Matthew, I don't know if the missing references are due to missing components in your gmsh installation (but I wouldn't be surprised). In any way, *"netgen, tetgen and blas support has to be enabled in Gmsh" * relates to CMake options when building gmsh from source, e.g., https://gmsh.info/src/gmsh-4.10.5-source.tgz. I would try if building gmsh yourself with those dependencies/options resolves the issue.
Best, Daniel On Thu, Sep 8, 2022 at 9:48 AM Matthew Rich <mjric...@gmail.com> wrote: > Hi all, > > I was upgrading the 9.4 and I needed to include GMSH for a project I am > working on so I can use the API in my dealii code. I am getting the > following error despite getting the all clear from CMAKE. How can I fix > this , are there version limits on GMSH? I did notice this line* "netgen, > tetgen and blas support has to be enabled in Gmsh" *How does one ensure > that? I do not see much in their github readme. > > *Some details- * > On a windows system running dealii in WSL2 under debian. I have built gmsh > from source and it is functional by itself, so I feel I did that part > right. I have -DGMSH_DIR set to the root directory of my gmsh installation > so ~/gmsh-gmsh-4.10.5 cmake settings when I install dealii > > *make Error * > [ 75%] Linking CXX executable ../bin/step_3_mixed.debug > ../lib/libdeal_II.g.so.9.4.0: error: undefined reference to > 'gmsh::model::addPhysicalGroup(int, std::vector<int, std::allocator<int> > > const&, int)' > ../lib/libdeal_II.g.so.9.4.0: error: undefined reference to > 'gmsh::model::mesh::removeDuplicateNodes()' > ../lib/libdeal_II.g.so.9.4.0: error: undefined reference to > 'gmsh::initialize(int, char**, bool)' > collect2: error: ld returned 1 exit status > make[2]: *** [examples/CMakeFiles/step_3_mixed.debug.dir/build.make:292: > bin/step_3_mixed.debug] Error 1 > make[1]: *** [CMakeFiles/Makefile2:3926: > examples/CMakeFiles/step_3_mixed.debug.dir/all] Error 2 > make: *** [Makefile:149: all] Error 2 > > *CMAKE output * > > # Configured Features (DEAL_II_ALLOW_BUNDLED = ON, > DEAL_II_ALLOW_AUTODETECTION = ON): > # ( DEAL_II_WITH_64BIT_INDICES = OFF ) > # ( DEAL_II_WITH_ADOLC = OFF ) > # ( DEAL_II_WITH_ARBORX = OFF ) > # DEAL_II_WITH_ARPACK set up with external dependencies > # DEAL_II_WITH_ASSIMP set up with external dependencies > # DEAL_II_WITH_BOOST set up with external dependencies > # ( DEAL_II_WITH_CGAL = OFF ) > # DEAL_II_WITH_COMPLEX_VALUES = ON > # ( DEAL_II_WITH_CUDA = OFF ) > # ( DEAL_II_WITH_GINKGO = OFF ) > # DEAL_II_WITH_GMSH set up with external dependencies > # DEAL_II_WITH_GSL set up with external dependencies > # DEAL_II_WITH_HDF5 set up with external dependencies > # DEAL_II_WITH_KOKKOS set up with external dependencies > # DEAL_II_WITH_LAPACK set up with external dependencies > # DEAL_II_WITH_METIS set up with external dependencies > # DEAL_II_WITH_MPI set up with external dependencies > # DEAL_II_WITH_MUPARSER set up with external dependencies > # DEAL_II_WITH_OPENCASCADE set up with external dependencies > # DEAL_II_WITH_P4EST set up with external dependencies > # DEAL_II_WITH_PETSC set up with external dependencies > # DEAL_II_WITH_SCALAPACK set up with external dependencies > # DEAL_II_WITH_SLEPC set up with external dependencies > # ( DEAL_II_WITH_SUNDIALS = OFF ) > # ( DEAL_II_WITH_SYMENGINE = OFF ) > # DEAL_II_WITH_TBB set up with external dependencies > # DEAL_II_WITH_TRILINOS set up with external dependencies > # DEAL_II_WITH_UMFPACK set up with external dependencies > # DEAL_II_WITH_ZLIB set up with external dependencies > # > # Component configuration: > # ( DEAL_II_COMPONENT_DOCUMENTATION = OFF ) > # DEAL_II_COMPONENT_EXAMPLES > # ( DEAL_II_COMPONENT_PACKAGE = OFF ) > # ( DEAL_II_COMPONENT_PYTHON_BINDINGS = OFF ) > # > # Detailed information (compiler flags, feature configuration) can be > found in detailed.log > # > # Run $ make info to print a help message with a list of top level > targets > # > ### > -- Configuring done > -- Generating done > -- Build files have been written to: /home/mjrich/dealii-9.4.0/build > > > -- > The deal.II project is located at http://www.dealii.org/ > For mailing list/forum options, see > https://groups.google.com/d/forum/dealii?hl=en > --- > You received this message because you are subscribed to the Google Groups > "deal.II User Group" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to dealii+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/dealii/82a12172-3189-410c-9fbc-4e050b81dd2cn%40googlegroups.com > <https://groups.google.com/d/msgid/dealii/82a12172-3189-410c-9fbc-4e050b81dd2cn%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- The deal.II project is located at http://www.dealii.org/ For mailing list/forum options, see https://groups.google.com/d/forum/dealii?hl=en --- You received this message because you are subscribed to the Google Groups "deal.II User Group" group. To unsubscribe from this group and stop receiving emails from it, send an email to dealii+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/dealii/CAOYDWb%2Bp96sysSNZrg%3DzvNf-HJDXjDp%3DuT5K-EEfngpa9a1ZDQ%40mail.gmail.com.
