append-flags -fno-strict-aliasing
+	filter-lto
+
 	tc-export CXX
 	append-cxxflags -Wno-write-strings -Wno-unused-result
 }