In file included from Param.h:37, from Prediction.h:32, from DAG.h:26, from EuGene.cc:58: ./getopt.h:104:12: error: conflicting declaration of C function 'int getopt()' 104 | extern int getopt (); | ^~~~~~ ------------------------------------------------------------------- This is an unstable amd64 chroot image at a tinderbox (==build bot) name: 17.0_musl_hardened-j4-20211222-090216 ------------------------------------------------------------------- gcc-config -l: [1] x86_64-gentoo-linux-musl-11.2.1 * Python 3.9.9 Available Ruby profiles: [1] ruby26 (with Rubygems) [2] ruby27 (with Rubygems) [3] ruby30 (with Rubygems) * Available Rust versions: [1] rust-1.57.0 * php cli: HEAD of ::gentoo commit 9c27863fff98482ca59f52ef0bb0d69af4a435d0 Author: Repository mirror & CI <repomirrorci@gentoo.org> Date: Wed Dec 22 14:51:39 2021 +0000 2021-12-22 14:51:38 UTC emerge -qpvO sci-biology/eugene [ebuild N ] sci-biology/eugene-4.1d
Created attachment 760078 [details] emerge-info.txt
Created attachment 760079 [details] emerge-history.txt
Created attachment 760080 [details] environment
Created attachment 760081 [details] etc.portage.tar.bz2
Created attachment 760082 [details] logs.tar.bz2
Created attachment 760083 [details] sci-biology:eugene-4.1d:20211222-152522.log
Created attachment 760084 [details] temp.tar.bz2
The bug has been closed via the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=25a6332f19e64bb862a5543f7453629781b511ce commit 25a6332f19e64bb862a5543f7453629781b511ce Author: David Seifert <soap@gentoo.org> AuthorDate: 2022-07-07 19:56:53 +0000 Commit: David Seifert <soap@gentoo.org> CommitDate: 2022-07-07 19:56:53 +0000 sci-biology/eugene: update EAPI 6 -> 8 Closes: https://bugs.gentoo.org/829816 Signed-off-by: David Seifert <soap@gentoo.org> .../{eugene-4.1d.ebuild => eugene-4.1d-r1.ebuild} | 13 ++-- sci-biology/eugene/files/eugene-3.6-plugins.patch | 58 ++++++++++------- .../eugene/files/eugene-4.1d-portable-getopt.patch | 74 ++++++++++++++++++++++ 3 files changed, 114 insertions(+), 31 deletions(-)