Wolfgang:
I installed:
sudo apt-get install libpetsc
sudo apt-get install petsc*
and
sudo apt-get install libopenlib
sudo apt-get install openlib*
I did not remove mpich since I assume since dealii was so specific in
requiring the path info it shouldn't matter.
MPIhello world works ok.
gcc MPI-hello.c -I/usr/lib/openmpi/include /usr/lib/openmpi/lib/libmpi.so
-o MPI-hello
./MPI-hello
Hello world from processor Ubuntu3, rank 0 out of 1 processors
I also have 7 questions relevant to future attempts at solving this
problem. They are numbered below...
I ensured all the petsc and openmpi files as listed above were installed. I
think they
probably were before to since the rest of the tests are the same. 1) Are
there any others
required that you know of?
Expand dealii-8.4.1.tar.gz to dealii-8.4.1-PETSc
cd /dealii-8.4.1-PETSc
mkdir build
cd build
cmake -DCMAKE_INSTALL_PREFIX=/home/pgriffin/mylibs/dealii-8.4.1-PETSc
-DDEAL_II_WITH_MPI=ON -DDEAL_II_WITH_PETSC=ON ../
make -j8 install
This seemed to go O.K. as always for the non-compiled version. Screen
config results are attached in DealiiConfigWithPETScOpenmpi.txt.
then
make test
I again as before got the following error (below) when running the dealii
tests:
===============< The dealii test error >========================
The results of the test are:
0% tests passed, 6 tests failed out of 6
Total Test time (real) = 92.47 sec
The following tests FAILED:
1 - step.debug (Failed)
2 - step.release (Failed)
3 - affinity.debug (Failed)
4 - mpi.debug (Failed)
5 - tbb.debug (Failed)
6 - step-petsc.debug (Failed)
Errors while running CTest
all of the errors are of the form:
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_list_item_t_class'
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_class_initialize'
CMakeFiles/Makefile2:3506: recipe for target
'tests/quick_tests/CMakeFiles/step-petsc.debug.dir/all' failed
CMakeFiles/Makefile2:3545: recipe for target
'tests/quick_tests/CMakeFiles/step-petsc.debug.run.dir/rule' failed
Complete screen results for test error in attached file
DealiiTestWithPETScOpenmpi.txt.
2) Is this problem a dealii issue or should I contact petsc and/or openmpi
development team, if mpich doesn't work.
============================================================================================
I saw another person had the same error under UBUNTU 16.04 used mpich and
was successful.
But as I said dealii refuses to find mpich and only sees openmpi.
I tried to override using:
cmake -DCMAKE_INSTALL_PREFIX=/home/pgriffin/mylibs/dealii-8.4.1-PETSc
-DMPI_DIR=/usr/lib/mpich -DMPI_ARCH=x86_64 -DDEAL_II_WITH_MPI=ON
-DDEAL_II_WITH_PETSC=ON ../
3) Is this was the correct syntax to select an alternate MPI lib. My
interpretation of the documentation is yes.
I next attempted to remove openmpi but that also removed petsc-dev, Why I
don't know they
can certainly be loaded separately but adding petsc-dev brought back
openmpi.
4) I don't even know if petsc-dev... will work with mpich do you?
5) Is -DMPI_DIR=/usr/lib/mpich the correct way to select an alternate MPI
library?
6) If it isn't correct and I still cannot remove openmpi without removing petsc
do you think could rename the openmpi directory?
7) In general after installing or removing a package is a reboot required?
I have never encountered a need in the past so I didn't.
Again In all cases I remove the entire dealii directory and unpack the
dealii-8.4.1.tar.gz file again, etc...
Thanks again!
Pete Griffin
On Sunday, July 10, 2016 at 10:54:54 PM UTC-4, Pete Griffin wrote:
>
> I am trying to get PETSc running with dealii-8.4.1. (on Ubuntu 16.04)
> Reading the documentation it looks
> like I don't need to have MPI. (???) I downloaded petsc-3.6.4 and most
> recently compiled it with:
>
> ./configure --with-cc=gcc --with-cxx=g++ --with-fc=gfortran
> --download-fblaslapack --with-mpi=0
>
> This resulted in the following being created in
> petsc-3.6.4/arch-linux2-c-debug:
>
> ls -R lib
>
> lib:
> libfblas.a libflapack.a libpetsc.so libpetsc.so.3.6 libpetsc.so.3.6.4
> petsc pkgconfig
>
> lib/petsc:
> conf
>
> lib/petsc/conf:
> configure.log error.log files make.log PETScConfig.cmake
> petscvariables reconfigure-arch-linux2-c-debug.py
> configure.log.bkp fblaslapack gmake.log modules petscrules
> RDict.db test.log
>
> lib/petsc/conf/modules:
> petsc
>
> lib/petsc/conf/modules/petsc:
> 3.6.4
>
> lib/pkgconfig:
> PETSc.pc
>
> and
>
> ls -R include/
>
> include/:
> mpi.mod petscdef.mod petscdm.mod petscksp.mod
> petscpcdef.mod petscsys.mod
> petscaodef.mod petscdmcomposite.mod petscfix.h
> petscmachineinfo.h petscpc.mod petsctsdef.mod
> petscao.mod petscdmdadef.mod petscisdef.mod petscmatdef.mod
> petscsnesdef.mod petscts.mod
> petscconf.h petscdmda.mod petscis.mod petscmat.mod
> petscsnes.mod petscvecdef.mod
> petscconfiginfo.h petscdmdef.mod petsckspdef.mod petsc.mod
> petscsysdef.mod petscvec.mod
>
> Originally I compiled without the --with-mpi=0 and mpi libraries were
> created. The MPI version
> did not work! Since I am running on a single computer MPI was not needed
> and tried without it.
>
>
> =================================================================================================
>
> The basic error is, with full details below:
>
> -- Found PETSC
> -- Could not find a sufficient PETSc installation: PETSc has to be
> configured with the same MPI configuration as deal.II.
> -- DEAL_II_WITH_PETSC has unmet external dependencies.
> CMake Error at cmake/configure/configure_3_petsc.cmake:110 (MESSAGE):
>
>
> Could not find the petsc library!
>
> Could not find a sufficient PETSc installation:
>
> PETSc has to be configured with the same MPI configuration as deal.II,
> but
> found:
>
> DEAL_II_WITH_MPI = OFF
> PETSC_WITH_MPI = (NOT FALSE)
> ....
>
>
> I assume the -DDEAL_II_WITH_MPI=OFF switch would work since I created
> PETsc with
> --with-mpi=0 and since mpi files were not created.
>
>
>
> Thanks, Pete Griffin
>
>
>
> =================================================================================================
> THE RESULTS OF cmake for dealii were as follows:
>
> =================================================================================================
>
> $ cd dealii-8.4.1-PETSc/
> /dealii-8.4.1-PETSc$ mkdir build
> /dealii-8.4.1-PETSc$ cd build
>
> =================================================================================================
> /dealii-8.4.1-PETSc/build$ cmake
> -DCMAKE_INSTALL_PREFIX=/home/pgriffin/mylibs/dealii-8.4.1-PETSc
> -DPETSC_DIR=/petsc-3.6.4/arch-linux2-c-debug/lib -DPETSC_ARCH=x86_64
> -DDEAL_II_WITH_MPI=OFF -DDEAL_II_WITH_PETSC=ON ../
>
> =================================================================================================
> -- This is CMake 3.5.1
> --
> -- Include /dealii-8.4.1-PETSc/cmake/setup_external_macros.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_enable_if_supported.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_find_file.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_setup_target.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_insource_setup_target.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_add_flags.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_dependencies.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_invoke_autopilot.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_push_cmake_required.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_enable_language_optional.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_filter_system_libraries.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_purge_feature.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_switch_library_preference.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_remove_duplicates.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_check_cxx_compiler_bug.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_query_git_information.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_clear_cmake_required.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_set_if_empty.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_expand_instantiations.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_reset_cmake_required.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_replace_flag.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_register_feature.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_find_package.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_find_system_library.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_package_handle.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_verbose_include.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_library.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_item_matches.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_configure_feature.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_to_string.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_pickup_tests.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_to_string_and_add_prefix.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_strip_flag.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_initialize_cached_variables.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_definitions.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_find_path.cmake
> -- Include
> /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_find_library.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_test.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_check_mpi_interface.cmake
> -- Include /dealii-8.4.1-PETSc/cmake/macros/macro_enable_if_links.cmake
> --
> -- Include /dealii-8.4.1-PETSc/cmake/setup_cached_variables.cmake
> -- The CXX compiler identification is GNU 5.3.1
> -- The C compiler identification is GNU 5.3.1
> -- Check for working CXX compiler: /usr/bin/c++
> -- Check for working CXX compiler: /usr/bin/c++ -- works
> -- Detecting CXX compiler ABI info
> -- Detecting CXX compiler ABI info - done
> -- Detecting CXX compile features
> -- Detecting CXX compile features - done
> -- Check for working C compiler: /usr/bin/cc
> -- Check for working C compiler: /usr/bin/cc -- works
> -- Detecting C compiler ABI info
> -- Detecting C compiler ABI info - done
> -- Detecting C compile features
> -- Detecting C compile features - done
> -- The Fortran compiler identification is GNU 5.3.1
> -- Check for working Fortran compiler: /usr/bin/gfortran
> -- Check for working Fortran compiler: /usr/bin/gfortran -- works
> -- Detecting Fortran compiler ABI info
> -- Detecting Fortran compiler ABI info - done
> -- Checking whether /usr/bin/gfortran supports Fortran 90
> -- Checking whether /usr/bin/gfortran supports Fortran 90 -- yes
> --
> -- Include /dealii-8.4.1-PETSc/cmake/setup_deal_ii.cmake
> --
> -- Include /dealii-8.4.1-PETSc/cmake/setup_compiler_flags.cmake
> --
> -- Include /dealii-8.4.1-PETSc/cmake/setup_compiler_flags_gnu.cmake
> -- Performing Test DEAL_II_HAVE_FLAG_pedantic
> -- Performing Test DEAL_II_HAVE_FLAG_pedantic - Success
> -- Performing Test DEAL_II_HAVE_FLAG_fpic
> -- Performing Test DEAL_II_HAVE_FLAG_fpic - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wl__as_needed
> -- Performing Test DEAL_II_HAVE_FLAG_Wl__as_needed - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wall
> -- Performing Test DEAL_II_HAVE_FLAG_Wall - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wextra
> -- Performing Test DEAL_II_HAVE_FLAG_Wextra - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wpointer_arith
> -- Performing Test DEAL_II_HAVE_FLAG_Wpointer_arith - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wwrite_strings
> -- Performing Test DEAL_II_HAVE_FLAG_Wwrite_strings - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wsynth
> -- Performing Test DEAL_II_HAVE_FLAG_Wsynth - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wsign_compare
> -- Performing Test DEAL_II_HAVE_FLAG_Wsign_compare - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wswitch
> -- Performing Test DEAL_II_HAVE_FLAG_Wswitch - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Woverloaded_virtual
> -- Performing Test DEAL_II_HAVE_FLAG_Woverloaded_virtual - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wlong_long
> -- Performing Test DEAL_II_HAVE_FLAG_Wlong_long - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wdeprecated_declarations
> -- Performing Test DEAL_II_HAVE_FLAG_Wdeprecated_declarations - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wliteral_suffix
> -- Performing Test DEAL_II_HAVE_FLAG_Wliteral_suffix - Success
> -- Performing Test DEAL_II_HAVE_FLAG_funroll_loops
> -- Performing Test DEAL_II_HAVE_FLAG_funroll_loops - Success
> -- Performing Test DEAL_II_HAVE_FLAG_funroll_all_loops
> -- Performing Test DEAL_II_HAVE_FLAG_funroll_all_loops - Success
> -- Performing Test DEAL_II_HAVE_FLAG_fstrict_aliasing
> -- Performing Test DEAL_II_HAVE_FLAG_fstrict_aliasing - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Og
> -- Performing Test DEAL_II_HAVE_FLAG_Og - Success
> -- Performing Test DEAL_II_HAVE_FLAG_ggdb
> -- Performing Test DEAL_II_HAVE_FLAG_ggdb - Success
> --
> -- Include /dealii-8.4.1-PETSc/bundled/setup_bundled.cmake
> --
> -- Include
> /dealii-8.4.1-PETSc/cmake/checks/check_01_compiler_features.cmake
> -- Performing Test DEAL_II_COMPILER_USE_VECTOR_ARITHMETICS
> -- Performing Test DEAL_II_COMPILER_USE_VECTOR_ARITHMETICS - Success
> -- Performing Test DEAL_II_VECTOR_ITERATOR_IS_POINTER_OK
> -- Performing Test DEAL_II_VECTOR_ITERATOR_IS_POINTER_OK - Success
> -- Test successful, do not define DEAL_II_VECTOR_ITERATOR_IS_POINTER
> -- Performing Test DEAL_II_HAVE_BUILTIN_EXPECT
> -- Performing Test DEAL_II_HAVE_BUILTIN_EXPECT - Success
> -- Performing Test DEAL_II_HAVE_VERBOSE_TERMINATE
> -- Performing Test DEAL_II_HAVE_VERBOSE_TERMINATE - Success
> -- Performing Test DEAL_II_HAVE_GLIBC_STACKTRACE
> -- Performing Test DEAL_II_HAVE_GLIBC_STACKTRACE - Success
> -- Performing Test DEAL_II_HAVE_FLAG_rdynamic
> -- Performing Test DEAL_II_HAVE_FLAG_rdynamic - Success
> -- Performing Test DEAL_II_HAVE_LIBSTDCXX_DEMANGLER
> -- Performing Test DEAL_II_HAVE_LIBSTDCXX_DEMANGLER - Success
> -- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_PRETTY_FUNCTION
> -- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_PRETTY_FUNCTION - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wa__compress_debug_sections
> -- Performing Test DEAL_II_HAVE_FLAG_Wa__compress_debug_sections - Success
> -- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_DEPRECATED
> -- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_DEPRECATED - Success
> -- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_ALWAYS_INLINE
> -- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_ALWAYS_INLINE - Success
> -- Performing Test DEAL_II_COMPILER_HAS_DIAGNOSTIC_PRAGMA
> -- Performing Test DEAL_II_COMPILER_HAS_DIAGNOSTIC_PRAGMA - Success
> -- Performing Test DEAL_II_COMPILER_HAS_FUSE_LD_GOLD
> -- Performing Test DEAL_II_COMPILER_HAS_FUSE_LD_GOLD - Success
> --
> -- Include /dealii-8.4.1-PETSc/cmake/checks/check_01_cpu_features.cmake
> -- Check if the system is big endian
> -- Searching 16 bit integer
> -- Looking for sys/types.h
> -- Looking for sys/types.h - found
> -- Looking for stdint.h
> -- Looking for stdint.h - found
> -- Looking for stddef.h
> -- Looking for stddef.h - found
> -- Check size of unsigned short
> -- Check size of unsigned short - done
> -- Using unsigned short
> -- Check if the system is big endian - little endian
> -- Performing Test DEAL_II_HAVE_SSE2
> -- Performing Test DEAL_II_HAVE_SSE2 - Success
> -- Performing Test DEAL_II_HAVE_AVX
> -- Performing Test DEAL_II_HAVE_AVX - Failed
> -- Performing Test DEAL_II_HAVE_AVX512
> -- Performing Test DEAL_II_HAVE_AVX512 - Failed
> -- Performing Test DEAL_II_HAVE_OPENMP_SIMD
> -- Performing Test DEAL_II_HAVE_OPENMP_SIMD - Success
> --
> -- Include /dealii-8.4.1-PETSc/cmake/checks/check_01_cxx_features.cmake
> -- Performing Test DEAL_II_HAVE_FLAG_stdcxx14
> -- Performing Test DEAL_II_HAVE_FLAG_stdcxx14 - Success
> -- Using C++ version flag "-std=c++14"
> -- Performing Test DEAL_II_HAVE_CXX14_MAKE_UNIQUE
> -- Performing Test DEAL_II_HAVE_CXX14_MAKE_UNIQUE - Success
> -- Performing Test DEAL_II_HAVE_CXX14_CLANGAUTODEBUG_BUG_OK
> -- Performing Test DEAL_II_HAVE_CXX14_CLANGAUTODEBUG_BUG_OK - Success
> -- Using C++ version flag "-std=c++14"
> -- Performing Test DEAL_II_HAVE_CXX11_ARRAY
> -- Performing Test DEAL_II_HAVE_CXX11_ARRAY - Success
> -- Performing Test DEAL_II_HAVE_CXX11_CONDITION_VARIABLE
> -- Performing Test DEAL_II_HAVE_CXX11_CONDITION_VARIABLE - Success
> -- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL
> -- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL - Success
> -- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_GCCBUG35569_OK
> -- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_GCCBUG35569_OK - Success
> -- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_LLVMBUG20084_OK
> -- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_LLVMBUG20084_OK - Success
> -- Performing Test DEAL_II_HAVE_CXX11_SHARED_PTR
> -- Performing Test DEAL_II_HAVE_CXX11_SHARED_PTR - Success
> -- Performing Test DEAL_II_HAVE_CXX11_THREAD
> -- Performing Test DEAL_II_HAVE_CXX11_THREAD - Success
> -- Performing Test DEAL_II_HAVE_CXX11_MUTEX
> -- Performing Test DEAL_II_HAVE_CXX11_MUTEX - Success
> -- Performing Test DEAL_II_HAVE_CXX11_TUPLE
> -- Performing Test DEAL_II_HAVE_CXX11_TUPLE - Success
> -- Performing Test DEAL_II_HAVE_CXX11_TYPE_TRAITS
> -- Performing Test DEAL_II_HAVE_CXX11_TYPE_TRAITS - Success
> -- Performing Test DEAL_II_HAVE_CXX11_MACOSXC99BUG_OK
> -- Performing Test DEAL_II_HAVE_CXX11_MACOSXC99BUG_OK - Success
> -- Performing Test DEAL_II_HAVE_CXX11_ICCNUMERICLIMITSBUG_OK
> -- Performing Test DEAL_II_HAVE_CXX11_ICCNUMERICLIMITSBUG_OK - Success
> -- Performing Test DEAL_II_HAVE_CXX11_ICCLIBSTDCPP47CXX11BUG_OK
> -- Performing Test DEAL_II_HAVE_CXX11_ICCLIBSTDCPP47CXX11BUG_OK - Success
> -- DEAL_II_WITH_CXX11 successfully set up
> -- DEAL_II_WITH_CXX14 successfully set up
> -- Performing Test DEAL_II_HAVE_CXX11_IS_TRIVIALLY_COPYABLE
> -- Performing Test DEAL_II_HAVE_CXX11_IS_TRIVIALLY_COPYABLE - Success
> -- Performing Test DEAL_II_HAVE_STD_ISNAN
> -- Performing Test DEAL_II_HAVE_STD_ISNAN - Success
> -- Performing Test DEAL_II_HAVE_ISNAN
> -- Performing Test DEAL_II_HAVE_ISNAN - Success
> -- Performing Test DEAL_II_HAVE_UNDERSCORE_ISNAN
> -- Performing Test DEAL_II_HAVE_UNDERSCORE_ISNAN - Failed
> -- Performing Test DEAL_II_HAVE_ISFINITE
> -- Performing Test DEAL_II_HAVE_ISFINITE - Success
> -- Performing Test DEAL_II_HAVE_FP_EXCEPTIONS
> -- Performing Test DEAL_II_HAVE_FP_EXCEPTIONS - Success
> -- Performing Test DEAL_II_HAVE_COMPLEX_OPERATOR_OVERLOADS
> -- Performing Test DEAL_II_HAVE_COMPLEX_OPERATOR_OVERLOADS - Failed
> --
> -- Include /dealii-8.4.1-PETSc/cmake/checks/check_02_system_features.cmake
> -- Looking for C++ include sys/resource.h
> -- Looking for C++ include sys/resource.h - found
> -- Looking for C++ include sys/time.h
> -- Looking for C++ include sys/time.h - found
> -- Looking for C++ include sys/times.h
> -- Looking for C++ include sys/times.h - found
> -- Looking for times
> -- Looking for times - found
> -- Looking for C++ include sys/types.h
> -- Looking for C++ include sys/types.h - found
> -- Looking for C++ include unistd.h
> -- Looking for C++ include unistd.h - found
> -- Looking for gethostname
> -- Looking for gethostname - found
> -- Looking for getpid
> -- Looking for getpid - found
> -- Performing Test m_LIBRARY
> -- Performing Test m_LIBRARY - Success
> -- Looking for jn
> -- Looking for jn - found
> --
> -- Include /dealii-8.4.1-PETSc/cmake/checks/check_03_compiler_bugs.cmake
> -- Performing Test DEAL_II_WRETURN_TYPE_CONST_QUALIFIER_BUG_OK
> -- Performing Test DEAL_II_WRETURN_TYPE_CONST_QUALIFIER_BUG_OK - Success
> -- Test successful, do not define DEAL_II_WRETURN_TYPE_CONST_QUALIFIER_BUG
> -- Performing Test DEAL_II_TEMPL_SPEC_FRIEND_BUG_OK
> -- Performing Test DEAL_II_TEMPL_SPEC_FRIEND_BUG_OK - Success
> -- Test successful, do not define DEAL_II_TEMPL_SPEC_FRIEND_BUG
> -- Performing Test DEAL_II_MEMBER_ARRAY_SPECIALIZATION_BUG_OK
> -- Performing Test DEAL_II_MEMBER_ARRAY_SPECIALIZATION_BUG_OK - Success
> -- Test successful, do not define DEAL_II_MEMBER_ARRAY_SPECIALIZATION_BUG
> -- Performing Test DEAL_II_MEMBER_VAR_SPECIALIZATION_BUG_OK
> -- Performing Test DEAL_II_MEMBER_VAR_SPECIALIZATION_BUG_OK - Success
> -- Test successful, do not define DEAL_II_MEMBER_VAR_SPECIALIZATION_BUG
> -- Performing Test DEAL_II_EXPLICIT_CONSTRUCTOR_BUG
> -- Performing Test DEAL_II_EXPLICIT_CONSTRUCTOR_BUG - Failed
> -- Performing Test DEAL_II_CONST_MEMBER_DEDUCTION_BUG_OK
> -- Performing Test DEAL_II_CONST_MEMBER_DEDUCTION_BUG_OK - Success
> -- Test successful, do not define DEAL_II_CONST_MEMBER_DEDUCTION_BUG
> -- Performing Test DEAL_II_TYPE_QUALIFIER_BUG_OK
> -- Performing Test DEAL_II_TYPE_QUALIFIER_BUG_OK - Success
> -- Test successful, do not define DEAL_II_TYPE_QUALIFIER_BUG
> -- Performing Test DEAL_II_BOOST_BIND_COMPILER_BUG_OK
> -- Performing Test DEAL_II_BOOST_BIND_COMPILER_BUG_OK - Failed
> -- Test unsuccessful, define DEAL_II_BOOST_BIND_COMPILER_BUG
> -- Performing Test DEAL_II_BIND_NO_CONST_OP_PARENTHESES_OK
> -- Performing Test DEAL_II_BIND_NO_CONST_OP_PARENTHESES_OK - Success
> -- Test successful, do not define DEAL_II_BIND_NO_CONST_OP_PARENTHESES
> -- Performing Test DEAL_II_ICC_SFINAE_BUG_OK
> -- Performing Test DEAL_II_ICC_SFINAE_BUG_OK - Success
> -- Test successful, do not define DEAL_II_ICC_SFINAE_BUG
> --
> -- Include /dealii-8.4.1-PETSc/cmake/checks/check_03_generator_bugs.cmake
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_1_bzip2.cmake
> -- Could NOT find BZip2 (missing: BZIP2_LIBRARIES BZIP2_INCLUDE_DIR)
> -- BZIP2_LIBRARIES: *** Required variable "_bzip2_libraries" set to
> NOTFOUND ***
> -- BZIP2_INCLUDE_DIRS: *** Required variable "BZIP2_INCLUDE_DIR" set to
> NOTFOUND ***
> -- Could NOT find BZIP2
> -- DEAL_II_WITH_BZIP2 has unmet external dependencies.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_1_lapack.cmake
> -- Looking for Fortran sgemm
> -- Looking for Fortran sgemm - found
> -- Looking for pthread.h
> -- Looking for pthread.h - found
> -- Looking for pthread_create
> -- Looking for pthread_create - not found
> -- Looking for pthread_create in pthreads
> -- Looking for pthread_create in pthreads - not found
> -- Looking for pthread_create in pthread
> -- Looking for pthread_create in pthread - found
> -- Found Threads: TRUE
> -- A library with BLAS API found.
> -- Looking for Fortran cheev
> -- Looking for Fortran cheev - found
> -- A library with LAPACK API found.
> -- Performing Test gfortran_LIBRARY
> -- Performing Test gfortran_LIBRARY - Success
> -- Performing Test quadmath_LIBRARY
> -- Performing Test quadmath_LIBRARY - Success
> -- Performing Test c_LIBRARY
> -- Performing Test c_LIBRARY - Success
> -- LAPACK_LIBRARIES:
> /usr/lib/liblapack.so;/usr/lib/libblas.so;/usr/lib/libblas.so;gfortran;m;quadmath;m;c
> -- LAPACK_LINKER_FLAGS:
> -- Found LAPACK
> -- Performing Test DEAL_II_HAVE_FLAG_pthread
> -- Performing Test DEAL_II_HAVE_FLAG_pthread - Success
> -- Performing Test LAPACK_SYMBOL_CHECK
> -- Performing Test LAPACK_SYMBOL_CHECK - Success
> -- DEAL_II_WITH_LAPACK successfully set up with external dependencies.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_1_mpi.cmake
> -- DEAL_II_WITH_MPI is set to off.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_1_threads.cmake
> -- TBB_LIBRARY not found! Call:
> -- FIND_LIBRARY(TBB_LIBRARY NAMES tbb HINTS PATH_SUFFIXES lib lib64
> lib)
> -- TBB_DEBUG_LIBRARY not found! Call:
> -- FIND_LIBRARY(TBB_DEBUG_LIBRARY NAMES tbb_debug HINTS PATH_SUFFIXES
> lib lib64 lib)
> -- TBB_INCLUDE_DIR not found! Call:
> -- FIND_PATH(TBB_INCLUDE_DIR tbb/tbb_stddef.h HINTS PATH_SUFFIXES
> include include/tbb tbb)
> -- TBB_LIBRARIES: *** Required variable "TBB_LIBRARY" set to NOTFOUND ***
> -- TBB_INCLUDE_DIRS: *** Required variable "TBB_INCLUDE_DIR" set to
> NOTFOUND ***
> -- TBB_USER_INCLUDE_DIRS: *** Required variable "TBB_INCLUDE_DIR" set to
> NOTFOUND ***
> -- Could NOT find TBB
> -- DEAL_II_WITH_THREADS has unmet external dependencies.
> -- Performing Test DEAL_II_HAVE_MT_POSIX_BARRIERS
> -- Performing Test DEAL_II_HAVE_MT_POSIX_BARRIERS - Success
> -- Performing Test DEAL_II_HAVE_FLAG_Wparentheses
> -- Performing Test DEAL_II_HAVE_FLAG_Wparentheses - Success
> -- DEAL_II_WITH_THREADS successfully set up with bundled packages.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_1_zlib.cmake
> -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.8")
> -- ZLIB_VERSION: 1.2.8
> -- ZLIB_LIBRARIES: /usr/lib/x86_64-linux-gnu/libz.so
> -- ZLIB_INCLUDE_DIRS: /usr/include
> -- Found ZLIB
> -- DEAL_II_WITH_ZLIB successfully set up with external dependencies.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_2_metis.cmake
> -- METIS_LIBRARY not found! Call:
> -- FIND_LIBRARY(METIS_LIBRARY NAMES metis HINTS PATH_SUFFIXES lib
> lib64 lib build/Linux-x86_64/libmetis)
> -- PARMETIS_LIBRARY not found! Call:
> -- FIND_LIBRARY(PARMETIS_LIBRARY NAMES parmetis HINTS NO_DEFAULT_PATH
> NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
> NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
> -- METIS_INCLUDE_DIR not found! Call:
> -- FIND_PATH(METIS_INCLUDE_DIR metis.h HINTS PATH_SUFFIXES metis
> include/metis include)
> -- METIS_LIBRARIES: *** Required variable "METIS_LIBRARY" set to
> NOTFOUND ***
> -- METIS_INCLUDE_DIRS: *** Required variable "METIS_INCLUDE_DIR" set to
> NOTFOUND ***
> -- METIS_USER_INCLUDE_DIRS: *** Required variable "METIS_INCLUDE_DIR"
> set to NOTFOUND ***
> -- Could NOT find METIS
> -- DEAL_II_WITH_METIS has unmet external dependencies.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_2_trilinos.cmake
> -- EPETRA_CONFIG_H not found! Call:
> -- FIND_FILE(EPETRA_CONFIG_H Epetra_config.h HINTS NO_DEFAULT_PATH
> NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
> NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
> -- SACADO_CONFIG_H not found! Call:
> -- FIND_FILE(SACADO_CONFIG_H Sacado_config.h HINTS NO_DEFAULT_PATH
> NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
> NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
> -- SACADO_CMATH_HPP not found! Call:
> -- FIND_FILE(SACADO_CMATH_HPP Sacado_cmath.hpp HINTS NO_DEFAULT_PATH
> NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
> NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
> -- TRILINOS_LIBRARIES:
> -- TRILINOS_INCLUDE_DIRS: *** Required variable "Trilinos_INCLUDE_DIRS"
> empty ***
> -- TRILINOS_USER_INCLUDE_DIRS: *** Required variable
> "Trilinos_INCLUDE_DIRS" empty ***
> -- Could NOT find TRILINOS
> -- DEAL_II_WITH_TRILINOS has unmet external dependencies.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_2_umfpack.cmake
> -- Found UMFPACK_INCLUDE_DIR
> -- Found AMD_INCLUDE_DIR
> -- Found SuiteSparse_config_INCLUDE_DIR
> -- Found UMFPACK_LIBRARY
> -- Found AMD_LIBRARY
> -- Found CHOLMOD_LIBRARY
> -- Found COLAMD_LIBRARY
> -- Found CCOLAMD_LIBRARY
> -- Found CAMD_LIBRARY
> -- Found SuiteSparse_config_LIBRARY
> -- Performing Test LAPACK_SUITESPARSECONFIG_WITH_PIC
> -- Performing Test LAPACK_SUITESPARSECONFIG_WITH_PIC - Failed
> -- Performing Test rt_LIBRARY
> -- Performing Test rt_LIBRARY - Success
> -- UMFPACK_VERSION: 5.7.1
> -- UMFPACK_LIBRARIES:
> /usr/lib/x86_64-linux-gnu/libumfpack.so;/usr/lib/x86_64-linux-gnu/libcholmod.so;/usr/lib/x86_64-linux-gnu/libccolamd.so;/usr/lib/x86_64-linux-gnu/libcolamd.so;/usr/lib/x86_64-linux-gnu/libcamd.so;/usr/lib/x86_64-linux-gnu/libamd.so;/usr/lib/liblapack.so;/usr/lib/libblas.so;gfortran;quadmath;m;c;rt
> -- UMFPACK_INCLUDE_DIRS:
> /usr/include/suitesparse;/usr/include/suitesparse;/usr/include/suitesparse
> -- UMFPACK_USER_INCLUDE_DIRS:
> /usr/include/suitesparse;/usr/include/suitesparse;/usr/include/suitesparse
> -- UMFPACK_LINKER_FLAGS:
> -- Found UMFPACK
> -- DEAL_II_WITH_UMFPACK successfully set up with external dependencies.
> --
> -- Include /dealii-8.4.1-PETSc/cmake/configure/configure_3_petsc.cmake
> -- Found PETSC_LIBRARY
> -- Found PETSC_INCLUDE_DIR_ARCH
> -- Found PETSC_INCLUDE_DIR_COMMON
> -- PETSC_PETSCVARIABLES not found! Call:
> -- FIND_FILE(PETSC_PETSCVARIABLES NAMES petscvariables HINTS
> /petsc-3.6.4/arch-linux2-c-debug/lib/x86_64
> /petsc-3.6.4/arch-linux2-c-debug/lib PATH_SUFFIXES conf)
> -- PETSC_VERSION: 3.6.2.0
> -- PETSC_LIBRARIES: /petsc-3.6.4/arch-linux2-c-debug/lib/libpetsc.so
> -- PETSC_INCLUDE_DIRS: /usr/include/petsc;/usr/include/petsc
> -- PETSC_USER_INCLUDE_DIRS: /usr/include/petsc;/usr/include/petsc
> -- Found PETSC
> -- Could not find a sufficient PETSc installation: PETSc has to be
> configured with the same MPI configuration as deal.II.
> -- DEAL_II_WITH_PETSC has unmet external dependencies.
> CMake Error at cmake/configure/configure_3_petsc.cmake:110 (MESSAGE):
>
>
> Could not find the petsc library!
>
> Could not find a sufficient PETSc installation:
>
> PETSc has to be configured with the same MPI configuration as deal.II,
> but
> found:
>
> DEAL_II_WITH_MPI = OFF
> PETSC_WITH_MPI = (NOT FALSE)
>
>
>
> Please ensure that the petsc library version 3.0.0 or newer is installed
> on
> your computer and is configured with the same mpi options as deal.II
>
> If the library is not at a default location, either provide some hints
>
> for the autodetection:
>
> PETSc installed with --prefix=<...> to a destination:
>
> $ PETSC_DIR="..." cmake <...>
> $ cmake -DPETSC_DIR="..." <...>
>
> PETSc compiled in source tree:
>
> $ PETSC_DIR="..." PETSC_ARCH="..." cmake <...>
> $ cmake -DPETSC_DIR="..." -DPETSC_ARCH="..." <...>
>
> or set the relevant variables by hand in ccmake.
>
>
>
> Call Stack (most recent call first):
> build/CMakeFiles/CMakeTmp/macro_configure_feature.tmp:1
> (FEATURE_PETSC_ERROR_MESSAGE)
> cmake/macros/macro_configure_feature.cmake:76 (INCLUDE)
> cmake/macros/macro_configure_feature.cmake:272 (RUN_COMMAND)
> cmake/configure/configure_3_petsc.cmake:129 (CONFIGURE_FEATURE)
> cmake/macros/macro_verbose_include.cmake:19 (INCLUDE)
> CMakeLists.txt:119 (VERBOSE_INCLUDE)
>
>
> -- Configuring incomplete, errors occurred!
> See also "/dealii-8.4.1-PETSc/build/CMakeFiles/CMakeOutput.log".
> See also "/dealii-8.4.1-PETSc/build/CMakeFiles/CMakeError.log".
>
>
> =======================================================================================================================
> Originally I tried (and numerous other combinations):
>
> sudo apt-get install libpetsc3.6.2-dev
> and
> sudo apt-get install libopenmpi-dev
>
> all work well til:
>
> make test
>
> when a number of errors including:
>
> /usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
> 'opal_list_item_t_class'
> /usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
> 'opal_class_initialize'
>
> CMakeFiles/Makefile2:3087: recipe for target
> 'tests/quick_tests/CMakeFiles/step.debug.dir/all' failed
> CMakeFiles/Makefile2:3384: recipe for target
> 'tests/quick_tests/CMakeFiles/step.debug.run.dir/rule' failed
> Makefile:1111: recipe for target 'step.debug.run' failed
>
> CMakeFiles/Makefile2:3571: recipe for target
> 'tests/quick_tests/CMakeFiles/step.release.dir/all' failed
>
> resulted.
>
>
> sudo apt-get install libmpich-dev
> with
> sudo apt-get install libpetsc3.6.2-dev
> also had problems
>
>
> =====================================================================================================
>
>
--
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.
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cmake -DCMAKE_INSTALL_PREFIX=/home/<username>/mylibs/dealii-8.4.1-PETSc
-DDEAL_II_WITH_MPI=ON -DDEAL_II_WITH_PETSC=ON ../
-- This is CMake 3.5.1
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_external_macros.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_enable_if_supported.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_find_file.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_setup_target.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_insource_setup_target.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_add_flags.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_dependencies.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_invoke_autopilot.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_push_cmake_required.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_enable_language_optional.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_filter_system_libraries.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_purge_feature.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_switch_library_preference.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_remove_duplicates.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_check_cxx_compiler_bug.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_query_git_information.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_clear_cmake_required.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_set_if_empty.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_expand_instantiations.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_reset_cmake_required.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_replace_flag.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_register_feature.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_find_package.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_find_system_library.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_package_handle.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_verbose_include.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_library.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_item_matches.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_configure_feature.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_to_string.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_pickup_tests.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_to_string_and_add_prefix.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_strip_flag.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_initialize_cached_variables.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_definitions.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_find_path.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_find_library.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_deal_ii_add_test.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_check_mpi_interface.cmake
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/macros/macro_enable_if_links.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_cached_variables.cmake
-- The CXX compiler identification is GNU 5.3.1
-- The C compiler identification is GNU 5.3.1
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- The Fortran compiler identification is GNU 5.3.1
-- Check for working Fortran compiler: /usr/bin/gfortran
-- Check for working Fortran compiler: /usr/bin/gfortran -- works
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Checking whether /usr/bin/gfortran supports Fortran 90
-- Checking whether /usr/bin/gfortran supports Fortran 90 -- yes
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_deal_ii.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_compiler_flags.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_compiler_flags_gnu.cmake
-- Performing Test DEAL_II_HAVE_FLAG_pedantic
-- Performing Test DEAL_II_HAVE_FLAG_pedantic - Success
-- Performing Test DEAL_II_HAVE_FLAG_fpic
-- Performing Test DEAL_II_HAVE_FLAG_fpic - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wl__as_needed
-- Performing Test DEAL_II_HAVE_FLAG_Wl__as_needed - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wall
-- Performing Test DEAL_II_HAVE_FLAG_Wall - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wextra
-- Performing Test DEAL_II_HAVE_FLAG_Wextra - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wpointer_arith
-- Performing Test DEAL_II_HAVE_FLAG_Wpointer_arith - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wwrite_strings
-- Performing Test DEAL_II_HAVE_FLAG_Wwrite_strings - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wsynth
-- Performing Test DEAL_II_HAVE_FLAG_Wsynth - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wsign_compare
-- Performing Test DEAL_II_HAVE_FLAG_Wsign_compare - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wswitch
-- Performing Test DEAL_II_HAVE_FLAG_Wswitch - Success
-- Performing Test DEAL_II_HAVE_FLAG_Woverloaded_virtual
-- Performing Test DEAL_II_HAVE_FLAG_Woverloaded_virtual - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wlong_long
-- Performing Test DEAL_II_HAVE_FLAG_Wlong_long - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wdeprecated_declarations
-- Performing Test DEAL_II_HAVE_FLAG_Wdeprecated_declarations - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wliteral_suffix
-- Performing Test DEAL_II_HAVE_FLAG_Wliteral_suffix - Success
-- Performing Test DEAL_II_HAVE_FLAG_funroll_loops
-- Performing Test DEAL_II_HAVE_FLAG_funroll_loops - Success
-- Performing Test DEAL_II_HAVE_FLAG_funroll_all_loops
-- Performing Test DEAL_II_HAVE_FLAG_funroll_all_loops - Success
-- Performing Test DEAL_II_HAVE_FLAG_fstrict_aliasing
-- Performing Test DEAL_II_HAVE_FLAG_fstrict_aliasing - Success
-- Performing Test DEAL_II_HAVE_FLAG_Og
-- Performing Test DEAL_II_HAVE_FLAG_Og - Success
-- Performing Test DEAL_II_HAVE_FLAG_ggdb
-- Performing Test DEAL_II_HAVE_FLAG_ggdb - Success
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/bundled/setup_bundled.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/checks/check_01_compiler_features.cmake
-- Performing Test DEAL_II_COMPILER_USE_VECTOR_ARITHMETICS
-- Performing Test DEAL_II_COMPILER_USE_VECTOR_ARITHMETICS - Success
-- Performing Test DEAL_II_VECTOR_ITERATOR_IS_POINTER_OK
-- Performing Test DEAL_II_VECTOR_ITERATOR_IS_POINTER_OK - Success
-- Test successful, do not define DEAL_II_VECTOR_ITERATOR_IS_POINTER
-- Performing Test DEAL_II_HAVE_BUILTIN_EXPECT
-- Performing Test DEAL_II_HAVE_BUILTIN_EXPECT - Success
-- Performing Test DEAL_II_HAVE_VERBOSE_TERMINATE
-- Performing Test DEAL_II_HAVE_VERBOSE_TERMINATE - Success
-- Performing Test DEAL_II_HAVE_GLIBC_STACKTRACE
-- Performing Test DEAL_II_HAVE_GLIBC_STACKTRACE - Success
-- Performing Test DEAL_II_HAVE_FLAG_rdynamic
-- Performing Test DEAL_II_HAVE_FLAG_rdynamic - Success
-- Performing Test DEAL_II_HAVE_LIBSTDCXX_DEMANGLER
-- Performing Test DEAL_II_HAVE_LIBSTDCXX_DEMANGLER - Success
-- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_PRETTY_FUNCTION
-- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_PRETTY_FUNCTION - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wa__compress_debug_sections
-- Performing Test DEAL_II_HAVE_FLAG_Wa__compress_debug_sections - Success
-- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_DEPRECATED
-- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_DEPRECATED - Success
-- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_ALWAYS_INLINE
-- Performing Test DEAL_II_COMPILER_HAS_ATTRIBUTE_ALWAYS_INLINE - Success
-- Performing Test DEAL_II_COMPILER_HAS_DIAGNOSTIC_PRAGMA
-- Performing Test DEAL_II_COMPILER_HAS_DIAGNOSTIC_PRAGMA - Success
-- Performing Test DEAL_II_COMPILER_HAS_FUSE_LD_GOLD
-- Performing Test DEAL_II_COMPILER_HAS_FUSE_LD_GOLD - Success
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/checks/check_01_cpu_features.cmake
-- Check if the system is big endian
-- Searching 16 bit integer
-- Looking for sys/types.h
-- Looking for sys/types.h - found
-- Looking for stdint.h
-- Looking for stdint.h - found
-- Looking for stddef.h
-- Looking for stddef.h - found
-- Check size of unsigned short
-- Check size of unsigned short - done
-- Using unsigned short
-- Check if the system is big endian - little endian
-- Performing Test DEAL_II_HAVE_SSE2
-- Performing Test DEAL_II_HAVE_SSE2 - Success
-- Performing Test DEAL_II_HAVE_AVX
-- Performing Test DEAL_II_HAVE_AVX - Failed
-- Performing Test DEAL_II_HAVE_AVX512
-- Performing Test DEAL_II_HAVE_AVX512 - Failed
-- Performing Test DEAL_II_HAVE_OPENMP_SIMD
-- Performing Test DEAL_II_HAVE_OPENMP_SIMD - Success
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/checks/check_01_cxx_features.cmake
-- Performing Test DEAL_II_HAVE_FLAG_stdcxx14
-- Performing Test DEAL_II_HAVE_FLAG_stdcxx14 - Success
-- Using C++ version flag "-std=c++14"
-- Performing Test DEAL_II_HAVE_CXX14_MAKE_UNIQUE
-- Performing Test DEAL_II_HAVE_CXX14_MAKE_UNIQUE - Success
-- Performing Test DEAL_II_HAVE_CXX14_CLANGAUTODEBUG_BUG_OK
-- Performing Test DEAL_II_HAVE_CXX14_CLANGAUTODEBUG_BUG_OK - Success
-- Using C++ version flag "-std=c++14"
-- Performing Test DEAL_II_HAVE_CXX11_ARRAY
-- Performing Test DEAL_II_HAVE_CXX11_ARRAY - Success
-- Performing Test DEAL_II_HAVE_CXX11_CONDITION_VARIABLE
-- Performing Test DEAL_II_HAVE_CXX11_CONDITION_VARIABLE - Success
-- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL
-- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL - Success
-- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_GCCBUG35569_OK
-- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_GCCBUG35569_OK - Success
-- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_LLVMBUG20084_OK
-- Performing Test DEAL_II_HAVE_CXX11_FUNCTIONAL_LLVMBUG20084_OK - Success
-- Performing Test DEAL_II_HAVE_CXX11_SHARED_PTR
-- Performing Test DEAL_II_HAVE_CXX11_SHARED_PTR - Success
-- Performing Test DEAL_II_HAVE_CXX11_THREAD
-- Performing Test DEAL_II_HAVE_CXX11_THREAD - Success
-- Performing Test DEAL_II_HAVE_CXX11_MUTEX
-- Performing Test DEAL_II_HAVE_CXX11_MUTEX - Success
-- Performing Test DEAL_II_HAVE_CXX11_TUPLE
-- Performing Test DEAL_II_HAVE_CXX11_TUPLE - Success
-- Performing Test DEAL_II_HAVE_CXX11_TYPE_TRAITS
-- Performing Test DEAL_II_HAVE_CXX11_TYPE_TRAITS - Success
-- Performing Test DEAL_II_HAVE_CXX11_MACOSXC99BUG_OK
-- Performing Test DEAL_II_HAVE_CXX11_MACOSXC99BUG_OK - Success
-- Performing Test DEAL_II_HAVE_CXX11_ICCNUMERICLIMITSBUG_OK
-- Performing Test DEAL_II_HAVE_CXX11_ICCNUMERICLIMITSBUG_OK - Success
-- Performing Test DEAL_II_HAVE_CXX11_ICCLIBSTDCPP47CXX11BUG_OK
-- Performing Test DEAL_II_HAVE_CXX11_ICCLIBSTDCPP47CXX11BUG_OK - Success
-- DEAL_II_WITH_CXX11 successfully set up
-- DEAL_II_WITH_CXX14 successfully set up
-- Performing Test DEAL_II_HAVE_CXX11_IS_TRIVIALLY_COPYABLE
-- Performing Test DEAL_II_HAVE_CXX11_IS_TRIVIALLY_COPYABLE - Success
-- Performing Test DEAL_II_HAVE_STD_ISNAN
-- Performing Test DEAL_II_HAVE_STD_ISNAN - Success
-- Performing Test DEAL_II_HAVE_ISNAN
-- Performing Test DEAL_II_HAVE_ISNAN - Success
-- Performing Test DEAL_II_HAVE_UNDERSCORE_ISNAN
-- Performing Test DEAL_II_HAVE_UNDERSCORE_ISNAN - Failed
-- Performing Test DEAL_II_HAVE_ISFINITE
-- Performing Test DEAL_II_HAVE_ISFINITE - Success
-- Performing Test DEAL_II_HAVE_FP_EXCEPTIONS
-- Performing Test DEAL_II_HAVE_FP_EXCEPTIONS - Success
-- Performing Test DEAL_II_HAVE_COMPLEX_OPERATOR_OVERLOADS
-- Performing Test DEAL_II_HAVE_COMPLEX_OPERATOR_OVERLOADS - Failed
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/checks/check_02_system_features.cmake
-- Looking for C++ include sys/resource.h
-- Looking for C++ include sys/resource.h - found
-- Looking for C++ include sys/time.h
-- Looking for C++ include sys/time.h - found
-- Looking for C++ include sys/times.h
-- Looking for C++ include sys/times.h - found
-- Looking for times
-- Looking for times - found
-- Looking for C++ include sys/types.h
-- Looking for C++ include sys/types.h - found
-- Looking for C++ include unistd.h
-- Looking for C++ include unistd.h - found
-- Looking for gethostname
-- Looking for gethostname - found
-- Looking for getpid
-- Looking for getpid - found
-- Performing Test m_LIBRARY
-- Performing Test m_LIBRARY - Success
-- Looking for jn
-- Looking for jn - found
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/checks/check_03_compiler_bugs.cmake
-- Performing Test DEAL_II_WRETURN_TYPE_CONST_QUALIFIER_BUG_OK
-- Performing Test DEAL_II_WRETURN_TYPE_CONST_QUALIFIER_BUG_OK - Success
-- Test successful, do not define DEAL_II_WRETURN_TYPE_CONST_QUALIFIER_BUG
-- Performing Test DEAL_II_TEMPL_SPEC_FRIEND_BUG_OK
-- Performing Test DEAL_II_TEMPL_SPEC_FRIEND_BUG_OK - Success
-- Test successful, do not define DEAL_II_TEMPL_SPEC_FRIEND_BUG
-- Performing Test DEAL_II_MEMBER_ARRAY_SPECIALIZATION_BUG_OK
-- Performing Test DEAL_II_MEMBER_ARRAY_SPECIALIZATION_BUG_OK - Success
-- Test successful, do not define DEAL_II_MEMBER_ARRAY_SPECIALIZATION_BUG
-- Performing Test DEAL_II_MEMBER_VAR_SPECIALIZATION_BUG_OK
-- Performing Test DEAL_II_MEMBER_VAR_SPECIALIZATION_BUG_OK - Success
-- Test successful, do not define DEAL_II_MEMBER_VAR_SPECIALIZATION_BUG
-- Performing Test DEAL_II_EXPLICIT_CONSTRUCTOR_BUG
-- Performing Test DEAL_II_EXPLICIT_CONSTRUCTOR_BUG - Failed
-- Performing Test DEAL_II_CONST_MEMBER_DEDUCTION_BUG_OK
-- Performing Test DEAL_II_CONST_MEMBER_DEDUCTION_BUG_OK - Success
-- Test successful, do not define DEAL_II_CONST_MEMBER_DEDUCTION_BUG
-- Performing Test DEAL_II_TYPE_QUALIFIER_BUG_OK
-- Performing Test DEAL_II_TYPE_QUALIFIER_BUG_OK - Success
-- Test successful, do not define DEAL_II_TYPE_QUALIFIER_BUG
-- Performing Test DEAL_II_BOOST_BIND_COMPILER_BUG_OK
-- Performing Test DEAL_II_BOOST_BIND_COMPILER_BUG_OK - Failed
-- Test unsuccessful, define DEAL_II_BOOST_BIND_COMPILER_BUG
-- Performing Test DEAL_II_BIND_NO_CONST_OP_PARENTHESES_OK
-- Performing Test DEAL_II_BIND_NO_CONST_OP_PARENTHESES_OK - Success
-- Test successful, do not define DEAL_II_BIND_NO_CONST_OP_PARENTHESES
-- Performing Test DEAL_II_ICC_SFINAE_BUG_OK
-- Performing Test DEAL_II_ICC_SFINAE_BUG_OK - Success
-- Test successful, do not define DEAL_II_ICC_SFINAE_BUG
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/checks/check_03_generator_bugs.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_1_bzip2.cmake
-- Could NOT find BZip2 (missing: BZIP2_LIBRARIES BZIP2_INCLUDE_DIR)
-- BZIP2_LIBRARIES: *** Required variable "_bzip2_libraries" set to NOTFOUND
***
-- BZIP2_INCLUDE_DIRS: *** Required variable "BZIP2_INCLUDE_DIR" set to
NOTFOUND ***
-- Could NOT find BZIP2
-- DEAL_II_WITH_BZIP2 has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_1_lapack.cmake
-- Looking for Fortran sgemm
-- Looking for Fortran sgemm - found
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Looking for pthread_create
-- Looking for pthread_create - not found
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE
-- A library with BLAS API found.
-- Looking for Fortran cheev
-- Looking for Fortran cheev - found
-- A library with LAPACK API found.
-- Performing Test gfortran_LIBRARY
-- Performing Test gfortran_LIBRARY - Success
-- Performing Test quadmath_LIBRARY
-- Performing Test quadmath_LIBRARY - Success
-- Performing Test c_LIBRARY
-- Performing Test c_LIBRARY - Success
-- LAPACK_LIBRARIES:
/usr/lib/liblapack.so;/usr/lib/libblas.so;/usr/lib/libblas.so;gfortran;m;quadmath;m;c
-- LAPACK_LINKER_FLAGS:
-- Found LAPACK
-- Performing Test DEAL_II_HAVE_FLAG_pthread
-- Performing Test DEAL_II_HAVE_FLAG_pthread - Success
-- Performing Test LAPACK_SYMBOL_CHECK
-- Performing Test LAPACK_SYMBOL_CHECK - Success
-- DEAL_II_WITH_LAPACK successfully set up with external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_1_mpi.cmake
-- Unable to determine MPI from MPI driver /usr/bin/cc
-- Could NOT find MPI_C (missing: MPI_C_LIBRARIES MPI_C_INCLUDE_PATH)
-- Unable to determine MPI from MPI driver /usr/bin/c++
-- Could NOT find MPI_CXX (missing: MPI_CXX_LIBRARIES MPI_CXX_INCLUDE_PATH)
-- Unable to determine MPI from MPI driver /usr/bin/gfortran
-- Could NOT find MPI_Fortran (missing: MPI_Fortran_LIBRARIES
MPI_Fortran_INCLUDE_PATH)
-- MPI not found but DEAL_II_WITH_MPI is set to TRUE. Try again with more
aggressive search paths:
-- Found MPI_C: /usr/lib/openmpi/lib/libmpi.so
-- Found MPI_CXX:
/usr/lib/openmpi/lib/libmpi_cxx.so;/usr/lib/openmpi/lib/libmpi.so
-- Found MPI_Fortran:
/usr/lib/openmpi/lib/libmpi_usempif08.so;/usr/lib/openmpi/lib/libmpi_usempi_ignore_tkr.so;/usr/lib/openmpi/lib/libmpi_mpifh.so;/usr/lib/openmpi/lib/libmpi.so
-- Performing Test MPI_HAVE_MPI_SEEK_SET
-- Performing Test MPI_HAVE_MPI_SEEK_SET - Success
-- Found MPI_MPI_H
-- MPI_VERSION: 3.0
-- MPI_LIBRARIES:
/usr/lib/openmpi/lib/libmpi_cxx.so;/usr/lib/openmpi/lib/libmpi.so;/usr/lib/openmpi/lib/libmpi_usempif08.so;/usr/lib/openmpi/lib/libmpi_usempi_ignore_tkr.so;/usr/lib/openmpi/lib/libmpi_mpifh.so;/usr/lib/openmpi/lib/libmpi.so;/usr/lib/openmpi/lib/libmpi.so
-- MPI_INCLUDE_DIRS:
/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent;/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent/include;/usr/lib/openmpi/include;/usr/lib/openmpi/include/openmpi;/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent;/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent/include;/usr/lib/openmpi/include;/usr/lib/openmpi/include/openmpi
-- MPI_USER_INCLUDE_DIRS:
/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent;/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent/include;/usr/lib/openmpi/include;/usr/lib/openmpi/include/openmpi;/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent;/usr/lib/openmpi/include/openmpi/opal/mca/event/libevent2021/libevent/include;/usr/lib/openmpi/include;/usr/lib/openmpi/include/openmpi
-- MPI_CXX_FLAGS:
-- MPI_LINKER_FLAGS: -Wl,-rpath -Wl,/usr/lib/openmpi/lib
-Wl,--enable-new-dtags
-- Found MPI
-- DEAL_II_WITH_MPI successfully set up with external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_1_threads.cmake
-- TBB_LIBRARY not found! Call:
-- FIND_LIBRARY(TBB_LIBRARY NAMES tbb HINTS PATH_SUFFIXES lib lib64 lib)
-- TBB_DEBUG_LIBRARY not found! Call:
-- FIND_LIBRARY(TBB_DEBUG_LIBRARY NAMES tbb_debug HINTS PATH_SUFFIXES lib
lib64 lib)
-- TBB_INCLUDE_DIR not found! Call:
-- FIND_PATH(TBB_INCLUDE_DIR tbb/tbb_stddef.h HINTS PATH_SUFFIXES include
include/tbb tbb)
-- TBB_LIBRARIES: *** Required variable "TBB_LIBRARY" set to NOTFOUND ***
-- TBB_INCLUDE_DIRS: *** Required variable "TBB_INCLUDE_DIR" set to NOTFOUND
***
-- TBB_USER_INCLUDE_DIRS: *** Required variable "TBB_INCLUDE_DIR" set to
NOTFOUND ***
-- Could NOT find TBB
-- DEAL_II_WITH_THREADS has unmet external dependencies.
-- Performing Test DEAL_II_HAVE_MT_POSIX_BARRIERS
-- Performing Test DEAL_II_HAVE_MT_POSIX_BARRIERS - Success
-- Performing Test DEAL_II_HAVE_FLAG_Wparentheses
-- Performing Test DEAL_II_HAVE_FLAG_Wparentheses - Success
-- DEAL_II_WITH_THREADS successfully set up with bundled packages.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_1_zlib.cmake
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.8")
-- ZLIB_VERSION: 1.2.8
-- ZLIB_LIBRARIES: /usr/lib/x86_64-linux-gnu/libz.so
-- ZLIB_INCLUDE_DIRS: /usr/include
-- Found ZLIB
-- DEAL_II_WITH_ZLIB successfully set up with external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_2_metis.cmake
-- METIS_LIBRARY not found! Call:
-- FIND_LIBRARY(METIS_LIBRARY NAMES metis HINTS PATH_SUFFIXES lib lib64 lib
build/Linux-x86_64/libmetis)
-- PARMETIS_LIBRARY not found! Call:
-- FIND_LIBRARY(PARMETIS_LIBRARY NAMES parmetis HINTS NO_DEFAULT_PATH
NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
-- METIS_INCLUDE_DIR not found! Call:
-- FIND_PATH(METIS_INCLUDE_DIR metis.h HINTS PATH_SUFFIXES metis
include/metis include)
-- METIS_LIBRARIES: *** Required variable "METIS_LIBRARY" set to NOTFOUND ***
-- METIS_INCLUDE_DIRS: *** Required variable "METIS_INCLUDE_DIR" set to
NOTFOUND ***
-- METIS_USER_INCLUDE_DIRS: *** Required variable "METIS_INCLUDE_DIR" set to
NOTFOUND ***
-- Could NOT find METIS
-- DEAL_II_WITH_METIS has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_2_trilinos.cmake
-- EPETRA_CONFIG_H not found! Call:
-- FIND_FILE(EPETRA_CONFIG_H Epetra_config.h HINTS NO_DEFAULT_PATH
NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
-- SACADO_CONFIG_H not found! Call:
-- FIND_FILE(SACADO_CONFIG_H Sacado_config.h HINTS NO_DEFAULT_PATH
NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
-- SACADO_CMATH_HPP not found! Call:
-- FIND_FILE(SACADO_CMATH_HPP Sacado_cmath.hpp HINTS NO_DEFAULT_PATH
NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
-- TRILINOS_LIBRARIES:
/usr/lib/openmpi/lib/libmpi_cxx.so;/usr/lib/openmpi/lib/libmpi.so
-- TRILINOS_INCLUDE_DIRS: *** Required variable "Trilinos_INCLUDE_DIRS" empty
***
-- TRILINOS_USER_INCLUDE_DIRS: *** Required variable "Trilinos_INCLUDE_DIRS"
empty ***
-- Could NOT find TRILINOS
-- DEAL_II_WITH_TRILINOS has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_2_umfpack.cmake
-- Found UMFPACK_INCLUDE_DIR
-- Found AMD_INCLUDE_DIR
-- Found SuiteSparse_config_INCLUDE_DIR
-- Found UMFPACK_LIBRARY
-- Found AMD_LIBRARY
-- Found CHOLMOD_LIBRARY
-- Found COLAMD_LIBRARY
-- Found CCOLAMD_LIBRARY
-- Found CAMD_LIBRARY
-- Found SuiteSparse_config_LIBRARY
-- Performing Test LAPACK_SUITESPARSECONFIG_WITH_PIC
-- Performing Test LAPACK_SUITESPARSECONFIG_WITH_PIC - Failed
-- Performing Test rt_LIBRARY
-- Performing Test rt_LIBRARY - Success
-- UMFPACK_VERSION: 5.7.1
-- UMFPACK_LIBRARIES:
/usr/lib/x86_64-linux-gnu/libumfpack.so;/usr/lib/x86_64-linux-gnu/libcholmod.so;/usr/lib/x86_64-linux-gnu/libccolamd.so;/usr/lib/x86_64-linux-gnu/libcolamd.so;/usr/lib/x86_64-linux-gnu/libcamd.so;/usr/lib/x86_64-linux-gnu/libamd.so;/usr/lib/liblapack.so;/usr/lib/libblas.so;gfortran;quadmath;m;c;rt
-- UMFPACK_INCLUDE_DIRS:
/usr/include/suitesparse;/usr/include/suitesparse;/usr/include/suitesparse
-- UMFPACK_USER_INCLUDE_DIRS:
/usr/include/suitesparse;/usr/include/suitesparse;/usr/include/suitesparse
-- UMFPACK_LINKER_FLAGS:
-- Found UMFPACK
-- DEAL_II_WITH_UMFPACK successfully set up with external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_3_petsc.cmake
-- Found PETSC_LIBRARY
-- Found PETSC_INCLUDE_DIR_ARCH
-- Found PETSC_INCLUDE_DIR_COMMON
-- PETSC_PETSCVARIABLES not found! Call:
-- FIND_FILE(PETSC_PETSCVARIABLES NAMES petscvariables HINTS /
PATH_SUFFIXES conf)
-- PETSC_VERSION: 3.6.2.0
-- PETSC_LIBRARIES: /usr/lib/x86_64-linux-gnu/libpetsc.so
-- PETSC_INCLUDE_DIRS: /usr/include/petsc;/usr/include/petsc
-- PETSC_USER_INCLUDE_DIRS: /usr/include/petsc;/usr/include/petsc
-- Found PETSC
-- DEAL_II_WITH_PETSC successfully set up with external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_arpack.cmake
-- ARPACK_LIBRARY not found! Call:
-- FIND_LIBRARY(ARPACK_LIBRARY NAMES arpack HINTS PATH_SUFFIXES lib lib64
lib)
-- PARPACK_LIBRARY not found! Call:
-- FIND_LIBRARY(PARPACK_LIBRARY NAMES parpack HINTS NO_DEFAULT_PATH
NO_CMAKE_ENVIRONMENT_PATH NO_CMAKE_PATH NO_SYSTEM_ENVIRONMENT_PATH
NO_CMAKE_SYSTEM_PATH NO_CMAKE_FIND_ROOT_PATH)
-- ARPACK_LIBRARIES: *** Required variable "ARPACK_LIBRARY" set to NOTFOUND
***
-- ARPACK_LINKER_FLAGS:
-- Could NOT find ARPACK
-- DEAL_II_WITH_ARPACK has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_boost.cmake
CMake Warning at /usr/share/cmake-3.5/Modules/FindBoost.cmake:725 (message):
Imported targets not available for Boost version
Call Stack (most recent call first):
/usr/share/cmake-3.5/Modules/FindBoost.cmake:763
(_Boost_COMPONENT_DEPENDENCIES)
/usr/share/cmake-3.5/Modules/FindBoost.cmake:1332
(_Boost_MISSING_DEPENDENCIES)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/modules/FindBOOST.cmake:46 (FIND_PACKAGE)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/configure/configure_boost.cmake:51 (FIND_PACKAGE)
build/CMakeFiles/CMakeTmp/macro_configure_feature.tmp:1
(FEATURE_BOOST_FIND_EXTERNAL)
cmake/macros/macro_configure_feature.cmake:76 (INCLUDE)
cmake/macros/macro_configure_feature.cmake:240 (RUN_COMMAND)
cmake/configure/configure_boost.cmake:72 (CONFIGURE_FEATURE)
cmake/macros/macro_verbose_include.cmake:19 (INCLUDE)
CMakeLists.txt:119 (VERBOSE_INCLUDE)
CMake Warning at /usr/share/cmake-3.5/Modules/FindBoost.cmake:725 (message):
Imported targets not available for Boost version
Call Stack (most recent call first):
/usr/share/cmake-3.5/Modules/FindBoost.cmake:763
(_Boost_COMPONENT_DEPENDENCIES)
/usr/share/cmake-3.5/Modules/FindBoost.cmake:1332
(_Boost_MISSING_DEPENDENCIES)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/modules/FindBOOST.cmake:46 (FIND_PACKAGE)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/configure/configure_boost.cmake:51 (FIND_PACKAGE)
build/CMakeFiles/CMakeTmp/macro_configure_feature.tmp:1
(FEATURE_BOOST_FIND_EXTERNAL)
cmake/macros/macro_configure_feature.cmake:76 (INCLUDE)
cmake/macros/macro_configure_feature.cmake:240 (RUN_COMMAND)
cmake/configure/configure_boost.cmake:72 (CONFIGURE_FEATURE)
cmake/macros/macro_verbose_include.cmake:19 (INCLUDE)
CMakeLists.txt:119 (VERBOSE_INCLUDE)
CMake Warning at /usr/share/cmake-3.5/Modules/FindBoost.cmake:725 (message):
Imported targets not available for Boost version
Call Stack (most recent call first):
/usr/share/cmake-3.5/Modules/FindBoost.cmake:763
(_Boost_COMPONENT_DEPENDENCIES)
/usr/share/cmake-3.5/Modules/FindBoost.cmake:1332
(_Boost_MISSING_DEPENDENCIES)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/modules/FindBOOST.cmake:46 (FIND_PACKAGE)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/configure/configure_boost.cmake:51 (FIND_PACKAGE)
build/CMakeFiles/CMakeTmp/macro_configure_feature.tmp:1
(FEATURE_BOOST_FIND_EXTERNAL)
cmake/macros/macro_configure_feature.cmake:76 (INCLUDE)
cmake/macros/macro_configure_feature.cmake:240 (RUN_COMMAND)
cmake/configure/configure_boost.cmake:72 (CONFIGURE_FEATURE)
cmake/macros/macro_verbose_include.cmake:19 (INCLUDE)
CMakeLists.txt:119 (VERBOSE_INCLUDE)
CMake Warning at /usr/share/cmake-3.5/Modules/FindBoost.cmake:725 (message):
Imported targets not available for Boost version
Call Stack (most recent call first):
/usr/share/cmake-3.5/Modules/FindBoost.cmake:763
(_Boost_COMPONENT_DEPENDENCIES)
/usr/share/cmake-3.5/Modules/FindBoost.cmake:1332
(_Boost_MISSING_DEPENDENCIES)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/modules/FindBOOST.cmake:46 (FIND_PACKAGE)
cmake/macros/macro_find_package.cmake:27 (_FIND_PACKAGE)
cmake/configure/configure_boost.cmake:51 (FIND_PACKAGE)
build/CMakeFiles/CMakeTmp/macro_configure_feature.tmp:1
(FEATURE_BOOST_FIND_EXTERNAL)
cmake/macros/macro_configure_feature.cmake:76 (INCLUDE)
cmake/macros/macro_configure_feature.cmake:240 (RUN_COMMAND)
cmake/configure/configure_boost.cmake:72 (CONFIGURE_FEATURE)
cmake/macros/macro_verbose_include.cmake:19 (INCLUDE)
CMakeLists.txt:119 (VERBOSE_INCLUDE)
-- Could NOT find Boost
-- BOOST_LIBRARIES: *** Required variable "Boost_LIBRARIES" empty ***
-- BOOST_INCLUDE_DIRS: *** Required variable "Boost_INCLUDE_DIRS" set to
NOTFOUND ***
-- BOOST_USER_INCLUDE_DIRS: *** Required variable "Boost_INCLUDE_DIRS" set to
NOTFOUND ***
-- Could NOT find BOOST
-- DEAL_II_WITH_BOOST has unmet external dependencies.
-- Performing Test DEAL_II_HAVE_FLAG_Wunused_local_typedefs
-- Performing Test DEAL_II_HAVE_FLAG_Wunused_local_typedefs - Success
-- DEAL_II_WITH_BOOST successfully set up with bundled packages.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_hdf5.cmake
-- HDF5_INCLUDE_DIR not found! Call:
-- FIND_PATH(HDF5_INCLUDE_DIR hdf5.h HINTS PATH_SUFFIXES hdf5 hdf5/include
include/hdf5 include)
-- HDF5_LIBRARY not found! Call:
-- FIND_LIBRARY(HDF5_LIBRARY NAMES hdf5 HINTS PATH_SUFFIXES hdf5/lib lib
lib64 lib)
-- HDF5_HL_LIBRARY not found! Call:
-- FIND_LIBRARY(HDF5_HL_LIBRARY NAMES hdf5_hl HINTS PATH_SUFFIXES lib lib64
lib)
-- HDF5_PUBCONF not found! Call:
-- FIND_FILE(HDF5_PUBCONF NAMES H5pubconf.h H5pubconf-64.h HINTS
HDF5_INCLUDE_DIR-NOTFOUND PATH_SUFFIXES hdf5 hdf5/include include/hdf5 include)
-- HDF5_LIBRARIES: *** Required variable "HDF5_HL_LIBRARY" set to NOTFOUND ***
-- HDF5_INCLUDE_DIRS: *** Required variable "HDF5_INCLUDE_DIR" set to
NOTFOUND ***
-- HDF5_USER_INCLUDE_DIRS: *** Required variable "HDF5_INCLUDE_DIR" set to
NOTFOUND ***
-- Could NOT find HDF5
-- DEAL_II_WITH_HDF5 has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_muparser.cmake
-- MUPARSER_LIBRARY not found! Call:
-- FIND_LIBRARY(MUPARSER_LIBRARY NAMES muparser muparserd HINTS
PATH_SUFFIXES lib lib64 lib)
-- MUPARSER_INCLUDE_DIR not found! Call:
-- FIND_PATH(MUPARSER_INCLUDE_DIR muParserDef.h HINTS PATH_SUFFIXES include)
-- MUPARSER_LIBRARIES: *** Required variable "MUPARSER_LIBRARY" set to
NOTFOUND ***
-- MUPARSER_INCLUDE_DIRS: *** Required variable "MUPARSER_INCLUDE_DIR" set to
NOTFOUND ***
-- Could NOT find MUPARSER
-- DEAL_II_WITH_MUPARSER has unmet external dependencies.
-- DEAL_II_WITH_MUPARSER successfully set up with bundled packages.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_netcdf.cmake
-- NETCDF_INCLUDE_DIR not found! Call:
-- FIND_PATH(NETCDF_INCLUDE_DIR netcdfcpp.h HINTS PATH_SUFFIXES netcdf
include)
-- NETCDF_CPLUSPLUS_LIBRARY not found! Call:
-- FIND_LIBRARY(NETCDF_CPLUSPLUS_LIBRARY NAMES netcdf_c++ netcdf_cpp HINTS
PATH_SUFFIXES lib lib64 lib)
-- NETCDF_C_LIBRARY not found! Call:
-- FIND_LIBRARY(NETCDF_C_LIBRARY NAMES netcdf HINTS PATH_SUFFIXES lib lib64
lib)
-- NETCDF_LIBRARIES: *** Required variable "NETCDF_CPLUSPLUS_LIBRARY" set to
NOTFOUND ***
-- NETCDF_INCLUDE_DIRS: *** Required variable "NETCDF_INCLUDE_DIR" set to
NOTFOUND ***
-- Could NOT find NETCDF
-- DEAL_II_WITH_NETCDF has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_opencascade.cmake
-- OPENCASCADE_INCLUDE_DIR not found! Call:
-- FIND_PATH(OPENCASCADE_INCLUDE_DIR Standard_Version.hxx HINTS
PATH_SUFFIXES include include/oce inc)
-- OPENCASCADE_TKBO not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKBO NAMES TKBO HINTS PATH_SUFFIXES lib lib64
lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKBool not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKBool NAMES TKBool HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKBRep not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKBRep NAMES TKBRep HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKernel not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKernel NAMES TKernel HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKFeat not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKFeat NAMES TKFeat HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKFillet not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKFillet NAMES TKFillet HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKG2d not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKG2d NAMES TKG2d HINTS PATH_SUFFIXES lib lib64
lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKG3d not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKG3d NAMES TKG3d HINTS PATH_SUFFIXES lib lib64
lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKGeomAlgo not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKGeomAlgo NAMES TKGeomAlgo HINTS PATH_SUFFIXES
lib lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKGeomBase not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKGeomBase NAMES TKGeomBase HINTS PATH_SUFFIXES
lib lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKHLR not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKHLR NAMES TKHLR HINTS PATH_SUFFIXES lib lib64
lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKIGES not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKIGES NAMES TKIGES HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKMath not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKMath NAMES TKMath HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKMesh not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKMesh NAMES TKMesh HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKOffset not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKOffset NAMES TKOffset HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKPrim not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKPrim NAMES TKPrim HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKShHealing not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKShHealing NAMES TKShHealing HINTS
PATH_SUFFIXES lib lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib
lin32/gcc/lib)
-- OPENCASCADE_TKSTEP not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKSTEP NAMES TKSTEP HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKSTEPAttr not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKSTEPAttr NAMES TKSTEPAttr HINTS PATH_SUFFIXES
lib lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKSTEPBase not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKSTEPBase NAMES TKSTEPBase HINTS PATH_SUFFIXES
lib lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKSTL not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKSTL NAMES TKSTL HINTS PATH_SUFFIXES lib lib64
lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKTopAlgo not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKTopAlgo NAMES TKTopAlgo HINTS PATH_SUFFIXES
lib lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_TKXSBase not found! Call:
-- FIND_LIBRARY(OPENCASCADE_TKXSBase NAMES TKXSBase HINTS PATH_SUFFIXES lib
lib64 lib mac64/clang/lib mac32/clang/lib lin64/gcc/lib lin32/gcc/lib)
-- OPENCASCADE_LIBRARIES: *** Required variable "OPENCASCADE_TKBO" set to
NOTFOUND ***
-- OPENCASCADE_INCLUDE_DIRS: *** Required variable "OPENCASCADE_INCLUDE_DIR"
set to NOTFOUND ***
-- OPENCASCADE_USER_INCLUDE_DIRS: *** Required variable
"OPENCASCADE_INCLUDE_DIR" set to NOTFOUND ***
-- Could NOT find OPENCASCADE
-- DEAL_II_WITH_OPENCASCADE has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_p4est.cmake
-- SC_INCLUDE_DIR not found! Call:
-- FIND_PATH(SC_INCLUDE_DIR sc.h HINTS /FAST /DEBUG /FAST /DEBUG
PATH_SUFFIXES sc include/p4est include src sc/src)
-- P4EST_LIBRARY_OPTIMIZED not found! Call:
-- FIND_LIBRARY(P4EST_LIBRARY_OPTIMIZED NAMES p4est HINTS /FAST /DEBUG
PATH_SUFFIXES lib lib64 lib src)
-- SC_LIBRARY_OPTIMIZED not found! Call:
-- FIND_LIBRARY(SC_LIBRARY_OPTIMIZED NAMES sc HINTS /FAST /DEBUG /FAST
/DEBUG PATH_SUFFIXES lib lib64 lib src sc/src)
-- P4EST_LIBRARY_DEBUG not found! Call:
-- FIND_LIBRARY(P4EST_LIBRARY_DEBUG NAMES p4est HINTS /DEBUG PATH_SUFFIXES
lib lib64 lib src)
-- SC_LIBRARY_DEBUG not found! Call:
-- FIND_LIBRARY(SC_LIBRARY_DEBUG NAMES sc HINTS /DEBUG /DEBUG PATH_SUFFIXES
lib lib64 lib src sc/src)
-- P4EST_INCLUDE_DIR not found! Call:
-- FIND_PATH(P4EST_INCLUDE_DIR p4est_config.h HINTS /FAST /DEBUG
PATH_SUFFIXES p4est include/p4est include src)
-- P4EST_LIBRARIES: *** Required variable "P4EST_LIBRARY_OPTIMIZED" set to
NOTFOUND ***
-- P4EST_INCLUDE_DIRS: *** Required variable "P4EST_INCLUDE_DIR" set to
NOTFOUND ***
-- P4EST_USER_INCLUDE_DIRS: *** Required variable "P4EST_INCLUDE_DIR" set to
NOTFOUND ***
-- Could NOT find P4EST
-- DEAL_II_WITH_P4EST has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/configure/configure_slepc.cmake
-- SLEPC_LIBRARY not found! Call:
-- FIND_LIBRARY(SLEPC_LIBRARY NAMES slepc HINTS / PATH_SUFFIXES lib lib64
lib)
-- SLEPC_INCLUDE_DIR_ARCH not found! Call:
-- FIND_PATH(SLEPC_INCLUDE_DIR_ARCH slepcconf.h HINTS / PATH_SUFFIXES slepc
include include/slepc)
-- SLEPC_INCLUDE_DIR_COMMON not found! Call:
-- FIND_PATH(SLEPC_INCLUDE_DIR_COMMON slepcversion.h HINTS / PATH_SUFFIXES
slepc include include/slepc)
-- SLEPC_LIBRARIES: *** Required variable "SLEPC_LIBRARY" set to NOTFOUND ***
-- SLEPC_INCLUDE_DIRS: *** Required variable "SLEPC_INCLUDE_DIR_ARCH" set to
NOTFOUND ***
-- SLEPC_USER_INCLUDE_DIRS: *** Required variable "SLEPC_INCLUDE_DIR_ARCH"
set to NOTFOUND ***
-- Could NOT find SLEPC
-- DEAL_II_WITH_SLEPC has unmet external dependencies.
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_cpack.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_custom_targets.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_finalize.cmake
--
-- Include
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/setup_write_config.cmake
-- Query git repository information.
-- Could NOT find Git (missing: GIT_EXECUTABLE)
--
-- Configuring done. Proceed to target definitions now.
-- Setting up bundled features
-- BOOST::Iostreams will not support bz2'ed streams because libbz2 or its
header files could not be found
-- Performing Test DEAL_II_HAVE_FLAG_Wnested_anon_types
-- Performing Test DEAL_II_HAVE_FLAG_Wnested_anon_types - Failed
-- Setting up bundled features - Done
-- Setting up library
-- Setting up library - Done
-- Setting up project configuration
-- Setting up project configuration - Done
-- Setting up examples
-- Setting up examples - Done
-- Setting up quick_tests in DEBUG mode
-- Setting up quick_tests in DEBUG mode - Done
-- Setting up testsuite
-- Setting up testsuite - Done
###
#
# deal.II configuration:
# CMAKE_BUILD_TYPE: DebugRelease
# BUILD_SHARED_LIBS: ON
# CMAKE_INSTALL_PREFIX: /home/<username>/mylibs/dealii-8.4.1-PETSc
# CMAKE_SOURCE_DIR:
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc
# (version 8.4.1)
# CMAKE_BINARY_DIR:
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/build
# CMAKE_CXX_COMPILER: GNU 5.3.1 on platform Linux x86_64
# /usr/bin/c++
#
# Configured Features (DEAL_II_ALLOW_BUNDLED = ON, DEAL_II_ALLOW_AUTODETECTION
= ON):
# ( DEAL_II_WITH_64BIT_INDICES = OFF )
# ( DEAL_II_WITH_ARPACK = OFF )
# DEAL_II_WITH_BOOST set up with bundled packages
# ( DEAL_II_WITH_BZIP2 = OFF )
# DEAL_II_WITH_CXX11 = ON
# DEAL_II_WITH_CXX14 = ON
# ( DEAL_II_WITH_HDF5 = OFF )
# DEAL_II_WITH_LAPACK set up with external dependencies
# ( DEAL_II_WITH_METIS = OFF )
# DEAL_II_WITH_MPI set up with external dependencies
# DEAL_II_WITH_MUPARSER set up with bundled packages
# ( DEAL_II_WITH_NETCDF = OFF )
# ( DEAL_II_WITH_OPENCASCADE = OFF )
# ( DEAL_II_WITH_P4EST = OFF )
# DEAL_II_WITH_PETSC set up with external dependencies
# ( DEAL_II_WITH_SLEPC = OFF )
# DEAL_II_WITH_THREADS set up with bundled packages
# ( DEAL_II_WITH_TRILINOS = OFF )
# 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_PARAMETER_GUI = 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/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/build
$:~/Documents/Zipstore2/dealii-8.4.1-PETSc/build$ make test
Scanning dependencies of target test
[100%] Running quicktests...
Test project
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/build/tests/quick_tests
Start 1: step.debug
1/6 Test #1: step.debug .......................***Failed 19.56 sec
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_list_item_t_class'
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_class_initialize'
collect2: error: ld returned 1 exit status
make[7]: *** [tests/quick_tests/step.debug] Error 1
make[6]: *** [tests/quick_tests/CMakeFiles/step.debug.dir/all] Error 2
make[5]: *** [tests/quick_tests/CMakeFiles/step.debug.run.dir/rule] Error 2
make[4]: *** [step.debug.run] Error 2
Test step.debug: BUILD
=============================== OUTPUT BEGIN ===============================
step.debug: BUILD failed. Output:
Scanning dependencies of target kill-step.debug-OK
[ 0%] Built target kill-step.debug-OK
[ 1%] Built target expand_instantiations_exe
[ 3%] Built target obj_opencascade.inst
[ 3%] Built target obj_opencascade.debug
[ 9%] Built target obj_boost_serialization.debug
[ 9%] Built target obj_boost_system.debug
[ 11%] Built target obj_boost_iostreams.debug
[ 18%] Built target obj_tbb.debug
[ 19%] Built target obj_muparser.debug
[ 24%] Built target obj_numerics.inst
[ 32%] Built target obj_numerics.debug
[ 40%] Built target obj_fe.inst
[ 50%] Built target obj_fe.debug
[ 54%] Built target obj_dofs.inst
[ 57%] Built target obj_dofs.debug
[ 60%] Built target obj_lac.inst
[ 70%] Built target obj_lac.debug
[ 72%] Built target obj_base.inst
[ 81%] Built target obj_base.debug
[ 85%] Built target obj_grid.inst
[ 88%] Built target obj_grid.debug
[ 88%] Built target obj_hp.inst
[ 90%] Built target obj_hp.debug
[ 91%] Built target obj_multigrid.inst
[ 93%] Built target obj_multigrid.debug
[ 95%] Built target obj_distributed.inst
[ 96%] Built target obj_distributed.debug
[ 96%] Built target obj_algorithms.inst
[ 96%] Built target obj_algorithms.debug
[ 96%] Built target obj_matrix_free.inst
[ 98%] Built target obj_matrix_free.debug
[100%] Built target obj_meshworker.inst
[100%] Built target obj_meshworker.debug
[100%] Built target deal_II.g
Scanning dependencies of target step.debug
[100%] Building CXX object tests/quick_tests/CMakeFiles/step.debug.dir/step.cc.o
[100%] Linking CXX executable step.debug
tests/quick_tests/CMakeFiles/step.debug.dir/build.make:110: recipe for target
'tests/quick_tests/step.debug' failed
CMakeFiles/Makefile2:3087: recipe for target
'tests/quick_tests/CMakeFiles/step.debug.dir/all' failed
CMakeFiles/Makefile2:3384: recipe for target
'tests/quick_tests/CMakeFiles/step.debug.run.dir/rule' failed
Makefile:1111: recipe for target 'step.debug.run' failed
step.debug: ****** BUILD failed *******
=============================== OUTPUT END ===============================
Expected stage PASSED - aborting
CMake Error at
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/scripts/run_test.cmake:140
(MESSAGE):
*** abort
Start 2: step.release
2/6 Test #2: step.release .....................***Failed 18.39 sec
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_list_item_t_class'
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_class_initialize'
collect2: error: ld returned 1 exit status
make[7]: *** [tests/quick_tests/step.release] Error 1
make[6]: *** [tests/quick_tests/CMakeFiles/step.release.dir/all] Error 2
make[5]: *** [tests/quick_tests/CMakeFiles/step.release.run.dir/rule] Error 2
make[4]: *** [step.release.run] Error 2
Test step.release: BUILD
=============================== OUTPUT BEGIN ===============================
step.release: BUILD failed. Output:
Scanning dependencies of target kill-step.release-OK
[ 0%] Built target kill-step.release-OK
[ 1%] Built target expand_instantiations_exe
[ 3%] Built target obj_opencascade.inst
[ 3%] Built target obj_opencascade.release
[ 8%] Built target obj_boost_serialization.release
[ 8%] Built target obj_boost_system.release
[ 8%] Built target obj_boost_iostreams.release
[ 15%] Built target obj_tbb.release
[ 17%] Built target obj_muparser.release
[ 22%] Built target obj_numerics.inst
[ 29%] Built target obj_numerics.release
[ 38%] Built target obj_fe.inst
[ 49%] Built target obj_fe.release
[ 52%] Built target obj_dofs.inst
[ 54%] Built target obj_dofs.release
[ 57%] Built target obj_lac.inst
[ 68%] Built target obj_lac.release
[ 70%] Built target obj_base.inst
[ 82%] Built target obj_base.release
[ 85%] Built target obj_grid.inst
[ 89%] Built target obj_grid.release
[ 89%] Built target obj_hp.inst
[ 91%] Built target obj_hp.release
[ 92%] Built target obj_multigrid.inst
[ 94%] Built target obj_multigrid.release
[ 96%] Built target obj_distributed.inst
[ 96%] Built target obj_distributed.release
[ 96%] Built target obj_algorithms.inst
[ 98%] Built target obj_algorithms.release
[ 98%] Built target obj_matrix_free.inst
[ 98%] Built target obj_matrix_free.release
[100%] Built target obj_meshworker.inst
[100%] Built target obj_meshworker.release
[100%] Built target deal_II
Scanning dependencies of target step.release
[100%] Building CXX object
tests/quick_tests/CMakeFiles/step.release.dir/step.cc.o
[100%] Linking CXX executable step.release
tests/quick_tests/CMakeFiles/step.release.dir/build.make:110: recipe for target
'tests/quick_tests/step.release' failed
CMakeFiles/Makefile2:3571: recipe for target
'tests/quick_tests/CMakeFiles/step.release.dir/all' failed
CMakeFiles/Makefile2:3287: recipe for target
'tests/quick_tests/CMakeFiles/step.release.run.dir/rule' failed
Makefile:1072: recipe for target 'step.release.run' failed
step.release: ****** BUILD failed *******
=============================== OUTPUT END ===============================
Expected stage PASSED - aborting
CMake Error at
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/scripts/run_test.cmake:140
(MESSAGE):
*** abort
Start 3: affinity.debug
3/6 Test #3: affinity.debug ...................***Failed 13.10 sec
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_list_item_t_class'
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_class_initialize'
collect2: error: ld returned 1 exit status
make[7]: *** [tests/quick_tests/affinity.debug] Error 1
make[6]: *** [tests/quick_tests/CMakeFiles/affinity.debug.dir/all] Error 2
make[5]: *** [tests/quick_tests/CMakeFiles/affinity.debug.run.dir/rule] Error 2
make[4]: *** [affinity.debug.run] Error 2
Test affinity.debug: BUILD
=============================== OUTPUT BEGIN ===============================
affinity.debug: BUILD failed. Output:
Scanning dependencies of target kill-affinity.debug-OK
[ 0%] Built target kill-affinity.debug-OK
[ 1%] Built target expand_instantiations_exe
[ 3%] Built target obj_opencascade.inst
[ 3%] Built target obj_opencascade.debug
[ 9%] Built target obj_boost_serialization.debug
[ 9%] Built target obj_boost_system.debug
[ 11%] Built target obj_boost_iostreams.debug
[ 18%] Built target obj_tbb.debug
[ 19%] Built target obj_muparser.debug
[ 24%] Built target obj_numerics.inst
[ 32%] Built target obj_numerics.debug
[ 40%] Built target obj_fe.inst
[ 50%] Built target obj_fe.debug
[ 54%] Built target obj_dofs.inst
[ 57%] Built target obj_dofs.debug
[ 60%] Built target obj_lac.inst
[ 70%] Built target obj_lac.debug
[ 72%] Built target obj_base.inst
[ 81%] Built target obj_base.debug
[ 85%] Built target obj_grid.inst
[ 88%] Built target obj_grid.debug
[ 88%] Built target obj_hp.inst
[ 90%] Built target obj_hp.debug
[ 91%] Built target obj_multigrid.inst
[ 93%] Built target obj_multigrid.debug
[ 95%] Built target obj_distributed.inst
[ 96%] Built target obj_distributed.debug
[ 96%] Built target obj_algorithms.inst
[ 96%] Built target obj_algorithms.debug
[ 96%] Built target obj_matrix_free.inst
[ 98%] Built target obj_matrix_free.debug
[100%] Built target obj_meshworker.inst
[100%] Built target obj_meshworker.debug
[100%] Built target deal_II.g
Scanning dependencies of target affinity.debug
[100%] Building CXX object
tests/quick_tests/CMakeFiles/affinity.debug.dir/affinity.cc.o
[100%] Linking CXX executable affinity.debug
tests/quick_tests/CMakeFiles/affinity.debug.dir/build.make:110: recipe for
target 'tests/quick_tests/affinity.debug' failed
CMakeFiles/Makefile2:3345: recipe for target
'tests/quick_tests/CMakeFiles/affinity.debug.dir/all' failed
CMakeFiles/Makefile2:3319: recipe for target
'tests/quick_tests/CMakeFiles/affinity.debug.run.dir/rule' failed
Makefile:1085: recipe for target 'affinity.debug.run' failed
affinity.debug: ****** BUILD failed *******
=============================== OUTPUT END ===============================
Expected stage PASSED - aborting
CMake Error at
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/scripts/run_test.cmake:140
(MESSAGE):
*** abort
Start 4: mpi.debug
4/6 Test #4: mpi.debug ........................***Failed 12.80 sec
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/tests/quick_tests/mpi.cc:
In function ‘int main(int, char**)’:
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/tests/quick_tests/mpi.cc:43:7:
warning: variable ‘err’ set but not used [-Wunused-but-set-variable]
int err;
^
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_list_item_t_class'
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_class_initialize'
collect2: error: ld returned 1 exit status
make[7]: *** [tests/quick_tests/mpi.debug] Error 1
make[6]: *** [tests/quick_tests/CMakeFiles/mpi.debug.dir/all] Error 2
make[5]: *** [tests/quick_tests/CMakeFiles/mpi.debug.run.dir/rule] Error 2
make[4]: *** [mpi.debug.run] Error 2
Test mpi.debug: BUILD
=============================== OUTPUT BEGIN ===============================
mpi.debug: BUILD failed. Output:
Scanning dependencies of target kill-mpi.debug-OK
[ 0%] Built target kill-mpi.debug-OK
[ 1%] Built target expand_instantiations_exe
[ 3%] Built target obj_opencascade.inst
[ 3%] Built target obj_opencascade.debug
[ 9%] Built target obj_boost_serialization.debug
[ 9%] Built target obj_boost_system.debug
[ 11%] Built target obj_boost_iostreams.debug
[ 18%] Built target obj_tbb.debug
[ 19%] Built target obj_muparser.debug
[ 24%] Built target obj_numerics.inst
[ 32%] Built target obj_numerics.debug
[ 40%] Built target obj_fe.inst
[ 50%] Built target obj_fe.debug
[ 54%] Built target obj_dofs.inst
[ 57%] Built target obj_dofs.debug
[ 60%] Built target obj_lac.inst
[ 70%] Built target obj_lac.debug
[ 72%] Built target obj_base.inst
[ 81%] Built target obj_base.debug
[ 85%] Built target obj_grid.inst
[ 88%] Built target obj_grid.debug
[ 88%] Built target obj_hp.inst
[ 90%] Built target obj_hp.debug
[ 91%] Built target obj_multigrid.inst
[ 93%] Built target obj_multigrid.debug
[ 95%] Built target obj_distributed.inst
[ 96%] Built target obj_distributed.debug
[ 96%] Built target obj_algorithms.inst
[ 96%] Built target obj_algorithms.debug
[ 96%] Built target obj_matrix_free.inst
[ 98%] Built target obj_matrix_free.debug
[100%] Built target obj_meshworker.inst
[100%] Built target obj_meshworker.debug
[100%] Built target deal_II.g
Scanning dependencies of target mpi.debug
[100%] Building CXX object tests/quick_tests/CMakeFiles/mpi.debug.dir/mpi.cc.o
[100%] Linking CXX executable mpi.debug
tests/quick_tests/CMakeFiles/mpi.debug.dir/build.make:110: recipe for target
'tests/quick_tests/mpi.debug' failed
CMakeFiles/Makefile2:3120: recipe for target
'tests/quick_tests/CMakeFiles/mpi.debug.dir/all' failed
CMakeFiles/Makefile2:3416: recipe for target
'tests/quick_tests/CMakeFiles/mpi.debug.run.dir/rule' failed
Makefile:1124: recipe for target 'mpi.debug.run' failed
mpi.debug: ****** BUILD failed *******
=============================== OUTPUT END ===============================
Expected stage PASSED - aborting
CMake Error at
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/scripts/run_test.cmake:140
(MESSAGE):
*** abort
Start 5: tbb.debug
5/6 Test #5: tbb.debug ........................***Failed 12.21 sec
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/tests/quick_tests/tbb.cc:50:29:
warning: unused parameter ‘scratch’ [-Wunused-parameter]
scratch_data &scratch,
^
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_list_item_t_class'
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_class_initialize'
collect2: error: ld returned 1 exit status
make[7]: *** [tests/quick_tests/tbb.debug] Error 1
make[6]: *** [tests/quick_tests/CMakeFiles/tbb.debug.dir/all] Error 2
make[5]: *** [tests/quick_tests/CMakeFiles/tbb.debug.run.dir/rule] Error 2
make[4]: *** [tbb.debug.run] Error 2
Test tbb.debug: BUILD
=============================== OUTPUT BEGIN ===============================
tbb.debug: BUILD failed. Output:
Scanning dependencies of target kill-tbb.debug-OK
[ 0%] Built target kill-tbb.debug-OK
[ 1%] Built target expand_instantiations_exe
[ 3%] Built target obj_opencascade.inst
[ 3%] Built target obj_opencascade.debug
[ 9%] Built target obj_boost_serialization.debug
[ 9%] Built target obj_boost_system.debug
[ 11%] Built target obj_boost_iostreams.debug
[ 18%] Built target obj_tbb.debug
[ 19%] Built target obj_muparser.debug
[ 24%] Built target obj_numerics.inst
[ 32%] Built target obj_numerics.debug
[ 40%] Built target obj_fe.inst
[ 50%] Built target obj_fe.debug
[ 54%] Built target obj_dofs.inst
[ 57%] Built target obj_dofs.debug
[ 60%] Built target obj_lac.inst
[ 70%] Built target obj_lac.debug
[ 72%] Built target obj_base.inst
[ 81%] Built target obj_base.debug
[ 85%] Built target obj_grid.inst
[ 88%] Built target obj_grid.debug
[ 88%] Built target obj_hp.inst
[ 90%] Built target obj_hp.debug
[ 91%] Built target obj_multigrid.inst
[ 93%] Built target obj_multigrid.debug
[ 95%] Built target obj_distributed.inst
[ 96%] Built target obj_distributed.debug
[ 96%] Built target obj_algorithms.inst
[ 96%] Built target obj_algorithms.debug
[ 96%] Built target obj_matrix_free.inst
[ 98%] Built target obj_matrix_free.debug
[100%] Built target obj_meshworker.inst
[100%] Built target obj_meshworker.debug
[100%] Built target deal_II.g
Scanning dependencies of target tbb.debug
[100%] Building CXX object tests/quick_tests/CMakeFiles/tbb.debug.dir/tbb.cc.o
[100%] Linking CXX executable tbb.debug
tests/quick_tests/CMakeFiles/tbb.debug.dir/build.make:110: recipe for target
'tests/quick_tests/tbb.debug' failed
CMakeFiles/Makefile2:3668: recipe for target
'tests/quick_tests/CMakeFiles/tbb.debug.dir/all' failed
CMakeFiles/Makefile2:3223: recipe for target
'tests/quick_tests/CMakeFiles/tbb.debug.run.dir/rule' failed
Makefile:1046: recipe for target 'tbb.debug.run' failed
tbb.debug: ****** BUILD failed *******
=============================== OUTPUT END ===============================
Expected stage PASSED - aborting
CMake Error at
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/scripts/run_test.cmake:140
(MESSAGE):
*** abort
Start 6: step-petsc.debug
6/6 Test #6: step-petsc.debug .................***Failed 16.58 sec
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_list_item_t_class'
/usr/lib/openmpi/lib/libmpi_cxx.so: error: undefined reference to
'opal_class_initialize'
collect2: error: ld returned 1 exit status
make[7]: *** [tests/quick_tests/step-petsc.debug] Error 1
make[6]: *** [tests/quick_tests/CMakeFiles/step-petsc.debug.dir/all] Error 2
make[5]: *** [tests/quick_tests/CMakeFiles/step-petsc.debug.run.dir/rule] Error
2
make[4]: *** [step-petsc.debug.run] Error 2
Test step-petsc.debug: BUILD
=============================== OUTPUT BEGIN ===============================
step-petsc.debug: BUILD failed. Output:
Scanning dependencies of target kill-step-petsc.debug-OK
[ 0%] Built target kill-step-petsc.debug-OK
[ 1%] Built target expand_instantiations_exe
[ 3%] Built target obj_opencascade.inst
[ 3%] Built target obj_opencascade.debug
[ 9%] Built target obj_boost_serialization.debug
[ 9%] Built target obj_boost_system.debug
[ 11%] Built target obj_boost_iostreams.debug
[ 17%] Built target obj_tbb.debug
[ 19%] Built target obj_muparser.debug
[ 24%] Built target obj_numerics.inst
[ 32%] Built target obj_numerics.debug
[ 40%] Built target obj_fe.inst
[ 50%] Built target obj_fe.debug
[ 53%] Built target obj_dofs.inst
[ 56%] Built target obj_dofs.debug
[ 59%] Built target obj_lac.inst
[ 69%] Built target obj_lac.debug
[ 70%] Built target obj_base.inst
[ 80%] Built target obj_base.debug
[ 83%] Built target obj_grid.inst
[ 87%] Built target obj_grid.debug
[ 87%] Built target obj_hp.inst
[ 88%] Built target obj_hp.debug
[ 90%] Built target obj_multigrid.inst
[ 91%] Built target obj_multigrid.debug
[ 93%] Built target obj_distributed.inst
[ 95%] Built target obj_distributed.debug
[ 95%] Built target obj_algorithms.inst
[ 95%] Built target obj_algorithms.debug
[ 95%] Built target obj_matrix_free.inst
[ 96%] Built target obj_matrix_free.debug
[ 98%] Built target obj_meshworker.inst
[ 98%] Built target obj_meshworker.debug
[ 98%] Built target deal_II.g
Scanning dependencies of target step-petsc.debug
[ 98%] Building CXX object
tests/quick_tests/CMakeFiles/step-petsc.debug.dir/step-petsc.cc.o
[100%] Linking CXX executable step-petsc.debug
tests/quick_tests/CMakeFiles/step-petsc.debug.dir/build.make:110: recipe for
target 'tests/quick_tests/step-petsc.debug' failed
CMakeFiles/Makefile2:3506: recipe for target
'tests/quick_tests/CMakeFiles/step-petsc.debug.dir/all' failed
CMakeFiles/Makefile2:3545: recipe for target
'tests/quick_tests/CMakeFiles/step-petsc.debug.run.dir/rule' failed
Makefile:1176: recipe for target 'step-petsc.debug.run' failed
step-petsc.debug: ****** BUILD failed *******
=============================== OUTPUT END ===============================
Expected stage PASSED - aborting
CMake Error at
/home/<username>/Documents/Zipstore2/dealii-8.4.1-PETSc/cmake/scripts/run_test.cmake:140
(MESSAGE):
*** abort
0% tests passed, 6 tests failed out of 6
Total Test time (real) = 92.65 sec
The following tests FAILED:
1 - step.debug (Failed)
2 - step.release (Failed)
3 - affinity.debug (Failed)
4 - mpi.debug (Failed)
5 - tbb.debug (Failed)
6 - step-petsc.debug (Failed)
Errors while running CTest
******************************* WARNING *******************************
Some of the tests failed!
Please scroll up or check the file tests/quick_tests/quicktests.log for the
error messages. If you are unable to fix the problems, see the FAQ or write
to the mailing list linked at http://www.dealii.org
The affinity test can fail when you are linking in a library like BLAS
which uses OpenMP. Even without calling any BLAS functions, OpenMP messes
with the thread affinity which causes TBB to run single-threaded only. You
can fix this by exporting OMP_NUM_THREADS=1. Also see GOMP_CPU_AFFINITY
and OMP_PROC_BIND.
Additional information about PETSc issues is available
at:
http://www.dealii.org/developer/external-libs/petsc.html
[101%] Built target test
