Dear Jan, thank you for your reply. I followed your suggestion and tried to use FFC instead of UFC and disabled petsc4py and slepc4py support for Dolfin.
Now I get some different errors, but this most likely means that the original error was caused either by petsc4py or slepc4py. Is it possible to get a list of dependencies (version numbers, for instance for petsc4py or slepc4py) that have been tested with fenics 1.5.0 and are known to result in a stable build ? Best regards Sam -- ETH Zurich, Dr. Samuel Fux High Performance Computing, Scientific IT Services WEC D 13, Weinbergstrasse 11, 8092 Zurich, Switzerland Phone +41 44 632 57 63, http://www.id.ethz.ch/ [email protected] ________________________________________ Von: Jan Blechta [[email protected]] Gesendet: Donnerstag, 23. April 2015 15:22 An: Fux Samuel (ID SIS) Cc: [email protected] Betreff: Re: [FEniCS-support] FEniCS 1.5.0 installation fails with strange error when building Dolfin 1.5.0 On Thu, 23 Apr 2015 12:44:56 +0000 "Fux Samuel (ID SIS)" <[email protected]> wrote: > Dear Jan, > > thank you very much for your reply. I tried to follow your first > suggestion to remove UFC 2.3.0 as you told me that it is no longer > used because it is now part of ffc. But then, when I try to compile > Dolfin, it is complaining about not finding UFC: > > CMake Error at CMakeLists.txt:322 (message): > Could not find a configuration file for package UFC that is > compatible with requested version 1.5.0. > > Set UFC_DIR to the directory containing a CMake configuration file > for UFC. Install FFC 1.5.0 to <prefix> and then configure DOLFIN 1.5.0 by cmake -DUFC_DIR:PATH=<prefix>/share/ufc <other args> <src dir> Jan > > Best regards > > Sam > > -- > ETH Zurich, Dr. Samuel Fux > High Performance Computing, Scientific IT Services > WEC D 13, Weinbergstrasse 11, 8092 Zurich, Switzerland > Phone +41 44 632 57 63, http://www.id.ethz.ch/ > [email protected] > > ________________________________________ > Von: Jan Blechta [[email protected]] > Gesendet: Montag, 20. April 2015 12:15 > An: Fux Samuel (ID SIS) > Cc: [email protected] > Betreff: Re: [FEniCS-support] FEniCS 1.5.0 installation fails with > strange error when building Dolfin 1.5.0 > > On Thu, 16 Apr 2015 13:56:46 +0000 > "Fux Samuel (ID SIS)" <[email protected]> wrote: > > > Dear FEniCS community, > > > > since a few days I am trying to install FEniCS 1.5.0 from source on > > a HPC cluster (CentOS 6.5, Intel Xeon CPU's). > > > > The dependencies were all installed from source: > > > > - GCC 4.8.2 > > - CMake 2.8.12 > > - Python 2.7.6 > > - Swig 3.0.5 > > - QT 4.8.4 > > - VTK 6.1.0 > > - szip 2.1 > > - hdf5 1.8.12 > > - BOOST 1.55.0 > > - Eigen 3.2.1 > > - ScientificPython 2.9.4 > > - numpy 1.9.2 > > - fiat 1.5.0 > > - instant 1.5.0 > > - ufl 1.5.0 > > - ffc 1.5.0 > > - ufc 2.3.0 > > Don't install this! UFC 2.3.0 is much more older, from the times when > version numbering scheme was different. Now, UFC is part of FFC. > > > - ply 3.4 > > - petsc 3.5.3 + petsc4py 3.5.1 > > - slepc 3.5.3 + slepc4py 3.5.1 > > > > On the FEniCS web page, it was indicated which dependencies FEniCS > > has, but not which versions of the dependencies work with FEniCS > > 1.5.0. > > > > When trying to finally install Dolfin, I disabled the parallel > > features and made sure that CMake finds all the dependencies. When > > starting the compilation everything looked good until I reached 96 > > %, then I got this strange error: > > > > [ 96%] Building CXX object > > dolfin/swig/modules/mesh/CMakeFiles/_mesh.dir/modulePYTHON_wrap.cxx.o > > cd > > /cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0/build/dolfin/swig/modules/mesh > > && /cluster/apps/gcc/4.8.2/bin/c++ -DBOOST_UBLAS_NDEBUG > > -DDOLFIN_GIT_COMMIT_HASH=\"\" -DDOLFIN_LA_INDEX_SIZE=4 > > -DDOLFIN_SIZE_T=8 -DDOLFIN_VERSION=\"1.5.0\" -DENABLE_PETSC_SNES > > -DENABLE_PETSC_TAO -DHAS_OPENMP -DHAS_PETSC -DHAS_PETSC4PY -DHAS_QT4 > > -DHAS_QVTK -DHAS_SLEPC -DHAS_SLEPC4PY -DHAS_VTK -DHAS_ZLIB > > -DNPY_NO_DEPRECATED_API=NPY_1_9_API_VERSION -DNUMPY_VERSION_MAJOR=1 > > -DNUMPY_VERSION_MICRO=2 -DNUMPY_VERSION_MINOR=9 -DQT_CORE_LIB > > -DQT_GUI_LIB -DQT_NO_DEBUG -D_mesh_EXPORTS > > -DvtkRenderingCore_AUTOINIT="4(vtkInteractionStyle,vtkRenderingFreeType,vtkRenderingFreeTypeOpenGL,vtkRenderingOpenGL)" > > -DvtkRenderingVolume_AUTOINIT="1(vtkRenderingVolumeOpenGL)" > > -std=c++11 -Wno-deprecated -fopenmp -O2 -g -DNDEBUG -fPIC > > -I/cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0/build > > -isystem /cluster/apps/qt/4.8.4/x86_64/lib64/qt/include > > -isystem /cluster/apps/qt/4.8.4/x86_64/lib64/qt/include/QtGui > > -isystem /cluster/apps/qt/4.8.4/x86_64/lib64/qt/include/QtCore > > -isystem /cluster/apps/vtk/6.1.0/x86_64/include/vtk-6.1 > > -isystem /usr/include/freetype2 > > -isystem /cluster/apps/python/2.7.6/x86_64/include/python2.7 > > -isystem /cluster/apps/netcdf/4.3.2/x86_64/gcc_4.8.2/serial/include > > -isystem /cluster/apps/hdf5/1.8.13/x86_64/gcc_4.8.2/serial/include > > -isystem /usr/include/libxml2 > > -I/cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0 > > -I/cluster/home/muelfabi/python/include > > -I/cluster/home/muelfabi/fenics/SLEPC/include > > -isystem /cluster/home/muelfabi/fenics/EIGEN3/include/eigen3 > > -isystem /cluster/apps/boost/1.55.0/x86_64/serial/gcc_4.8.2/include > > -isystem /cluster/home/muelfabi/fenics/PETSC/include > > -isystem /cluster/home/muelfabi/fenics/PETSC/include/mpiuni > > -I/cluster/home/muelfabi/python/lib64/python2.7/site-packages/numpy/core/include > > -I/cluster/home/muelfabi/python/lib64/python2.7/site-packages/petsc4py/include > > -I/cluster/home/muelfabi/python/lib64/python2.7/site-packages/slepc4py/include > > -o CMakeFiles/_mesh.dir/modulePYTHON_wrap.cxx.o > > -c > > /cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0/build/dolfin/swig/modules/mesh/modulePYTHON_wrap.cxx > > > > /cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0/build/dolfin/swig/modules/mesh/modulePYTHON_wrap.cxx: > > In function ât SWIG_AsVal_MPI_Comm(PyObject*, > > MPI_Comm*)â/cluster/home/muelfabfenics/SOURCES/dolfin-1.5.0/build/dolfin/swig/modules/mesh/modulePYTHON_wrap.cxx:4780:43: > > error: âSWIGTYPE_p_MPI_Commâas not declared in this scope int res > > = SWIG_ConvertPtr(input,&argp,SWIGTYPE_p_MPI_Comm, 0); > > ^ > > /cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0/build/dolfin/swig/modules/mesh/modulePYTHON_wrap.cxx:2959:37: > > note: in definition of macro âIG_ConvertPtrâ > > SWIG_convert_ptr(o, pptr, type, flags) ^ make[2]: *** > > [dolfin/swig/modules/mesh/CMakeFiles/_mesh.dir/modulePYTHON_wrap.cxx.o] > > Error 1 make[2]: Leaving directory > > `/cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0/build' make[1]: > > *** [dolfin/swig/modules/mesh/CMakeFiles/_mesh.dir/all] Error 2 > > make[1]: Leaving directory > > `/cluster/home/muelfabi/fenics/SOURCES/dolfin-1.5.0/build' make: *** > > [all] Error 2 > > > > There was a similar post in the FEniCS mailing list > > (http://fenicsproject.org/pipermail/fenics-support/2014-December/001026.html), > > but there the problem happened for Dolfin 1.4.0, and I could not > > really understand if the problem was solved or if the author of the > > thread gave up. > > You could start bisecting the problem by switching off petsc4py and > slepc4py support in DOLFIN. Configure with > > cmake -DDOLFIN_ENABLE_PETSC4PY:BOOL=OFF > -DDOLFIN_ENABLE_SLEPC4PY:BOOL=OFF <other args> dir > > Jan > > > > > Any help is appreciated. > > > > Best regards > > > > Samuel Fux > > > _______________________________________________ fenics-support mailing list [email protected] http://fenicsproject.org/mailman/listinfo/fenics-support
