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Gentoo's Bugzilla – Attachment 607164 Details for
Bug 707008
sci-biology/dialign-tx-1.0.2-r2 : fails to build with -fno-common or gcc-10
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sci-biology:dialign-tx-1.0.2-r2:20200128-192830.log
sci-biology:dialign-tx-1.0.2-r2:20200128-192830.log (text/plain), 4.72 KB, created by
Toralf Förster
on 2020-01-28 19:38:36 UTC
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Description:
sci-biology:dialign-tx-1.0.2-r2:20200128-192830.log
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Creator:
Toralf Förster
Created:
2020-01-28 19:38:36 UTC
Size:
4.72 KB
patch
obsolete
> * Package: sci-biology/dialign-tx-1.0.2-r2 > * Repository: gentoo > * Maintainer: sci-biology@gentoo.org > * USE: abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU > * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox >>>> Unpacking source... >>>> Unpacking DIALIGN-TX_1.0.2.tar.gz to /var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work >>>> Source unpacked in /var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work >>>> Preparing source in /var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2 ... > * Applying dialign-tx-1.0.2-fix-build-system.patch ... > [ ok ] > * Applying dialign-tx-1.0.2-implicits.patch ... > [ ok ] > * Applying dialign-tx-1.0.2-modernize.patch ... > [ ok ] > * Applying dialign-tx-1.0.2-gnu89-inline.patch ... > [ ok ] >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2 ... >>>> Source configured. >>>> Compiling source in /var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2 ... >make -j1 -C source clean >make: Entering directory '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2/source' >rm -rf *.o *rtl *jump *addre* *cfg *life *reg *reload *flow* *stack museq dialign-tx >make: Leaving directory '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2/source' >make -j1 -C source >make: Entering directory '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2/source' >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o museq.o museq.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o parameters.o parameters.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o io.o io.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o diag.o diag.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o alig.o alig.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o assemble.o assemble.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o prob.o prob.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o orf.o orf.c >x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -c -o translate.o translate.c >rm -f ./museq >x86_64-pc-linux-gnu-gcc -Wl,-O1 -Wl,--as-needed -o ./museq \ >./museq.o ./parameters.o ./io.o ./diag.o ./alig.o ./assemble.o ./prob.o ./orf.o ./translate.o \ >-pipe -Wall -lm >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./parameters.o:(.bss+0x0): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./io.o:(.bss+0x0): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./diag.o:(.bss+0x0): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./alig.o:(.bss+0x8): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./assemble.o:(.bss+0x0): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./prob.o:(.bss+0x0): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./orf.o:(.bss+0x0): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: ./translate.o:(.bss+0x0): multiple definition of `para'; ./museq.o:(.bss+0x0): first defined here >collect2: error: ld returned 1 exit status >make: *** [Makefile:34: museq] Error 1 >make: Leaving directory '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2/source' > * ERROR: sci-biology/dialign-tx-1.0.2-r2::gentoo failed (compile phase): > * emake failed > * > * If you need support, post the output of `emerge --info '=sci-biology/dialign-tx-1.0.2-r2::gentoo'`, > * the complete build log and the output of `emerge -pqv '=sci-biology/dialign-tx-1.0.2-r2::gentoo'`. > * The complete build log is located at '/var/log/portage/sci-biology:dialign-tx-1.0.2-r2:20200128-192830.log'. > * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/temp/build.log'. > * The ebuild environment file is located at '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/temp/environment'. > * Working directory: '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2' > * S: '/var/tmp/portage/sci-biology/dialign-tx-1.0.2-r2/work/DIALIGN-TX_1.0.2'
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