* [gentoo-commits] repo/gentoo:master commit in: sci-biology/muscle/
@ 2021-11-18 23:50 Georgy Yakovlev
0 siblings, 0 replies; 6+ messages in thread
From: Georgy Yakovlev @ 2021-11-18 23:50 UTC (permalink / raw
To: gentoo-commits
commit: 031cf9ad4d10c5620a9874c5dc05b9b80ab627ba
Author: Georgy Yakovlev <gyakovlev <AT> gentoo <DOT> org>
AuthorDate: Thu Nov 18 23:44:51 2021 +0000
Commit: Georgy Yakovlev <gyakovlev <AT> gentoo <DOT> org>
CommitDate: Thu Nov 18 23:50:18 2021 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=031cf9ad
sci-biology/muscle: de-stabilize for ~ppc, bug #823768
Bug: https://bugs.gentoo.org/823768
Signed-off-by: Georgy Yakovlev <gyakovlev <AT> gentoo.org>
sci-biology/muscle/muscle-3.8.31.ebuild | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/sci-biology/muscle/muscle-3.8.31.ebuild b/sci-biology/muscle/muscle-3.8.31.ebuild
index 72c9a2c7e178..14781d000e78 100644
--- a/sci-biology/muscle/muscle-3.8.31.ebuild
+++ b/sci-biology/muscle/muscle-3.8.31.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2020 Gentoo Authors
+# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
@@ -13,7 +13,7 @@ SRC_URI="http://www.drive5.com/muscle/downloads${PV}/${MY_P}.tar.gz"
LICENSE="public-domain"
SLOT="0"
-KEYWORDS="amd64 ppc x86"
+KEYWORDS="amd64 ~ppc x86"
RDEPEND="!sci-libs/libmuscle"
^ permalink raw reply related [flat|nested] 6+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: sci-biology/muscle/
@ 2022-07-30 8:38 Sam James
0 siblings, 0 replies; 6+ messages in thread
From: Sam James @ 2022-07-30 8:38 UTC (permalink / raw
To: gentoo-commits
commit: fdb6f6f365aff049b1dc45abc824f49fef80feb9
Author: Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Sat Jul 30 08:37:20 2022 +0000
Commit: Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Sat Jul 30 08:37:20 2022 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=fdb6f6f3
sci-biology/muscle: add github upstream metadata
Signed-off-by: Sam James <sam <AT> gentoo.org>
sci-biology/muscle/metadata.xml | 11 +++++++----
1 file changed, 7 insertions(+), 4 deletions(-)
diff --git a/sci-biology/muscle/metadata.xml b/sci-biology/muscle/metadata.xml
index ccdff086e20b..adacdd12bcf1 100644
--- a/sci-biology/muscle/metadata.xml
+++ b/sci-biology/muscle/metadata.xml
@@ -1,8 +1,11 @@
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
- <maintainer type="project">
- <email>sci-biology@gentoo.org</email>
- <name>Gentoo Biology Project</name>
- </maintainer>
+ <maintainer type="project">
+ <email>sci-biology@gentoo.org</email>
+ <name>Gentoo Biology Project</name>
+ </maintainer>
+ <upstream>
+ <remote-id type="github">rcedgar/muscle</remote-id>
+ </upstream>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 6+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: sci-biology/muscle/
@ 2022-08-23 12:06 Andrew Ammerlaan
0 siblings, 0 replies; 6+ messages in thread
From: Andrew Ammerlaan @ 2022-08-23 12:06 UTC (permalink / raw
To: gentoo-commits
commit: 28edb0964e4440787196c2128b143903a501ddc7
Author: Michael Mair-Keimberger <mmk <AT> levelnine <DOT> at>
AuthorDate: Tue Aug 2 17:13:37 2022 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue Aug 23 12:06:15 2022 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=28edb096
sci-biology/muscle: use HTTPS
Signed-off-by: Michael Mair-Keimberger <mmk <AT> levelnine.at>
Portage 3.0.34 / pkgdev 0.2.1 / pkgcheck 0.10.11
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>
sci-biology/muscle/muscle-3.8.31.ebuild | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/sci-biology/muscle/muscle-3.8.31.ebuild b/sci-biology/muscle/muscle-3.8.31.ebuild
index 14781d000e78..1638c655be32 100644
--- a/sci-biology/muscle/muscle-3.8.31.ebuild
+++ b/sci-biology/muscle/muscle-3.8.31.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2021 Gentoo Authors
+# Copyright 1999-2022 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
@@ -8,8 +8,8 @@ inherit toolchain-funcs
MY_P="${PN}${PV}_src"
DESCRIPTION="Multiple sequence comparison by log-expectation"
-HOMEPAGE="http://www.drive5.com/muscle/"
-SRC_URI="http://www.drive5.com/muscle/downloads${PV}/${MY_P}.tar.gz"
+HOMEPAGE="https://www.drive5.com/muscle/"
+SRC_URI="https://www.drive5.com/muscle/downloads${PV}/${MY_P}.tar.gz"
LICENSE="public-domain"
SLOT="0"
^ permalink raw reply related [flat|nested] 6+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: sci-biology/muscle/
@ 2024-03-20 6:26 Sam James
0 siblings, 0 replies; 6+ messages in thread
From: Sam James @ 2024-03-20 6:26 UTC (permalink / raw
To: gentoo-commits
commit: c33c578e0eaeda556d7b5467fce0e97726c0d8f5
Author: Eli Schwartz <eschwartz93 <AT> gmail <DOT> com>
AuthorDate: Wed Mar 20 03:58:33 2024 +0000
Commit: Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Wed Mar 20 06:17:03 2024 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c33c578e
sci-biology/muscle: mark as LTO-unsafe, strict-aliasing unsafe
Closes: https://bugs.gentoo.org/862276
Signed-off-by: Eli Schwartz <eschwartz93 <AT> gmail.com>
Signed-off-by: Sam James <sam <AT> gentoo.org>
sci-biology/muscle/muscle-3.8.31.ebuild | 12 ++++++++++--
1 file changed, 10 insertions(+), 2 deletions(-)
diff --git a/sci-biology/muscle/muscle-3.8.31.ebuild b/sci-biology/muscle/muscle-3.8.31.ebuild
index e47f5f66cf46..faefc5b1a280 100644
--- a/sci-biology/muscle/muscle-3.8.31.ebuild
+++ b/sci-biology/muscle/muscle-3.8.31.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2023 Gentoo Authors
+# Copyright 1999-2024 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
-inherit toolchain-funcs
+inherit flag-o-matic toolchain-funcs
MY_P="${PN}${PV}_src"
@@ -22,6 +22,14 @@ S="${WORKDIR}"/${PN}${PV}/src
PATCHES=( "${FILESDIR}"/${PV}-make.patch )
src_configure() {
+ # -Werror=strict-aliasing
+ # https://bugs.gentoo.org/862276
+ # Fixed upstream in later releases
+ #
+ # Do not trust with LTO either.
+ append-flags -fno-strict-aliasing
+ filter-lto
+
tc-export CXX
}
^ permalink raw reply related [flat|nested] 6+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: sci-biology/muscle/
@ 2024-03-20 6:26 Sam James
0 siblings, 0 replies; 6+ messages in thread
From: Sam James @ 2024-03-20 6:26 UTC (permalink / raw
To: gentoo-commits
commit: 8ab389ebe46e90ae367318d678ddba2258451b66
Author: Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Wed Mar 20 06:20:02 2024 +0000
Commit: Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Wed Mar 20 06:20:02 2024 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8ab389eb
sci-biology/muscle: drop unused flag-o-matic from 5.1.0
Signed-off-by: Sam James <sam <AT> gentoo.org>
sci-biology/muscle/muscle-5.1.0.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-biology/muscle/muscle-5.1.0.ebuild b/sci-biology/muscle/muscle-5.1.0.ebuild
index 033c35b8ee1a..5f0f0cff646d 100644
--- a/sci-biology/muscle/muscle-5.1.0.ebuild
+++ b/sci-biology/muscle/muscle-5.1.0.ebuild
@@ -3,7 +3,7 @@
EAPI=8
-inherit flag-o-matic toolchain-funcs
+inherit toolchain-funcs
DESCRIPTION="Multiple sequence comparison by log-expectation"
HOMEPAGE="https://www.drive5.com/muscle/"
^ permalink raw reply related [flat|nested] 6+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: sci-biology/muscle/
@ 2024-03-20 6:26 Sam James
0 siblings, 0 replies; 6+ messages in thread
From: Sam James @ 2024-03-20 6:26 UTC (permalink / raw
To: gentoo-commits
commit: 6c084e5a487050124f20519ee97c5bd36fdfbdbe
Author: Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Wed Mar 20 06:20:22 2024 +0000
Commit: Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Wed Mar 20 06:20:22 2024 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=6c084e5a
sci-biology/muscle: fix variable order
Signed-off-by: Sam James <sam <AT> gentoo.org>
sci-biology/muscle/muscle-5.1.0.ebuild | 3 +--
1 file changed, 1 insertion(+), 2 deletions(-)
diff --git a/sci-biology/muscle/muscle-5.1.0.ebuild b/sci-biology/muscle/muscle-5.1.0.ebuild
index 5f0f0cff646d..84c0c2266804 100644
--- a/sci-biology/muscle/muscle-5.1.0.ebuild
+++ b/sci-biology/muscle/muscle-5.1.0.ebuild
@@ -8,6 +8,7 @@ inherit toolchain-funcs
DESCRIPTION="Multiple sequence comparison by log-expectation"
HOMEPAGE="https://www.drive5.com/muscle/"
SRC_URI="https://github.com/rcedgar/muscle/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz"
+S="${WORKDIR}"/${P}/src
LICENSE="public-domain"
SLOT="0"
@@ -15,8 +16,6 @@ KEYWORDS="~amd64 ~ppc ~x86"
RDEPEND="!sci-libs/libmuscle"
-S="${WORKDIR}"/${P}/src
-
PATCHES=(
"${FILESDIR}"/0001-Makefile-fix-horribleness-so-that-it-respects-build-.patch
)
^ permalink raw reply related [flat|nested] 6+ messages in thread
end of thread, other threads:[~2024-03-20 6:26 UTC | newest]
Thread overview: 6+ messages (download: mbox.gz follow: Atom feed
-- links below jump to the message on this page --
2022-08-23 12:06 [gentoo-commits] repo/gentoo:master commit in: sci-biology/muscle/ Andrew Ammerlaan
-- strict thread matches above, loose matches on Subject: below --
2024-03-20 6:26 Sam James
2024-03-20 6:26 Sam James
2024-03-20 6:26 Sam James
2022-07-30 8:38 Sam James
2021-11-18 23:50 Georgy Yakovlev
This is a public inbox, see mirroring instructions
for how to clone and mirror all data and code used for this inbox