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

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

[Pacho Ramos]

commit:     e05b7e9c8008b6fd397138299117347806548c58
Author:     Pacho Ramos <pacho <AT> gentoo <DOT> org>
AuthorDate: Sat Aug  6 10:33:11 2016 +0000
Commit:     Pacho Ramos <pacho <AT> gentoo <DOT> org>
CommitDate: Sat Aug  6 10:33:11 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e05b7e9c

sci-biology/exonerate: Cleanup per bug #146900

Package-Manager: portage-2.3.0

 sci-biology/exonerate/metadata.xml | 4 ----
 1 file changed, 4 deletions(-)

diff --git a/sci-biology/exonerate/metadata.xml b/sci-biology/exonerate/metadata.xml
index d59f9d2..09b6a9e 100644
--- a/sci-biology/exonerate/metadata.xml
+++ b/sci-biology/exonerate/metadata.xml
@@ -1,10 +1,6 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-  <maintainer type="person">
-    <email>je_fro@gentoo.org</email>
-    <name>Jeff Gardner</name>
-  </maintainer>
   <maintainer type="project">
     <email>sci-biology@gentoo.org</email>
     <name>Gentoo Biology Project</name>

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

[Andrew Ammerlaan]

commit:     1efe4002add83573a9bb415d220c9718184b8edf
Author:     Michael Mair-Keimberger <mmk <AT> levelnine <DOT> at>
AuthorDate: Tue Aug  2 17:06:17 2022 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue Aug 23 12:06:11 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1efe4002

sci-biology/exonerate: 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/exonerate/exonerate-2.2.0-r3.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild b/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
index 73fa9eca83e5..20110bdb6f1c 100644
--- a/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
+++ b/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
@@ -7,7 +7,7 @@ inherit autotools toolchain-funcs
 
 DESCRIPTION="Generic tool for pairwise sequence comparison"
 HOMEPAGE="https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate"
-SRC_URI="http://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/${P}.tar.gz"
+SRC_URI="https://ftp.ebi.ac.uk/pub/software/vertebrategenomics/exonerate/${P}.tar.gz"
 
 LICENSE="GPL-3"
 SLOT="0"

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

[Sam James]

commit:     f90551a4ff3929b105533112036b88f82069c427
Author:     Eli Schwartz <eschwartz93 <AT> gmail <DOT> com>
AuthorDate: Thu Feb 29 02:12:25 2024 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Thu Feb 29 02:18:39 2024 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=f90551a4

sci-biology/exonerate: mark LTO-unsafe

Closes: https://bugs.gentoo.org/862264
Signed-off-by: Eli Schwartz <eschwartz93 <AT> gmail.com>
Signed-off-by: Sam James <sam <AT> gentoo.org>

 sci-biology/exonerate/exonerate-2.2.0-r3.ebuild | 9 +++++++--
 1 file changed, 7 insertions(+), 2 deletions(-)

diff --git a/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild b/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
index 20110bdb6f1c..9d7683b6dc4d 100644
--- a/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
+++ b/sci-biology/exonerate/exonerate-2.2.0-r3.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2022 Gentoo Authors
+# Copyright 1999-2024 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=8
 
-inherit autotools toolchain-funcs
+inherit autotools flag-o-matic toolchain-funcs
 
 DESCRIPTION="Generic tool for pairwise sequence comparison"
 HOMEPAGE="https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate"
@@ -27,6 +27,11 @@ src_prepare() {
 }
 
 src_configure() {
+	# -Werror=lto-type-mismatch
+	# https://bugs.gentoo.org/862264
+	# Upstream doesn't use a bug tracker, so I fired them an email about it. -- Eli
+	filter-lto
+
 	# the bootstrapping code loads AR and CC from the environment
 	tc-export CC RANLIB
 	export C4_AR="$(tc-getAR)"