[petsc-dev] libpetsc.so: undefined references

[Antonio T. sagitter]

Hi all.

In PETSc-3.16.0, the linker is not working because of these undefined 
references (see https://pastebin.com/izGTfmMp):

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to `operator 
delete(void*, unsigned long)'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to `__cxa_rethrow'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to 
`__gxx_personality_v0'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to `operator 
new(unsigned long)'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to 
`std::__throw_bad_alloc()'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to 
`std::terminate()'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to 
`std::__throw_bad_array_new_length()'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to `typeinfo 
for std::exception'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to 
`__cxa_begin_catch'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to 
`__cxa_end_catch'

/usr/bin/ld: x86_64/lib/libpetsc.so: undefined reference to 
`std::__throw_length_error(char const*)'

collect2: error: ld returned 1 exit status

There are also

$ ldd -r build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so'
Start: shell

	linux-vdso.so.1 (0x00007fffbf347000)

	libsuperlu.so.5.2 => /lib64/libsuperlu.so.5.2 (0x00007f00dad0c000)

	libflexiblas.so.3 => /lib64/libflexiblas.so.3 (0x00007f00da95a000)

	libcgns.so.4.2 => /lib64/libcgns.so.4.2 (0x00007f00da873000)

	libhdf5.so.103 => /lib64/libhdf5.so.103 (0x00007f00da4d8000)

	libm.so.6 => /lib64/libm.so.6 (0x00007f00da3f8000)

	libX11.so.6 => /lib64/libX11.so.6 (0x00007f00da2ae000)

	libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00007f00da294000)

	libc.so.6 => /lib64/libc.so.6 (0x00007f00da08b000)

	libgfortran.so.5 => /lib64/libgfortran.so.5 (0x00007f00d9dde000)

	libquadmath.so.0 => /lib64/libquadmath.so.0 (0x00007f00d9d94000)

	/lib64/ld-linux-x86-64.so.2 (0x00007f00dc18b000)

	libsz.so.2 => /lib64/libsz.so.2 (0x00007f00d9d8a000)

	libz.so.1 => /lib64/libz.so.1 (0x00007f00d9d6e000)

	libxcb.so.1 => /lib64/libxcb.so.1 (0x00007f00d9d43000)

	libXau.so.6 => /lib64/libXau.so.6 (0x00007f00d9d3d000)

undefined symbol: _ZTISt9exception 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: __gxx_personality_v0 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: _ZdlPvm 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: __cxa_rethrow 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: _Znwm 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: _ZSt17__throw_bad_allocv 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: _ZSt9terminatev 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: _ZSt28__throw_bad_array_new_lengthv 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: __cxa_begin_catch 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: __cxa_end_catch 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)

undefined symbol: _ZSt20__throw_length_errorPKc 
(build/BUILD/petsc-3.16.0/petsc-3.16.0/x86_64/lib/libpetsc.so)



I'm attaching configure.log and make.log

--
---
Antonio Trande
Fedora Project
mailto: sagitter at fedoraproject.org
GPG key: 0x29FBC85D7A51CC2F
GPG key server: https://keyserver1.pgp.com/
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