Re: [OMPI users] Error in file base/plm_base_launch_support.c: OPAL_HWLOC_TOPO
Hi, I am receiving these errors when building with OpenMPI on the NERSC system. Building directory: util_programs -- The C compiler identification is GNU 7.1.0 -- The CXX compiler identification is GNU 7.1.0 -- Cray Programming Environment 2.5.12 C -- Check for working C compiler: /opt/cray/pe/craype/2.5.12/bin/cc -- Check for working C compiler: /opt/cray/pe/craype/2.5.12/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Cray Programming Environment 2.5.12 CXX -- Check for working CXX compiler: /opt/cray/pe/craype/2.5.12/bin/CC -- Check for working CXX compiler: /opt/cray/pe/craype/2.5.12/bin/CC -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- The Fortran compiler identification is GNU 7.1.0 -- Check for working Fortran compiler: /global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/bin/mpifort -- Check for working Fortran compiler: /global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/bin/mpifort -- works -- Detecting Fortran compiler ABI info -- Detecting Fortran compiler ABI info - done -- Checking whether /global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/bin/mpifort supports Fortran 90 -- Checking whether /global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/bin/mpifort supports Fortran 90 -- yes Build type : Production Linking with release : /global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724 (Off-site Distribution) C Compiler : /opt/cray/pe/craype/2.5.12/bin/cc Fortran Compiler : /global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/bin/mpifort Plotting Libraries : pgplot OpenMP Support : Not Enabled MPI Support : Enabled FFLAGS : gfortran Compiler Flags : -Df2cFortran -DCESR_UNIX -DCESR_LINUX -u -traceback -cpp -fno-range-check -fdollar-ok -fbacktrace -Bstatic -ffree-line-length-none -DCESR_PGPLOT -I/global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/include -pthread -I/global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/lib -fPIC -O2 gfortran Linker Flags : -pthread -I/global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/lib -Wl,-rpath -Wl,/global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/lib -Wl,--enable-new-dtags -L/global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi;-lX11 SHARED DEPS : -- Configuring done -- Generating done -- Build files have been written to: /global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/util_programs/production Scanning dependencies of target compare_tracking_methods_text-exe Scanning dependencies of target compare_tracking_methods_plot-exe Scanning dependencies of target f77_to_f90-exe Scanning dependencies of target util_programs Scanning dependencies of target lattice_cleaner-exe Scanning dependencies of target bmad_to_gpt-exe Scanning dependencies of target bmad_to_mad_sad_and_xsif-exe Scanning dependencies of target sad_to_bmad_postprocess-exe Scanning dependencies of target aspea2-exe Scanning dependencies of target bmad_to_csrtrack-exe Scanning dependencies of target ansga2-exe Scanning dependencies of target bmad_to_blender-exe Scanning dependencies of target bmad_to_autocad-exe Scanning dependencies of target element_attributes-exe Scanning dependencies of target wake_fit-exe Scanning dependencies of target envelope_ibs-exe [ 1%] Building Fortran object CMakeFiles/compare_tracking_methods_text-exe.dir/compare_tracking_methods_text/compare_tracking_methods_text.f90.o [ 3%] Building Fortran object CMakeFiles/f77_to_f90-exe.dir/f77_to_f90/f77_to_f90.f90.o [ 5%] Building Fortran object CMakeFiles/compare_tracking_methods_plot-exe.dir/compare_tracking_methods_plot/compare_tracking_methods_plot.f90.o [ 7%] Building Fortran object CMakeFiles/lattice_cleaner-exe.dir/lattice_cleaner/lattice_cleaner.f90.o [ 9%] Building Fortran object CMakeFiles/sad_to_bmad_postprocess-exe.dir/sad_to_bmad/sad_to_bmad_postprocess.f90.o [ 11%] Building Fortran object CMakeFiles/bmad_to_gpt-exe.dir/bmad_to_gpt/bmad_to_gpt.f90.o [ 13%] Building Fortran object CMakeFiles/bmad_to_mad_sad_and_xsif-exe.dir/bmad_to_mad_sad_and_xsif/bmad_to_mad_sad_and_xsif.f90.o [ 15%] Building Fortran object CMakeFiles/bmad_to_csrtrack-exe.dir/bmad_to_csrtrack/bmad_to_csrtrack.f90.o [ 16%] Building Fortran object CMakeFiles/element_attributes-exe.dir/element_attributes/element_attributes.f90.o [ 22%] Building Fortran object CMakeFiles/bmad_to_autocad-exe.dir/bmad_to_autocad/bmad_to_autocad.f90.o [ 22%] Building Fortran object CMakeFiles/wake_fit-exe.dir/wake_fit/wake_fit.f90.o [ 22%] Building Fortran object CMakeFiles/envelope_ibs-exe.dir/envelope_ibs/envelope_ibs.f90.o [ 24%] Building Fortran object CMakeFiles/bmad_to_blender-exe.dir/bmad_
Re: [OMPI users] Error in file base/plm_base_launch_support.c: OPAL_HWLOC_TOPO
Henry, First, you could/should use mpicc instead of the cc cray compiler I also noted gfortran Linker Flags : -pthread -I/global/homes/h/hlovelac/BMAD/bmad_ dist_2018_0724/production/lib -Wl,-rpath -Wl,/global/homes/h/hlovelac/ BMAD/bmad_dist_2018_0724/production/lib -Wl,--enable-new-dtags -L/global /homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/lib -lmpi_ usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi;-lX11 It should be '-lmpi -lX11' instead of '-lmpi;-lX11' The linker flags suggest Open MPI is installed in /global/homes/h/ hlovelac/BMAD/bmad_dist_2018_0724/production/lib, but your LD_LIBRARY_ PATH suggests it is in $HOME/BMAD/bmad_dist_2018_0717/production/lib (note 0724 vs 0717) Also, keep in mind LD_LIBRARY_PATH is only used at runtime in order to resolve dependencies. The linker does *not* use LD_LIBRARY_PATH. IIRC, it uses LIBRARY_PATH, but the preferred way is to use the -L argument. If your problem persists, I suggest you get the full command line that is failing. (It should invoke mpifort instead gfortran or cc). Then you can copy/ paste the mpifort command, add the -showme parameter, and run it manually so we can understand what is really hapenning under the(cmake) hood. Cheers, Gilles - Original Message - Hi, I am receiving these errors when building with OpenMPI on the NERSC system. Building directory: util_programs -- The C compiler identification is GNU 7.1.0 -- The CXX compiler identification is GNU 7.1.0 -- Cray Programming Environment 2.5.12 C -- Check for working C compiler: /opt/cray/pe/craype/2.5.12/bin/cc -- Check for working C compiler: /opt/cray/pe/craype/2.5.12/bin/cc - - works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Cray Programming Environment 2.5.12 CXX -- Check for working CXX compiler: /opt/cray/pe/craype/2.5.12/bin/CC -- Check for working CXX compiler: /opt/cray/pe/craype/2.5.12/bin/CC -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- The Fortran compiler identification is GNU 7.1.0 -- Check for working Fortran compiler: /global/homes/h/hlovelac/BMAD /bmad_dist_2018_0724/production/bin/mpifort -- Check for working Fortran compiler: /global/homes/h/hlovelac/BMAD /bmad_dist_2018_0724/production/bin/mpifort -- works -- Detecting Fortran compiler ABI info -- Detecting Fortran compiler ABI info - done -- Checking whether /global/homes/h/hlovelac/BMAD/bmad_dist_2018_ 0724/production/bin/mpifort supports Fortran 90 -- Checking whether /global/homes/h/hlovelac/BMAD/bmad_dist_2018_ 0724/production/bin/mpifort supports Fortran 90 -- yes Build type : Production Linking with release : /global/homes/h/hlovelac/BMAD/bmad_dist_2018_ 0724 (Off-site Distribution) C Compiler : /opt/cray/pe/craype/2.5.12/bin/cc Fortran Compiler : /global/homes/h/hlovelac/BMAD/bmad_dist_2018_ 0724/production/bin/mpifort Plotting Libraries : pgplot OpenMP Support : Not Enabled MPI Support : Enabled FFLAGS : gfortran Compiler Flags : -Df2cFortran -DCESR_UNIX -DCESR_LINUX -u - traceback -cpp -fno-range-check -fdollar-ok -fbacktrace -Bstatic -ffree- line-length-none -DCESR_PGPLOT -I/global/homes/h/hlovelac/BMAD/bmad_dist _2018_0724/production/include -pthread -I/global/homes/h/hlovelac/BMAD/ bmad_dist_2018_0724/production/lib -fPIC -O2 gfortran Linker Flags : -pthread -I/global/homes/h/hlovelac/BMAD/ bmad_dist_2018_0724/production/lib -Wl,-rpath -Wl,/global/homes/h/ hlovelac/BMAD/bmad_dist_2018_0724/production/lib -Wl,--enable-new-dtags -L/global/homes/h/hlovelac/BMAD/bmad_dist_2018_0724/production/lib -lmpi _usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi;-lX11 SHARED DEPS : -- Configuring done -- Generating done -- Build files have been written to: /global/homes/h/hlovelac/BMAD/ bmad_dist_2018_0724/util_programs/production Scanning dependencies of target compare_tracking_methods_text-exe Scanning dependencies of target compare_tracking_methods_plot-exe Scanning dependencies of target f77_to_f90-exe Scanning dependencies of target util_programs Scanning dependencies of target lattice_cleaner-exe Scanning dependencies of target bmad_to_gpt-exe Scanning dependencies of target bmad_to_mad_sad_and_xsif-exe Scanning dependencies of target sad_to_bmad_postprocess-exe Scanning dependencies of target aspea2-exe Scanning dependencies of target bmad_to_csrtrack-exe Scanning dependencies of target ansga2-exe Scanning dependencies of target bmad_to_blender-exe Scanning dependencies of target bmad_to_autocad-exe Scanning dependencies of target element_attributes-exe S
