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Bug 707842 - sci-biology/seaview-4.6 : fails to build with -fno-common or gcc-10
Summary: sci-biology/seaview-4.6 : fails to build with -fno-common or gcc-10
Status: CONFIRMED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal (vote)
Assignee: Gentoo Science Biology related packages
URL:
Whiteboard:
Keywords:
Depends on:
Blocks: -fno-common
  Show dependency tree
 
Reported: 2020-02-02 04:11 UTC by Toralf Förster
Modified: 2020-02-02 04:12 UTC (History)
0 users

See Also:
Package list:
Runtime testing required: ---


Attachments
emerge-info.txt (emerge-info.txt,17.17 KB, text/plain)
2020-02-02 04:11 UTC, Toralf Förster
Details
emerge-history.txt (emerge-history.txt,237.10 KB, text/plain)
2020-02-02 04:11 UTC, Toralf Förster
Details
environment (environment,78.97 KB, text/plain)
2020-02-02 04:11 UTC, Toralf Förster
Details
etc.portage.tbz2 (etc.portage.tbz2,20.53 KB, application/x-bzip)
2020-02-02 04:11 UTC, Toralf Förster
Details
sci-biology:seaview-4.6:20200201-230151.log (sci-biology:seaview-4.6:20200201-230151.log,25.32 KB, text/plain)
2020-02-02 04:11 UTC, Toralf Förster
Details
temp.tbz2 (temp.tbz2,22.17 KB, application/x-bzip)
2020-02-02 04:12 UTC, Toralf Förster
Details

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Description Toralf Förster gentoo-dev 2020-02-02 04:11:41 UTC
csrc/phyml_util.c:47:2: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result]
   47 |  fscanf(stdin,"%c",&c);
      |  ^~~~~~~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-g++ -o seaview  -Wl,-O1 -Wl,--as-needed seaview.o custom.o use_mase_files.o regions.o load_seq.o align.o xfmatpt.o comlines.o resource.o nexus.o viewasprots.o racnuc_fetch.o concatenate.o statistics.o trees.o treedraw.o addbootstrap.o least_squares_brl.o pseudoterminal.o unrooted.o pdf_or_ps.o svg.o threads.o Fl_Native_File_Chooser_FLTK.o raa_acnuc.o parser.o md5.o zsockr.o misc_acnuc.o dnapars.o protpars.o seq.o phylip.o lwl.o bionj.o phyml_util.o  `fltk-config --use-images --ldflags` -ldl -lpthread -lz 
/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: dnapars.o:(.bss+0x0): multiple definition of `progname'; seaview.o:(.data.rel.local+0x0): first defined here
/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: protpars.o:(.bss+0x2420): multiple definition of `chars'; dnapars.o:(.bss+0x20d0): first defined here

  -------------------------------------------------------------------

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_hardened-libressl_test-20200126-104546

  -------------------------------------------------------------------

  Please see the tracker bug for details.

gcc-config -l:
 [1] x86_64-pc-linux-gnu-9.2.0 *

clang:
clang version 9.0.1 
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/lib/llvm/9/bin
llvm:
9.0.1
Available Python interpreters, in order of preference:
  [1]   python3.8
  [2]   python3.7
  [3]   python3.6
  [4]   python2.7 (fallback)
  [5]   pypy3 (fallback)

Available Rust versions:
  [1]   rust-1.40.0 *
java-config:
The following VMs are available for generation-2:
*)	AdoptOpenJDK JRE 8.242_p08 [openjdk-jre-bin-8]
Available Java Virtual Machines:
  [1]   openjdk-jre-bin-8  system-vm
ghc:
The Glorious Glasgow Haskell Compilation System, version 8.0.2

repository:
==> /var/db/repos/gentoo/metadata/timestamp.chk <==
Sat, 01 Feb 2020 21:29:19 +0000

emerge -qpvO sci-biology/seaview
[ebuild  N    ] sci-biology/seaview-4.6  USE="xft"
Comment 1 Toralf Förster gentoo-dev 2020-02-02 04:11:44 UTC
Created attachment 610754 [details]
emerge-info.txt
Comment 2 Toralf Förster gentoo-dev 2020-02-02 04:11:47 UTC
Created attachment 610756 [details]
emerge-history.txt
Comment 3 Toralf Förster gentoo-dev 2020-02-02 04:11:50 UTC
Created attachment 610758 [details]
environment
Comment 4 Toralf Förster gentoo-dev 2020-02-02 04:11:53 UTC
Created attachment 610760 [details]
etc.portage.tbz2
Comment 5 Toralf Förster gentoo-dev 2020-02-02 04:11:56 UTC
Created attachment 610762 [details]
sci-biology:seaview-4.6:20200201-230151.log
Comment 6 Toralf Förster gentoo-dev 2020-02-02 04:12:00 UTC
Created attachment 610764 [details]
temp.tbz2