Try building MPICH with the additional flags: 'LDFLAGS=-Wl,-ld_classic -Wl,-commons,use_dylibs'
some of the MacOS/Xcode15+/Mumps issues are discussed at https://urldefense.us/v3/__https://gitlab.com/petsc/petsc/-/issues/1637__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-ihWbYQxQ$ We do not know the exact reason why MUMPS fails [without these extra options] Satish On Fri, 15 Nov 2024, David Jiawei LUO LIANG wrote: > My MacBook is M2 > gcc, g++, c++, cpp version is : > > Apple clang version 16.0.0 (clang-1600.0.26.4) > > Target: arm64-apple-darwin24.1.0 > > Thread model: posix > > InstalledDir: /Library/Developer/CommandLineTools/usr/bin > > > > # install mpich by source > ./configure --prefix=/Users/lawkawai/lib/mpich-4.2.3-opt > > config.status: executing gen_binding_f90 commands > > [ ./maint/gen_binding_f90.py -f-logical-size=4 -ignore-tkr=gcc ] > > --> [src/binding/fortran/use_mpi/mpi_base.f90] > > --> [src/binding/fortran/use_mpi/pmpi_base.f90] > > --> [src/binding/fortran/use_mpi/mpi_constants.f90] > > --> [src/binding/fortran/use_mpi/mpi_sizeofs.f90] > > ***************************************************** > > *** > > *** device : ch4:ofi (embedded libfabric) > > *** shm feature : auto > > *** gpu support : disabled > > *** > > MPICH is configured with device ch4:ofi, which should work > > for TCP networks and any high-bandwidth interconnect > > supported by libfabric. MPICH can also be configured with > > "--with-device=ch4:ucx", which should work for TCP networks > > and any high-bandwidth interconnect supported by the UCX > > library. In addition, the legacy device ch3 (--with-device=ch3) > > is also available. > > ***************************************************** > > Configuration completed. > > > make -j6 2>&1 | tee m.txt > > MOD src/binding/fortran/use_mpi/mpi.mod-stamp > > copying selected object files to avoid basename conflicts... > > GEN lib/libmpi.la > > CXXLD lib/libmpicxx.la > > GEN lib/libmpifort.la > > CCLD src/env/mpichversion > > CCLD src/env/mpivars > > ld: warning: -dylib_file is deprecated. Use -F or -L to control where > indirect dylibs are found > > ld: warning: -dylib_file is deprecated. Use -F or -L to control where > indirect dylibs are found > > Making all in examples > > CC cpi.o > > CCLD cpi > > > > make install 2>&1 | tee mi.txt > > /usr/bin/install -c -m 644 index.htm > /Users/lawkawai/lib/mpich-4.2.3-opt/share/doc/mpich/www3/index.htm > > /usr/bin/install -c -m 644 mpi.cit > /Users/lawkawai/lib/mpich-4.2.3-opt/share/doc/mpich/www3/mpi.cit > > if [ ! -e /Users/lawkawai/lib/mpich-4.2.3-opt/share/doc/mpich ] ; then mkdir > -p /Users/lawkawai/lib/mpich-4.2.3-opt/share/doc/mpich ; fi > > if [ -s ./doc/userguide/user.pdf ] ; then /usr/bin/install -c -m 644 > ./doc/userguide/user.pdf > /Users/lawkawai/lib/mpich-4.2.3-opt/share/doc/mpich/user.pdf ; fi > > if [ -s ./doc/installguide/install.pdf ] ; then /usr/bin/install -c -m 644 > ./doc/installguide/install.pdf > /Users/lawkawai/lib/mpich-4.2.3-opt/share/doc/mpich/install.pdf ; fi > > if [ -s ./doc/logging/logging.pdf ] ; then /usr/bin/install -c -m 644 > ./doc/logging/logging.pdf > /Users/lawkawai/lib/mpich-4.2.3-opt/share/doc/mpich/logging.pdf ; fi > > mkdir -p '/Users/lawkawai/lib/mpich-4.2.3-opt/include' > > /usr/bin/install -c -m 644 src/include/mpi_proto.h > '/Users/lawkawai/lib/mpich-4.2.3-opt/include' > > mkdir -p '/Users/lawkawai/lib/mpich-4.2.3-opt/include' > > /usr/bin/install -c -m 644 src/binding/fortran/use_mpi/mpi.mod > src/binding/fortran/use_mpi/mpi_sizeofs.mod > src/binding/fortran/use_mpi/mpi_constants.mod > src/binding/fortran/use_mpi/mpi_base.mod > src/binding/fortran/use_mpi/pmpi_base.mod > '/Users/lawkawai/lib/mpich-4.2.3-opt/include' > > mkdir -p '/Users/lawkawai/lib/mpich-4.2.3-opt/include' > > /usr/bin/install -c -m 644 src/binding/cxx/mpicxx.h > src/binding/fortran/mpif_h/mpif.h src/include/mpi.h > '/Users/lawkawai/lib/mpich-4.2.3-opt/include' > > mkdir -p '/Users/lawkawai/lib/mpich-4.2.3-opt/lib/pkgconfig' > > /usr/bin/install -c -m 644 src/packaging/pkgconfig/mpich.pc > '/Users/lawkawai/lib/mpich-4.2.3-opt/lib/pkgconfig' > > Making install in examples > > make[3]: Nothing to be done for `install-exec-am'. > > make[3]: Nothing to be done for `install-data-am'. > > > > export PATH=/Users/jiaweiluo/lib/mpich-4.2.3-opt/bin:$PATH > source ~/.zshrc > which mpicc > > /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpicc > > > > # install vtk by source > cmake ../VTK-9.3.1-src/ > -DCMAKE_INSTALL_PREFIX=/Users/lawkawai/lib/VTK-9.3.1-shared > -DBUILD_SHARED_LIBS=ON -DCMAKE_BUILD_TYPE=Release > > > > > -- Configuring done (44.3s) > > -- Generating done (1.8s) > > -- Build files have been written to: /Users/lawkawai/lib/build_vtk > > > > make -j4 > > [100%] Building CXX object > Views/Infovis/CMakeFiles/ViewsInfovis.dir/vtkViewUpdater.cxx.o > > [100%] Linking CXX shared library ../../lib/libvtkViewsInfovis-9.3.dylib > > [100%] Built target ViewsInfovis > > > > make install > > -- Installing: > /Users/lawkawai/lib/VTK-9.3.1-shared/lib/cmake/vtk-9.3/VTK-vtk-module-find-packages.cmake > > -- Installing: > /Users/lawkawai/lib/VTK-9.3.1-shared/share/licenses/VTK/Copyright.txt > > > > export > LD_LIBRARY_PATH=/Users/lawkawai/lib/VTK-9.3.1-shared/lib:$LD_LIBRARY_PATH > source ~/.zshrc > > > # install petsc by source > ./configure --with-x=0 -with-pic --with-make-np=4 --with-mpi-compilers=1 > --with-mpi-dir=/Users/lawkawai/lib/mpich-4.2.3-opt/ --with-scalar-type=real > --with-precision=double --with-mumps=1 --download-mumps --with-scalapack=1 > --download-scalapack --with-blacs=1 --download-blacs --download-fblaslapack > --download-metis --download-hdf5 --with-debugging=no --download-slepc > --prefix=/Users/lawkawai/lib/petsc-3.22.1-opt > > ================================================================================ > > > Configuring PETSc to compile on your system > > ================================================================================ > > ================================================================================ > > > ***** WARNING ***** > > Found environment variable: FFLAGS=-w -fallow-argument-mismatch -O2. > Ignoring it! Use > > "./configure FFLAGS=$FFLAGS" if you really want to use this value > > ================================================================================ > > ================================================================================ > > > ***** WARNING ***** > > Using default C optimization flags "-g -O3". You might consider > manually setting optimal > > optimization flags for your system with COPTFLAGS="optimization flags" > see > > config/examples/arch-*-opt.py for examples > > ================================================================================ > > ================================================================================ > > > ***** WARNING ***** > > Using default Cxx optimization flags "-g -O3". You might consider > manually setting > > optimal optimization flags for your system with > CXXOPTFLAGS="optimization flags" see > > config/examples/arch-*-opt.py for examples > > ================================================================================ > > ================================================================================ > > > ***** WARNING ***** > > Using default FC optimization flags "-g -O". You might consider > manually setting optimal > > optimization flags for your system with FOPTFLAGS="optimization flags" > see > > config/examples/arch-*-opt.py for examples > > ================================================================================ > > ================================================================================ > > Trying to download > > > https://urldefense.us/v3/__https://web.cels.anl.gov/projects/petsc/download/externalpackages/hdf5-1.14.3-p1.tar.bz2__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-iokRZNRw$ > > > for HDF5 > > ================================================================================ > > ================================================================================ > > Running > configure on HDF5; this may take several minutes > > ================================================================================ > > ================================================================================ > > > Running make on HDF5; this may take several minutes > > ================================================================================ > > ================================================================================ > > Running make > install on HDF5; this may take several minutes > > ================================================================================ > > ================================================================================ > > Trying to download > https://urldefense.us/v3/__https://bitbucket.org/petsc/pkg-fblaslapack__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-g9jVmOlQ$ > for FBLASLAPACK > > ================================================================================ > > ================================================================================ > > > Compiling FBLASLAPACK; this may take several minutes > > ================================================================================ > > ================================================================================ > > Trying to download > https://urldefense.us/v3/__https://bitbucket.org/petsc/pkg-metis.git__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-itjk178Q$ > for METIS > > ================================================================================ > > ================================================================================ > > Configuring > METIS with CMake; this may take several minutes > > ================================================================================ > > ================================================================================ > > Compiling and > installing METIS; this may take several minutes > > ================================================================================ > > ================================================================================ > > Trying to download > https://urldefense.us/v3/__https://github.com/Reference-ScaLAPACK/scalapack__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-isrxMi_g$ > for SCALAPACK > > ================================================================================ > > ================================================================================ > > Configuring SCALAPACK > with CMake; this may take several minutes > > ================================================================================ > > ================================================================================ > > Compiling and installing > SCALAPACK; this may take several minutes > > ================================================================================ > > ================================================================================ > > Trying to download > https://urldefense.us/v3/__https://mumps-solver.org/MUMPS_5.7.3.tar.gz__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-ivKujXlg$ > for MUMPS > > ================================================================================ > > ================================================================================ > > > Compiling MUMPS; this may take several minutes > > ================================================================================ > > ================================================================================ > > > Installing MUMPS; this may take several minutes > > ================================================================================ > > ================================================================================ > > Trying to download > https://urldefense.us/v3/__https://gitlab.com/slepc/slepc.git__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-jDO9ptcw$ > for SLEPC > > ================================================================================ > > ================================================================================ > > SLEPc examples are available at > arch-darwin-c-opt/externalpackages/git.slepc > > export SLEPC_DIR=/Users/lawkawai/lib/petsc-3.22.1-opt > > ================================================================================ > > Compilers: > > C Compiler: > /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpicc -fPIC -Wall > -Wwrite-strings -Wno-unknown-pragmas -Wconversion -Wno-sign-conversion > -Wno-float-conversion -Wno-implicit-float-conversion -fstack-protector > -fno-stack-check -Qunused-arguments -fvisibility=hidden -Wall -Wwrite-strings > -Wno-unknown-pragmas -Wconversion -Wno-sign-conversion -Wno-float-conversion > -Wno-implicit-float-conversion -fstack-protector -fno-stack-check > -Qunused-arguments -fvisibility=hidden -g -O3 > > Version: Apple clang version 16.0.0 (clang-1600.0.26.4) > > C++ Compiler: > /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpicxx -Wall -Wwrite-strings > -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fno-stack-check > -fvisibility=hidden -Wall -Wwrite-strings -Wno-strict-aliasing > -Wno-unknown-pragmas -fstack-protector -fno-stack-check -fvisibility=hidden > -g -O3 -std=gnu++20 -fPIC > > Version: Apple clang version 16.0.0 (clang-1600.0.26.4) > > Fortran Compiler: > /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpif90 -fPIC -Wall > -ffree-line-length-none -ffree-line-length-0 -Wno-lto-type-mismatch > -Wno-unused-dummy-argument -Wall -ffree-line-length-none -ffree-line-length-0 > -Wno-lto-type-mismatch -Wno-unused-dummy-argument -g -O > > Version: GNU Fortran (Homebrew GCC 14.2.0_1) 14.2.0 > > Linkers: > > Shared linker: > /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpicc -dynamiclib -undefined > dynamic_lookup -fPIC -Wall -Wwrite-strings -Wno-unknown-pragmas > -Wconversion -Wno-sign-conversion -Wno-float-conversion > -Wno-implicit-float-conversion -fstack-protector -fno-stack-check > -Qunused-arguments -fvisibility=hidden -Wall -Wwrite-strings > -Wno-unknown-pragmas -Wconversion -Wno-sign-conversion -Wno-float-conversion > -Wno-implicit-float-conversion -fstack-protector -fno-stack-check > -Qunused-arguments -fvisibility=hidden -g -O3 > > Dynamic linker: > /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpicc -dynamiclib -undefined > dynamic_lookup -fPIC -Wall -Wwrite-strings -Wno-unknown-pragmas > -Wconversion -Wno-sign-conversion -Wno-float-conversion > -Wno-implicit-float-conversion -fstack-protector -fno-stack-check > -Qunused-arguments -fvisibility=hidden -Wall -Wwrite-strings > -Wno-unknown-pragmas -Wconversion -Wno-sign-conversion -Wno-float-conversion > -Wno-implicit-float-conversion -fstack-protector -fno-stack-check > -Qunused-arguments -fvisibility=hidden -g -O3 > > Libraries linked against: > > BlasLapack: > > Libraries: -Wl,-rpath,/Users/lawkawai/lib/petsc-3.22.1-opt/lib > -L/Users/lawkawai/lib/petsc-3.22.1-opt/lib -lflapack -lfblas > > uses 4 byte integers > > MPI: > > Version: 4 > > Includes: -I/Users/lawkawai/lib/mpich-4.2.3-opt/include > > mpiexec: /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpiexec > > Implementation: mpich4 > > MPICH_NUMVERSION: 40203300 > > python: > > Executable: /opt/homebrew/opt/python@3.13/bin/python3.13 > > pthread: > > cmake: > > Version: 3.31.0 > > Executable: /opt/homebrew/bin/cmake > > fblaslapack: > > hdf5: > > Version: 1.14.3 > > Includes: -I/Users/lawkawai/lib/petsc-3.22.1-opt/include > > Libraries: -Wl,-rpath,/Users/lawkawai/lib/petsc-3.22.1-opt/lib > -L/Users/lawkawai/lib/petsc-3.22.1-opt/lib -lhdf5_hl -lhdf5 > > metis: > > Version: 5.1.0 > > Includes: -I/Users/lawkawai/lib/petsc-3.22.1-opt/include > > Libraries: -Wl,-rpath,/Users/lawkawai/lib/petsc-3.22.1-opt/lib > -L/Users/lawkawai/lib/petsc-3.22.1-opt/lib -lmetis > > slepc: > > Version: 3.22.0 > > Includes: -I/Users/lawkawai/lib/petsc-3.22.1-opt/include > > Libraries: -Wl,-rpath,/Users/lawkawai/lib/petsc-3.22.1-opt/lib > -L/Users/lawkawai/lib/petsc-3.22.1-opt/lib -lslepc > > regex: > > bison: > > Version: 2.3 > > Executable: /usr/bin/bison > > MUMPS: > > Version: 5.7.3 > > Includes: -I/Users/lawkawai/lib/petsc-3.22.1-opt/include > > Libraries: -Wl,-rpath,/Users/lawkawai/lib/petsc-3.22.1-opt/lib > -L/Users/lawkawai/lib/petsc-3.22.1-opt/lib -ldmumps -lmumps_common -lpord > -lpthread > > scalapack: > > Libraries: -Wl,-rpath,/Users/lawkawai/lib/petsc-3.22.1-opt/lib > -L/Users/lawkawai/lib/petsc-3.22.1-opt/lib -lscalapack > > PETSc: > > Language used to compile PETSc: C > > PETSC_ARCH: arch-darwin-c-opt > > PETSC_DIR: /Users/lawkawai/lib/petsc-3.22.1-src > > Prefix: /Users/lawkawai/lib/petsc-3.22.1-opt > > Scalar type: real > > Precision: double > > Support for __fp16 > > Integer size: 4 bytes > > Single library: yes > > Shared libraries: yes > > Memory alignment from malloc(): 16 bytes > > Using GNU make: /opt/homebrew/bin/gmake > > xxx=======================================================================================xxx > > Configure stage complete. Now build PETSc libraries with: > > make PETSC_DIR=/Users/lawkawai/lib/petsc-3.22.1-src > PETSC_ARCH=arch-darwin-c-opt all > > xxx=======================================================================================xxx > > > > make PETSC_DIR=/Users/lawkawai/lib/petsc-3.22.1-src > PETSC_ARCH=arch-darwin-c-opt all > > CLINKER arch-darwin-c-opt/lib/libpetsc.3.22.1.dylib > > DSYMUTIL arch-darwin-c-opt/lib/libpetsc.3.22.1.dylib > > gmake[3]: Leaving directory '/Users/lawkawai/lib/petsc-3.22.1-src' > > gmake[2]: Leaving directory '/Users/lawkawai/lib/petsc-3.22.1-src' > > ========================================= > > Now to install the libraries do: > > make PETSC_DIR=/Users/lawkawai/lib/petsc-3.22.1-src > PETSC_ARCH=arch-darwin-c-opt install > > > > make PETSC_DIR=/Users/lawkawai/lib/petsc-3.22.1-src > PETSC_ARCH=arch-darwin-c-opt install > > > *** Installing SLEPc *** > > *** Installing SLEPc at prefix location: > /Users/lawkawai/lib/petsc-3.22.1-opt *** > > ==================================== > > Install complete. > > Now to check if the libraries are working do (in current directory): > > make SLEPC_DIR=/Users/lawkawai/lib/petsc-3.22.1-opt > PETSC_DIR=/Users/lawkawai/lib/petsc-3.22.1-opt PETSC_ARCH="" check > > ==================================== > > /opt/homebrew/bin/gmake --no-print-directory -f makefile > PETSC_ARCH=installed-arch-darwin-c-opt > PETSC_DIR=/Users/lawkawai/lib/petsc-3.22.1-opt > SLEPC_DIR=/Users/lawkawai/lib/petsc-3.22.1-src/arch-darwin-c-opt/externalpackages/git.slepc > install-builtafterslepc > > /opt/homebrew/bin/gmake --no-print-directory -f makefile > PETSC_ARCH=installed-arch-darwin-c-opt > PETSC_DIR=/Users/lawkawai/lib/petsc-3.22.1-opt > SLEPC_DIR=/Users/lawkawai/lib/petsc-3.22.1-src/arch-darwin-c-opt/externalpackages/git.slepc > slepc4py-install > > gmake[7]: Nothing to be done for 'slepc4py-install'. > > gmake[3]: Nothing to be done for 'hpddm-install'. > > gmake[3]: Nothing to be done for 'amrex-install'. > > gmake[3]: Nothing to be done for 'bamg-install'. > > > > when I run my software > # my cmake > # This is a sample code that provide a linkage between the > # PERIGEE code and external libraries. Users will have to > # provide correct values for the libraries, according to their > # installation. > # This one is a sample one, assuming the libraries are installed > # following the guide documented in > # > https://urldefense.us/v3/__https://github.com/ju-liu/PERIGEE-NS/blob/master/install-external-libs.md__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-inbMZ2Vw$ > > # The value of $HOME is /Users/lawkawai > > # ======================================================== > # Specify the library locations > # ======================================================== > # VTK_DIR should be the vtk directory/lib/cmake/vtk-version, > # which contains VTKConfig.cmake file. > # In the guide, vtk directory is $HOME/lib/VTK-7.1.1-shared > set(VTK_DIR /Users/lawkawai/lib/VTK-9.3.1-shared/lib/cmake/vtk-9.3) > > # Modify the PETSC_DIR variable to point to the location of PETSc. > set(PETSC_DIR /Users/lawkawai/lib/petsc-3.22.1-opt) > > # Modify the SLEPC_DIR > set(SLEPC_DIR ${PETSC_DIR}) > > # Modify the PETSC_ARCH variable. You can find it in your configuration > # output. If you forget it, go to your PETSc home director and open > # configure.log. Go the end of the file, and you shall find the value > # of PETSC_ARCH > set(PETSC_ARCH .) > > # Modify the METIS_DIR. > # Note: If your PETSc has METIS installed, the conf > # file will directly load that METIS; otherwise this METIS will > # be used for PERIGEE. This means, if you are sure that you have > # METIS in PETSc, you do not have to specify the METIS_DIR variable. > set(METIS_DIR ${PETSC_DIR}) > > # Modify the HDF5_ROOT, pointing to your hdf5 library location > set(HDF5_ROOT ${PETSC_DIR}) > > set(YAML_DIR /Users/lawkawai/lib/yaml-shared) > > # set(OpenMP_ROOT /opt/homebrew/Cellar/libomp/19.1.3) > > # set(Matlab_ROOT /Applications/MATLAB_R2023b.app) > # ======================================================== > # Setup the libraries > # You do NOT have to modify anything in this part > # ======================================================== > list(APPEND CMAKE_MODULE_PATH "${CMAKE_CURRENT_LIST_DIR}") > > find_package(VTK REQUIRED) > find_package(PETSc REQUIRED) > find_package(HDF5 REQUIRED) > find_package(SLEPc) > find_package(YAML REQUIRED) > # find_package(OpenMP > # find_package(Matlab REQUIRED) > > include_directories(${VTK_INCLUDE_DIRS}) > include_directories(${HDF5_INCLUDE_DIRS}) > include_directories(${PETSC_INC}) > include_directories(${SLEPC_INC}) > include_directories(${YAML_INC}) > # include_directories(${Matlab_INCLUDE_DIRS}) > > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${VTK_LIBRARIES}) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${HDF5_LIBRARIES}) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${PETSC_LIB}) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${PETSC_METIS_LIB}) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${SLEPC_LIB}) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${YAML_LIB}) > # set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${Matlab_ENG_LIBRARY}) > > > if(PETSC_METIS) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${PETSC_METIS_LIB}) > message(STATUS "Use METIS in PETSc: " ${PETSC_METIS_LIB}) > else(PETSC_METIS) > find_package(METIS) > INCLUDE_DIRECTORIES(${METIS_INCLUDE_DIRS}) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${METIS_LIBRARIES}) > endif(PETSC_METIS) > > include_directories(${HDF5_INCLUDE_DIRS}) > set(EXTRA_LINK_LIBS ${EXTRA_LINK_LIBS} ${HDF5_LIBRARIES}) > > message(STATUS "External Libraries: " ${EXTRA_LINK_LIBS}) > > # ======================================================== > # Compiler options > # ======================================================== > # Specify the MPI compilers. There should be compilers in > # $PETSC_DIR/$PETSC_ARCH/bin, or the mpich you specified for > # PETSc install. > set(CMAKE_C_COMPILER /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpicc) > set(CMAKE_CXX_COMPILER /Users/lawkawai/lib/mpich-4.2.3-opt/bin/mpicxx) > set(CMAKE_CXX_STANDARD 11) > > if( ${CMAKE_BUILD_TYPE} MATCHES "Release" ) > set(CMAKE_CXX_FLAGS " -O3 -Wall ") > else( ${CMAKE_BUILD_TYPE} MATCHES "Release" ) > set(CMAKE_CXX_FLAGS " -O0 -Wall ") > endif( ${CMAKE_BUILD_TYPE} MATCHES "Release" ) > > set(CMAKE_VERBOSE_MAKEFILE OFF) > > # EOF > > > > > > # cmake my project > cmake ../../codes/MixPERIGEE/examples/elasticity_NURBS_TaylorHood > -DCMKAE_BUILD_TYPE=Release > > -- The C compiler identification is AppleClang 16.0.0.16000026 > > -- The CXX compiler identification is AppleClang 16.0.0.16000026 > > -- Detecting C compiler ABI info > > -- Detecting C compiler ABI info - done > > -- Check for working C compiler: > /Library/Developer/CommandLineTools/usr/bin/cc - skipped > > -- Detecting C compile features > > -- Detecting C compile features - done > > -- Detecting CXX compiler ABI info > > -- Detecting CXX compiler ABI info - done > > -- Check for working CXX compiler: > /Library/Developer/CommandLineTools/usr/bin/c++ - skipped > > -- Detecting CXX compile features > > -- Detecting CXX compile features - done > > -- =================== System setup ========================== > > -- THE SYSTEM is Darwin > > -- Darwin-24.1.0 > > -- CMAKE_BINARY_DIR: > /Users/lawkawai/build/build_MixPERIGEE > > -- CMAKE_CURRENT_BINARY_DIR: /Users/lawkawai/build/build_MixPERIGEE > > -- CMAKE_SOURCE_DIR: > /Users/lawkawai/codes/MixPERIGEE/examples/elasticity_NURBS_TaylorHood > > -- CMAKE_CURRENT_SOURCE_DIR: > /Users/lawkawai/codes/MixPERIGEE/examples/elasticity_NURBS_TaylorHood > > -- PROJECT_BINARY_DIR: /Users/lawkawai/build/build_MixPERIGEE > > -- PROJECT_SOURCE_DIR: > /Users/lawkawai/codes/MixPERIGEE/examples/elasticity_NURBS_TaylorHood > > -- EXECUTABLE_OUTPUT_PATH: /Users/lawkawai/build/build_MixPERIGEE > > -- LIBRARY_OUTPUT_PATH: > /Users/lawkawai/build/build_MixPERIGEE/lib > > -- CMAKE_COMMAND: /opt/homebrew/bin/cmake > > -- CMAKE_SYSTEM_PROCESSOR: arm64 > > -- CMAKE_AR: /Library/Developer/CommandLineTools/usr/bin/ar > > -- CMAKE_RANLIB: /Library/Developer/CommandLineTools/usr/bin/ranlib > > -- Performing Test CMAKE_HAVE_LIBC_PTHREAD > > -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success > > -- Found Threads: TRUE > > -- Found OpenGL: > /Library/Developer/CommandLineTools/SDKs/MacOSX15.1.sdk/System/Library/Frameworks/OpenGL.framework > found components: OpenGL > > -- Found PETSc: /Users/lawkawai/lib/petsc-3.22.1-opt/./lib/libpetsc.dylib > > -- Found HDF5: > /Users/lawkawai/lib/petsc-3.22.1-opt/lib/libhdf5.dylib;/Library/Developer/CommandLineTools/SDKs/MacOSX15.1.sdk/usr/lib/libdl.tbd;/Library/Developer/CommandLineTools/SDKs/MacOSX15.1.sdk/usr/lib/libm.tbd > (found version "1.14.3") > > -- Found SLEPc: /Users/lawkawai/lib/petsc-3.22.1-opt/./lib/libslepc.dylib > > -- Found YAML: /Users/lawkawai/lib/yaml-shared/lib/libyaml-cpp.dylib > > -- Use METIS in PETSc: > /Users/lawkawai/lib/petsc-3.22.1-opt/./lib/libmetis.dylib > > -- External Libraries: VTK::WrappingToolsVTK::ViewsContext2DVTK::loguruVTK::TestingRenderingVTK::TestingCoreVTK::vtksysVTK::ViewsInfovisVTK::CommonColorVTK::RenderingVolumeOpenGL2VTK::glewVTK::openglVTK::RenderingLabelVTK::octreeVTK::RenderingLODVTK::RenderingLICOpenGL2VTK::RenderingImageVTK::RenderingContextOpenGL2VTK::RenderingCellGridVTK::IOVeraOutVTK::hdf5VTK::IOTecplotTableVTK::utf8VTK::IOSegYVTK::IOParallelXMLVTK::IOPLYVTK::IOOggTheoraVTK::theoraVTK::oggVTK::IONetCDFVTK::netcdfVTK::libprojVTK::IOMotionFXVTK::pegtlVTK::IOParallelVTK::jsoncppVTK::IOMINCVTK::IOLSDynaVTK::IOInfovisVTK::libxml2VTK::zlibVTK::IOImportVTK::IOIOSSVTK::fmtVTK::iossVTK::cgnsVTK::exodusIIVTK::IOFLUENTCFFVTK::IOVideoVTK::IOMovieVTK::IOExportPDFVTK::libharuVTK::IOExportGL2PSVTK::RenderingGL2PSOpenGL2VTK::gl2psVTK::pngVTK::IOExportVTK::RenderingVtkJSVTK::nlohmannjsonVTK::RenderingSceneGraphVTK::IOExodusVTK::IOEnSightVTK::IOCityGMLVTK::pugixmlVTK::IOChemistryVTK::IOCesium3DTilesVTK::IOGeometryVTK::IOCellGridVTK::IOCONVERGEC FDVTK::IOHDFVTK::IOCGNSReaderVTK::IOAsynchronousVTK::IOAMRVTK::InteractionImageVTK::ImagingStencilVTK::ImagingStatisticsVTK::ImagingMorphologicalVTK::ImagingMathVTK::ImagingFourierVTK::IOSQLVTK::sqliteVTK::GeovisCoreVTK::InfovisLayoutVTK::ViewsCoreVTK::InteractionWidgetsVTK::RenderingVolumeVTK::RenderingAnnotationVTK::ImagingHybridVTK::ImagingColorVTK::InteractionStyleVTK::FiltersTopologyVTK::FiltersTensorVTK::FiltersSelectionVTK::FiltersSMPVTK::FiltersReductionVTK::FiltersProgrammableVTK::FiltersPointsVTK::FiltersParallelImagingVTK::FiltersImagingVTK::ImagingGeneralVTK::FiltersGeometryPreviewVTK::FiltersGenericVTK::FiltersFlowPathsVTK::eigenVTK::FiltersCellGridVTK::FiltersAMRVTK::FiltersParallelVTK::FiltersTextureVTK::FiltersModelingVTK::DomainsChemistryOpenGL2VTK::RenderingOpenGL2VTK::RenderingHyperTreeGridVTK::RenderingUIVTK::FiltersHybridVTK::DomainsChemistryVTK::ChartsCoreVTK::InfovisCoreVTK::FiltersExtractionVTK::ParallelDIYVTK::diy2VTK::IOXMLVTK::IOXMLParserVTK::expat VTK::ParallelCoreVTK::IOLegacyVTK::IOCoreVTK::doubleconversionVTK::lz4VTK::lzmaVTK::fast_floatVTK::FiltersStatisticsVTK::FiltersHyperTreeVTK::ImagingSourcesVTK::IOImageVTK::DICOMParserVTK::jpegVTK::metaioVTK::tiffVTK::RenderingContext2DVTK::RenderingFreeTypeVTK::freetypeVTK::kwimlVTK::RenderingCoreVTK::FiltersSourcesVTK::ImagingCoreVTK::FiltersGeneralVTK::FiltersVerdictVTK::verdictVTK::FiltersGeometryVTK::CommonComputationalGeometryVTK::FiltersCoreVTK::CommonExecutionModelVTK::CommonDataModelVTK::CommonSystemVTK::CommonMiscVTK::exprtkVTK::CommonTransformsVTK::CommonMathVTK::kissfftVTK::CommonCore/Users/lawkawai/lib/petsc-3.22.1-opt/lib/libhdf5.dylib/Library/Developer/CommandLineTools/SDKs/MacOSX15.1.sdk/usr/lib/libdl.tbd/Library/Developer/CommandLineTools/SDKs/MacOSX15.1.sdk/usr/lib/libm.tbd/Users/lawkawai/lib/petsc-3.22.1-opt/./lib/libpetsc.dylib/Users/lawkawai/lib/petsc-3.22.1-opt/./lib/libmetis.dylib/Users/lawkawai/lib/petsc-3.22.1-opt/./lib/libslepc.dylib/Users/lawkawai/ lib/yaml-shared/lib/libyaml-cpp.dylib/Users/lawkawai/lib/petsc-3.22.1-opt/./lib/libmetis.dylib/Users/lawkawai/lib/petsc-3.22.1-opt/lib/libhdf5.dylib/Library/Developer/CommandLineTools/SDKs/MacOSX15.1.sdk/usr/lib/libdl.tbd/Library/Developer/CommandLineTools/SDKs/MacOSX15.1.sdk/usr/lib/libm.tbd > > -- Configuring done (0.9s) > > -- Generating done (0.1s) > > -- Build files have been written to: /Users/lawkawai/build/build_MixPERIGEE > > > > ./preprocess3d > > ========= Partition quality information ========= > > The largest ghost / local node ratio is: 0.1126126126126126 > > The smallest ghost / local node ratio is: 0.1126126126126126 > > The summation of the number of ghost nodes is: 47 > > The maximum badnode number is: 0 > > The maximum and minimum local node numbers are 222 222 > > The maximum / minimum of local node is: 1 > > > > > ================== Clean memory ================= > > -- Mesh_NURBS_MultiPatch_3D deleted. > > -- Mesh_NURBS_MultiPatch_3D deleted. > > > > > > mpirun -np 2 ./mixed_ga_drive > > Time is 13:09:19 2024/11/15 > > ===> Assembly mass matrix and residual vector. > > [0]PETSC ERROR: --------------------- Error Message > -------------------------------------------------------------- > > [0]PETSC ERROR: Unknown type. Check for miss-spelling or missing package: > https://urldefense.us/v3/__https://petsc.org/release/install/install/*external-packages__;Iw!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-hNinWapw$ > > > [0]PETSC ERROR: Unable to find requested PC type hypre > > [0]PETSC ERROR: WARNING! There are unused option(s) set! Could be the program > crashed before usage or a spelling mistake, etc! > > [0]PETSC ERROR: Option left: name:-ksp_type value: gmres source: file > > [0]PETSC ERROR: Option left: name:-pc_factor_mat_solver_type value: > mumps source: file > > [0]PETSC ERROR: Option left: name:-pc_type value: lu source: file > > [0]PETSC ERROR: See > https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-gz5ZACkg$ > for trouble shooting. > > [0]PETSC ERROR: Petsc Release Version 3.22.1, Oct 28, 2024 > > [0]PETSC ERROR: ./mixed_ga_driver with 2 MPI process(es) and PETSC_ARCH > on lawkawais-MacBook-Pro.local by lawkawai Fri Nov 15 13:09:19 2024 > > [0]PETSC ERROR: Configure options: --with-x=0 -with-pic --with-make-np=4 > --with-mpi-compilers=1 --with-mpi-dir=/Users/lawkawai/lib/mpich-4.2.3-opt/ > --with-scalar-type=real --with-precision=double --with-mumps=1 > --download-mumps --with-scalapack=1 --download-scalapack --with-blacs=1 > --download-blacs --download-fblaslapack --download-metis --download-hdf5 > --with-debugging=no --download-slepc > --prefix=/Users/lawkawai/lib/petsc-3.22.1-opt > > [0]PETSC ERROR: #1 PCSetType() at > /Users/lawkawai/lib/petsc-3.22.1-src/src/ksp/pc/interface/pcset.c:59 > > Residual norms for ls_mass_ solve. > > 0 KSP Residual norm 1.337529422525e+02 > > 1 KSP Residual norm 5.908055492162e+01 > > > > Time = 2.000000e-02, dt = 1.000000e-02, index = 2 > > --- M updated Init res 2-norm: 2.599563e+05 > > [0]PETSC ERROR: > ------------------------------------------------------------------------ > > [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, > probably memory access out of range > > [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger > > [0]PETSC ERROR: or see > https://urldefense.us/v3/__https://petsc.org/release/faq/*valgrind__;Iw!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-gzBqq2dw$ > and > https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!Zte1-UKulqdgdberr4xeYOwxdsIKJsn3gxvhrGC3D2xGk5lM8RZhduBb5ksvmdJzUmO22D93HJ3f9_S87-gz5ZACkg$ > > > [0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, and > run > > [0]PETSC ERROR: to get more information on the crash. > > [0]PETSC ERROR: Run with -malloc_debug to check if memory corruption is > causing the crash. > > Abort(59) on node 0 (rank 0 in comm 0): application called > MPI_Abort(MPI_COMM_WORLD, 59) - process 0 > > > > > when driver using cpu number >= 2, Petsc cannot work. But for cpu of 1, > it's working. > What is the problem ? > > > > > > > David Jiawei LUO LIANG > > > > 南方科技大学/学生/研究生/2024 > > > > 广东省深圳市南山区学苑大道1088号 > > > > > > > > ------------------ Original ------------------ > From: "Satish Balay"<balay....@fastmail.org>; > Date: Mon, Nov 11, 2024 11:40 PM > To: "David Jiawei LUO LIANG"<12431...@mail.sustech.edu.cn>; > Cc: "Satish Balay"<balay....@fastmail.org>; > "petsc-dev"<petsc-dev@mcs.anl.gov>; > Subject: Re: ????????????[petsc-dev] petsc compatibility issues with > slepc > > > > On Mon, 11 Nov 2024, David Jiawei LUO LIANG wrote: > > > But there still be some linking issues because my MacBook is arm64 > architecture which is incompatible with x86 > > with source install - everything should be built for arm64 - and there should > be no "mixing" with x86 libraries. > > Satish
