undefined reference to `void costa::transform<float>(std::__1::vector<std::__1:: ...

[yurivict]

Build fails:

FAILED: miniapp/layout_miniapp 
: && /usr/local/libexec/ccache/c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing   -DNDEBUG -fstack-protector-strong     -Wl,-rpath=-Wl,-rpath=/usr/local/lib/gcc13 -Wl,-rpath -Wl,/usr/local/mpi/openmpi/lib -Wl,--enable-new-dtags -pthread miniapp/CMakeFiles/layout_miniapp.dir/layout_miniapp.cpp.o -o miniapp/layout_miniapp  -Wl,-rpath,/usr/ports/math/cosma/work/.build/src/cosma:/usr/local/lib:/usr/local/mpi/openmpi/lib:  src/cosma/libcosma.so  /usr/local/lib/libcosta.so  /usr/local/mpi/openmpi/lib/libmpi_cxx.so  /usr/local/mpi/openmpi/lib/libmpi.so  /usr/lib/libomp.so  /usr/local/lib/libopenblas.so && :
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: warning: libmpi.so.12, needed by /usr/local/lib/libcosta.so, may conflict with libmpi.so.40
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<double>(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<double> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<double> > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<double> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<double> > > >&, char const*, double const*, double const*, ompi_communicator_t*)'
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<double>(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<double> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<double> > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<double> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<double> > > >&, ompi_communicator_t*)'
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<std::__1::complex<double> >(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > > > >&, ompi_communicator_t*)'
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<std::__1::complex<float> >(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > > > >&, char const*, std::__1::complex<float> const*, std::__1::complex<float> const*, ompi_communicator_t*)'
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<std::__1::complex<float> >(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<float> > > > >&, ompi_communicator_t*)'
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<std::__1::complex<double> >(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<std::__1::complex<double> > > > >&, char const*, std::__1::complex<double> const*, std::__1::complex<double> const*, ompi_communicator_t*)'
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<float>(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<float> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<float> > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<float> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<float> > > >&, ompi_communicator_t*)'
/usr/local/bin/x86_64-unknown-freebsd14.0-ld: src/cosma/libcosma.so: undefined reference to `void costa::transform<float>(std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<float> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<float> > > >&, std::__1::vector<std::__1::reference_wrapper<costa::grid_layout<float> >, std::__1::allocator<std::__1::reference_wrapper<costa::grid_layout<float> > > >&, char const*, float const*, float const*, ompi_communicator_t*)'
c++: error: linker command failed with exit code 1 (use -v to see invocation)

Version: 2.6.6
costa-2.2.2
clang-17
FreeBSD 14.0

[simonpintarelli]

Why is cosma compiled with GCC while clang is used for costa?

/usr/local/bin/x86_64-unknown-freebsd14.0-ld: warning: libmpi.so.12, needed by /usr/local/lib/libcosta.so, may conflict with libmpi.so.40

MPI implementations shouldn't be mixed here.

Iirc you are packaging CP2K on FreeBSD. Cosma is an optional dependency. It is used on HPC systems to optimize communication in distributed (very large) matrix-matrix multiplications. I very much doubt it brings any improvement to a workstation use case. You might want to consider simplify the package and build CP2K without cosma.
If you build CP2K with SIRIUS, which adds the possibility to run plane-wave DFT, COSTA will be required for SIRIUS though.

[yurivict]

No, it's not compiled with gcc. The link path containing gcc doesn't mean that it is compiled by gcc.

I got this error while trying to update the FreeBSD port to the new version.
This port is currently not used, but it is intended to be used by sirius and cp2k.

[simonpintarelli]

There is the warning about different mpi soname.
All undefined references expect ompi_communicator_t.
Can you please compile costa and cosma using the same MPI library?

What does nm -DC libcosta.so show?

Otherwise I can't explain the missing symbol. All of the above symbols are explicitly instantiated in https://github.com/eth-cscs/COSTA/blob/master/src/costa/grid2grid/transform.cpp#L294, while transform.hpp contains just a template on the number type.