| Summary: | [science overlay] sci-biology/subread-1.4.6 : fails to build with -fno-common or gcc-10 | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | Toralf Förster <toralf> |
| Component: | Current packages | Assignee: | Gentoo Science Related Packages <sci> |
| Status: | RESOLVED FIXED | ||
| Severity: | normal | CC: | sci-biology |
| Priority: | Normal | ||
| 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 logs.tbz2 sci-biology:subread-1.4.6:20201119-104739.log |
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Created attachment 673084 [details]
emerge-info.txt
Created attachment 673087 [details]
emerge-history.txt
Created attachment 673090 [details]
environment
Created attachment 673093 [details]
etc.portage.tbz2
Created attachment 673096 [details]
logs.tbz2
Created attachment 673099 [details]
sci-biology:subread-1.4.6:20201119-104739.log
The bug has been closed via the following commit(s): https://gitweb.gentoo.org/proj/sci.git/commit/?id=c2bedc8fe20d87568f4a7503474e355006693c1e commit c2bedc8fe20d87568f4a7503474e355006693c1e Author: Jakov Smolic <jakov.smolic@sartura.hr> AuthorDate: 2021-02-20 21:08:45 +0000 Commit: Jakov Smolic <jakov.smolic@sartura.hr> CommitDate: 2021-02-20 21:57:41 +0000 sci-biology/subread: Fix build with gcc-10 Closes: https://bugs.gentoo.org/755539 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr> sci-biology/subread/files/subread-2.0.1-fno-common.patch | 11 +++++++++++ sci-biology/subread/subread-2.0.1.ebuild | 13 ++++--------- 2 files changed, 15 insertions(+), 9 deletions(-) |
| ^~~~~~ readSummary.c:2707:7: warning: variable ‘curchr’ set but not used [-Wunused-but-set-variable] 2707 | long curchr, curpos; | ^~~~~~ /usr/lib/gcc/x86_64-pc-linux-gnu/10.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: core.o:/var/tmp/portage/sci-biology/subread-1.4.6/work/subread-1.4.6-source/src/gene-algorithms.h:63: multiple definition of `replica_index'; /var/tmp/portage/sci-biology/subread-1.4.6/temp/ccHgWVyy.o:/var/tmp/portage/sci-biology/subread-1.4.6/work/subread-1.4.6-source/src/gene-algorithms.h:63: first defined here /usr/lib/gcc/x86_64-pc-linux-gnu/10.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: core-junction.o:/var/tmp/portage/sci-biology/subread-1.4.6/work/subread-1.4.6-source/src/gene-algorithms.h:63: multiple definition of `replica_index'; /var/tmp/portage/sci-biology/subread-1.4.6/temp/ccHgWVyy.o:/var/tmp/portage/sci-biology/subread-1.4.6/work/subread-1.4.6-source/src/gene-algorithms.h:63: first defined here ------------------------------------------------------------------- This is an unstable amd64 chroot image at a tinderbox (==build bot) name: 17.1_no-multilib-libressl_science-20201116-220441 ------------------------------------------------------------------- gcc-config -l: [1] x86_64-pc-linux-gnu-10.2.0 * /usr/lib/llvm/11 11.0.0 Available Python interpreters, in order of preference: [1] python3.7 [2] python3.9 (fallback) [3] python3.8 (fallback) [4] python2.7 (fallback) The following VMs are available for generation-2: *) AdoptOpenJDK 8.272_p10 [openjdk-bin-8] Available Java Virtual Machines: [1] openjdk-bin-8 system-vm The Glorious Glasgow Haskell Compilation System, version 8.8.4 timestamp(s) of HEAD at this tinderbox image: /var/db/repos/gentoo Thu Nov 19 10:05:40 AM UTC 2020 /var/db/repos/libressl Sat Nov 7 03:06:11 PM UTC 2020 emerge -qpvO sci-biology/subread [ebuild N ] sci-biology/subread-1.4.6