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Bug 708064 - sci-biology/ucsc-genome-browser-260-r1 : fails to build with -fno-common or gcc-10
Summary: sci-biology/ucsc-genome-browser-260-r1 : fails to build with -fno-common or g...
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: 2020-02-03 18:51 UTC by Toralf Förster
Modified: 2020-02-03 18:52 UTC (History)
0 users

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


Attachments
emerge-info.txt (emerge-info.txt,15.76 KB, text/plain)
2020-02-03 18:51 UTC, Toralf Förster
Details
emerge-history.txt (emerge-history.txt,49.94 KB, text/plain)
2020-02-03 18:51 UTC, Toralf Förster
Details
environment (environment,107.78 KB, text/plain)
2020-02-03 18:51 UTC, Toralf Förster
Details
etc.portage.tbz2 (etc.portage.tbz2,12.26 KB, application/x-bzip)
2020-02-03 18:51 UTC, Toralf Förster
Details
logs.tbz2 (logs.tbz2,19.11 KB, application/x-bzip)
2020-02-03 18:52 UTC, Toralf Förster
Details
sci-biology:ucsc-genome-browser-260-r1:20200203-165901.log (sci-biology:ucsc-genome-browser-260-r1:20200203-165901.log,278.25 KB, text/plain)
2020-02-03 18:52 UTC, Toralf Förster
Details
temp.tbz2 (temp.tbz2,45.18 KB, application/x-bzip)
2020-02-03 18:52 UTC, Toralf Förster
Details

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Description Toralf Förster gentoo-dev 2020-02-03 18:51:46 UTC
cd webBlat && make
make[1]: Entering directory '/var/tmp/portage/sci-biology/ucsc-genome-browser-260-r1/work/kent/src/webBlat'
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -O2 -pipe -march=native -fno-common -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_GNU_SOURCE -DMACHTYPE_x86_64 -DUSE_SSL -DCOLOR32   -Wall -Wformat -Wimplicit -Wreturn-type -Wuninitialized -I../inc -I../../inc -I../../../inc -I../../../../inc -I../../../../../inc   -o webBlat.o -c webBlat.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -Wl,-O1 -Wl,--as-needed -o webBlat webBlat.o ../lib/x86_64/jkOwnLib.a ../lib/x86_64/jkweb.a -pthread -lssl -lcrypto -lpng -lm 
/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ../lib/x86_64/jkweb.a(htmshell.o):(.bss+0x20): multiple definition of `htmlRecover'; webBlat.o:(.bss+0x20): first defined here
/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ../lib/x86_64/jkweb.a(portimpl.o):(.bss+0x0): multiple definition of `htmlRecover'; webBlat.o:(.bss+0x20): first defined here

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

  This is an unstable amd64 chroot image at a tinderbox (==build bot)
  name: 17.1_desktop_plasma_systemd-20200202-055736

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

  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]   python3.6
  [3]   python3.7 (fallback)
  [4]   python2.7 (fallback)
Available Ruby profiles:
  [1]   ruby24 (with Rubygems)
  [2]   ruby25 (with Rubygems) *

java-config:
The following VMs are available for generation-2:
*)	IcedTea JDK 3.14.0 [icedtea-bin-8]
Available Java Virtual Machines:
  [1]   icedtea-bin-8  system-vm
ghc:
The Glorious Glasgow Haskell Compilation System, version 7.10.3

repository:
==> /var/db/repos/gentoo/metadata/timestamp.chk <==
Mon, 03 Feb 2020 15:47:01 +0000

emerge -qpvO sci-biology/ucsc-genome-browser
[ebuild  N    ] sci-biology/ucsc-genome-browser-260-r1  USE="mysql server -static-libs -vhosts"
Comment 1 Toralf Förster gentoo-dev 2020-02-03 18:51:49 UTC
Created attachment 611464 [details]
emerge-info.txt
Comment 2 Toralf Förster gentoo-dev 2020-02-03 18:51:52 UTC
Created attachment 611466 [details]
emerge-history.txt
Comment 3 Toralf Förster gentoo-dev 2020-02-03 18:51:54 UTC
Created attachment 611468 [details]
environment
Comment 4 Toralf Förster gentoo-dev 2020-02-03 18:51:57 UTC
Created attachment 611470 [details]
etc.portage.tbz2
Comment 5 Toralf Förster gentoo-dev 2020-02-03 18:52:00 UTC
Created attachment 611472 [details]
logs.tbz2
Comment 6 Toralf Förster gentoo-dev 2020-02-03 18:52:03 UTC
Created attachment 611474 [details]
sci-biology:ucsc-genome-browser-260-r1:20200203-165901.log
Comment 7 Toralf Förster gentoo-dev 2020-02-03 18:52:06 UTC
Created attachment 611476 [details]
temp.tbz2