| Summary: | sci-biology/paml-4.4c-r1 : fails to build with -fno-common or gcc-10 | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | Toralf Förster <toralf> |
| Component: | Current packages | Assignee: | Gentoo Science Biology related packages <sci-biology> |
| Status: | RESOLVED FIXED | ||
| Severity: | normal | CC: | sam |
| Priority: | Normal | Keywords: | PATCH |
| Version: | unspecified | ||
| Hardware: | All | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Package list: | Runtime testing required: | --- | |
| Bug Depends on: | |||
| Bug Blocks: | 705764 | ||
| Attachments: |
emerge-info.txt
emerge-history.txt environment etc.portage.tbz2 sci-biology:paml-4.4c-r1:20200127-132215.log temp.tbz2 |
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Created attachment 605484 [details]
emerge-info.txt
Created attachment 605486 [details]
emerge-history.txt
Created attachment 605488 [details]
environment
Created attachment 605490 [details]
etc.portage.tbz2
Created attachment 605492 [details]
sci-biology:paml-4.4c-r1:20200127-132215.log
Created attachment 605494 [details]
temp.tbz2
paml 4.9 has a patch, anyway: https://sources.debian.org/patches/paml/4.9j+dfsg-3/gcc10.patch/ The bug has been closed via the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=5e71680b7a85431b46e92a2bb86e9f0507fcee3e commit 5e71680b7a85431b46e92a2bb86e9f0507fcee3e Author: David Seifert <soap@gentoo.org> AuthorDate: 2020-11-01 18:35:56 +0000 Commit: David Seifert <soap@gentoo.org> CommitDate: 2020-11-01 18:35:56 +0000 sci-biology/paml: Remove old 4.4c-r1 Closes: https://bugs.gentoo.org/706708 Package-Manager: Portage-3.0.8, Repoman-3.0.2 Signed-off-by: David Seifert <soap@gentoo.org> sci-biology/paml/Manifest | 1 - sci-biology/paml/paml-4.4c-r1.ebuild | 47 ------------------------------------ 2 files changed, 48 deletions(-) Additionally, it has been referenced in the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=9d4c4862d17a28af87e503a3f30b866efd544aad commit 9d4c4862d17a28af87e503a3f30b866efd544aad Author: David Seifert <soap@gentoo.org> AuthorDate: 2020-11-01 18:35:53 +0000 Commit: David Seifert <soap@gentoo.org> CommitDate: 2020-11-01 18:35:53 +0000 sci-biology/paml: Version bump to 4.9j Bug: https://bugs.gentoo.org/706708 Package-Manager: Portage-3.0.8, Repoman-3.0.2 Signed-off-by: David Seifert <soap@gentoo.org> sci-biology/paml/Manifest | 1 + sci-biology/paml/files/paml-4.9j-fno-common.patch | 14 ++++++++ sci-biology/paml/files/paml-4.9j-makefile.patch | 42 ++++++++++++++++++++++ sci-biology/paml/paml-4.9j.ebuild | 43 +++++++++++++++++++++++ 4 files changed, 100 insertions(+) |
In file included from baseml.c:11: paml.h:122:45: note: expected ‘char **’ but argument is of type ‘unsigned char **’ 122 | int printsma(FILE*fout, char*spname[], char*z[], | ~~~~~^~~ /usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: /var/tmp/portage/sci-biology/paml-4.4c-r1/temp/ccu2aJRy.o:(.bss+0x4540): multiple definition of `OutTreeOptions'; /var/tmp/portage/sci-biology/paml-4.4c-r1/temp/ccr1nFqz.o:(.bss+0x32ed870): first defined here /usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: /var/tmp/portage/sci-biology/paml-4.4c-r1/temp/ccu2aJRy.o:(.bss+0x4544): multiple definition of `DataTypes'; /var/tmp/portage/sci-biology/paml-4.4c-r1/temp/ccr1nFqz.o:(.bss+0x32ed874): first defined here ------------------------------------------------------------------- This is an unstable amd64 chroot image at a tinderbox (==build bot) name: 17.1_no-multilib-20200124-204141 ------------------------------------------------------------------- Please see the tracker bug for details. gcc-config -l: [1] x86_64-pc-linux-gnu-9.2.0 * llvm: 9.0.1 Available Python interpreters, in order of preference: [1] python3.8 [2] python3.7 [3] python3.6 [4] python2.7 (fallback) Available Ruby profiles: [1] ruby24 (with Rubygems) [2] ruby25 (with Rubygems) * Available Rust versions: [1] rust-1.40.0 * repository: ==> /var/db/repos/gentoo/metadata/timestamp.chk <== Mon, 27 Jan 2020 13:06:21 +0000 emerge -qpvO sci-biology/paml [ebuild N ] sci-biology/paml-4.4c-r1