And I can run a fortran test, with warnings, but C tests fail: 11:15 jczhang/fix-cray-mpicxx-includes/main= /gpfs/alpine/csc314/scratch/adams/petsc$ make PETSC_DIR=/gpfs/alpine/csc314/scratch/adams/petsc PETSC_ARCH=arch-spock-opt-cray-kokkos -f gmakefile test search='ts_utils_dmplexlandau_tutorials-ex1f90_0' Using MAKEFLAGS: -- search=ts_utils_dmplexlandau_tutorials-ex1f90_0 PETSC_ARCH=arch-spock-opt-cray-kokkos PETSC_DIR=/gpfs/alpine/csc314/scratch/adams/petsc FC arch-spock-opt-cray-kokkos/tests/ts/utils/dmplexlandau/tutorials/ex1f90.o FLINKER arch-spock-opt-cray-kokkos/tests/ts/utils/dmplexlandau/tutorials/ex1f90 /opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/bin/ld: warning: alignment 128 of symbol `$host_init$$runtime_init_for_iso_c_binding$iso_c_binding_' in /opt/cray/pe/cce/11.0.4/cce/x86_64/lib/libmodules.so is smaller than 256 in arch-spock-opt-cray-kokkos/tests/ts/utils/dmplexlandau/tutorials/ex1f90.o /opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/bin/ld: warning: alignment 64 of symbol `$data_init$iso_c_binding_' in /opt/cray/pe/cce/11.0.4/cce/x86_64/lib/libmodules.so is smaller than 256 in arch-spock-opt-cray-kokkos/tests/ts/utils/dmplexlandau/tutorials/ex1f90.o TEST arch-spock-opt-cray-kokkos/tests/counts/ts_utils_dmplexlandau_tutorials-ex1f90_0.counts ok ts_utils_dmplexlandau_tutorials-ex1f90_0 ok diff-ts_utils_dmplexlandau_tutorials-ex1f90_0
On Sat, Jul 17, 2021 at 10:53 AM Mark Adams <mfad...@lbl.gov> wrote: > HUmm, I can not reproduce this. > > 10:49 jczhang/fix-cray-mpicxx-includes/main= > /gpfs/alpine/csc314/scratch/adams/petsc$ make > PETSC_DIR=/gpfs/alpine/csc314/scratch/adams/petsc > PETSC_ARCH=arch-spock-dbg-kokkos check > Running check examples to verify correct installation > Using PETSC_DIR=/gpfs/alpine/csc314/scratch/adams/petsc and > PETSC_ARCH=arch-spock-dbg-kokkos > gmake[3]: > [/gpfs/alpine/csc314/scratch/adams/petsc/lib/petsc/conf/rules:301: > ex19.PETSc] Error 2 (ignored) > *******************Error detected during compile or > link!******************* > See http://www.mcs.anl.gov/petsc/documentation/faq.html > /gpfs/alpine/csc314/scratch/adams/petsc/src/snes/tutorials ex19 > > ********************************************************************************* > cc -L/sw/spock/spack-envs/views/rocm-4.1.0/lib -lamdhip64 -lhsa-runtime64 > -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas > -fstack-protector -Qunused-arguments -fvisibility=hidden -g -O0 -fPIC > -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas > -fstack-protector -Qunused-arguments -fvisibility=hidden -g -O0 > -I/sw/spock/spack-envs/views/rocm-4.1.0/include > -I/gpfs/alpine/csc314/scratch/adams/petsc/include > -I/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/include > -I/sw/spock/spack-envs/views/rocm-4.1.0/include > -I/sw/spock/spack-envs/views/rocm-4.1.0/include ex19.c > -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -Wl,-rpath,/sw/spock/spack-envs/views/rocm-4.1.0/lib > -L/sw/spock/spack-envs/views/rocm-4.1.0/lib > -Wl,-rpath,/opt/gcc/8.1.0/snos/lib64 -L/opt/gcc/8.1.0/snos/lib64 > -Wl,-rpath,/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib > -L/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib > -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib > -L/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib > -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/gtl/lib > -L/opt/cray/pe/mpich/8.1.4/gtl/lib -Wl,-rpath,/opt/cray/pe/pmi/6.0.10/lib > -L/opt/cray/pe/pmi/6.0.10/lib -Wl,-rpath,/opt/cray/pe/dsmml/0.1.4/dsmml/lib > -L/opt/cray/pe/dsmml/0.1.4/dsmml/lib > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce/x86_64/lib > -L/opt/cray/pe/cce/11.0.4/cce/x86_64/lib > -Wl,-rpath,/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 > -L/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux > -L/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux > -Wl,-rpath,/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 > -L/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib > -L/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib > -lpetsc -lkokkoskernels -lkokkoscontainers -lkokkoscore -lhipsparse > -lhipblas -lrocsparse -lrocsolver -lrocblas -lamdhip64 -lhsa-runtime64 > -lstdc++ -ldl -lpmi -lsci_cray_mpi -lsci_cray -lmpifort_cray -lmpi_cray > -lmpi_gtl_hsa -lxpmem -ldsmml -lpgas-shmem -lquadmath -lcrayacc_amdgpu > -lopenacc -lmodules -lfi -lcraymath -lf -lu -lcsup -lgfortran -lpthread > -lgcc_eh -lm -lclang_rt.craypgo-x86_64 -lclang_rt.builtins-x86_64 > -lquadmath -lstdc++ -ldl -o ex19 > ld.lld: error: > /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib/libpetsc.so: > undefined reference to .omp_offloading.img_start.cray_amdgcn-amd-amdhsa > [--no-allow-shlib-undefined] > ld.lld: error: > /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib/libpetsc.so: > undefined reference to .omp_offloading.img_size.cray_amdgcn-amd-amdhsa > [--no-allow-shlib-undefined] > ld.lld: error: > /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib/libpetsc.so: > undefined reference to .omp_offloading.img_cache.cray_amdgcn-amd-amdhsa > [--no-allow-shlib-undefined] > clang-11: error: linker command failed with exit code 1 (use -v to see > invocation) > gmake[4]: *** [<builtin>: ex19] Error 1 > gmake[3]: > [/gpfs/alpine/csc314/scratch/adams/petsc/lib/petsc/conf/rules:301: > ex3k.PETSc] Error 2 (ignored) > *******************Error detected during compile or > link!******************* > See http://www.mcs.anl.gov/petsc/documentation/faq.html > /gpfs/alpine/csc314/scratch/adams/petsc/src/snes/tutorials ex3k > > ********************************************************************************* > hipcc -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing > -Wno-unknown-pragmas -fvisibility=hidden -g -O0 -std=c++14 > -I/gpfs/alpine/csc314/scratch/adams/petsc/include > -I/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/include > -I/sw/spock/spack-envs/views/rocm-4.1.0/include > -I/sw/spock/spack-envs/views/rocm-4.1.0/include -I/opt/cray/pe/libsci/ > 21.04.1.1/CRAY/9.0/x86_64/include > -I/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/include > -I/opt/cray/pe/pmi/6.0.10/include -I/opt/cray/pe/dsmml/0.1.4/dsmml//include > -I/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/include > -L/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib > -L/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib > -L/opt/cray/pe/mpich/8.1.4/gtl/lib -L/opt/cray/pe/pmi/6.0.10/lib > -L/opt/cray/pe/dsmml/0.1.4/dsmml//lib > -L/opt/cray/pe/cce/11.0.4/cce/x86_64/lib/pkgconfig/../ > -L/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 > -Wl,--as-needed,-lsci_cray_mpi,--no-as-needed > -Wl,--as-needed,-lsci_cray,--no-as-needed > -Wl,--as-needed,-lmpi_cray,--no-as-needed > -Wl,--as-needed,-ldsmml,--no-as-needed > -Wl,--as-needed,-lpgas-shmem,--no-as-needed -lpmi -ldl -lmpi_gtl_hsa > -lxpmem -lquadmath -lmodules -lfi -lcraymath -lf -lu -lcsup > ex3k.kokkos.cxx > -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -Wl,-rpath,/sw/spock/spack-envs/views/rocm-4.1.0/lib > -L/sw/spock/spack-envs/views/rocm-4.1.0/lib > -Wl,-rpath,/opt/gcc/8.1.0/snos/lib64 -L/opt/gcc/8.1.0/snos/lib64 > -Wl,-rpath,/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib > -L/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib > -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib > -L/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib > -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/gtl/lib > -L/opt/cray/pe/mpich/8.1.4/gtl/lib -Wl,-rpath,/opt/cray/pe/pmi/6.0.10/lib > -L/opt/cray/pe/pmi/6.0.10/lib -Wl,-rpath,/opt/cray/pe/dsmml/0.1.4/dsmml/lib > -L/opt/cray/pe/dsmml/0.1.4/dsmml/lib > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce/x86_64/lib > -L/opt/cray/pe/cce/11.0.4/cce/x86_64/lib > -Wl,-rpath,/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 > -L/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux > -L/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux > -Wl,-rpath,/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 > -L/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib > -L/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib > -lpetsc -lkokkoskernels -lkokkoscontainers -lkokkoscore -lhipsparse > -lhipblas -lrocsparse -lrocsolver -lrocblas -lamdhip64 -lhsa-runtime64 > -lstdc++ -ldl -lpmi -lsci_cray_mpi -lsci_cray -lmpifort_cray -lmpi_cray > -lmpi_gtl_hsa -lxpmem -ldsmml -lpgas-shmem -lquadmath -lcrayacc_amdgpu > -lopenacc -lmodules -lfi -lcraymath -lf -lu -lcsup -lgfortran -lpthread > -lgcc_eh -lm -lclang_rt.craypgo-x86_64 -lclang_rt.builtins-x86_64 > -lquadmath -lstdc++ -ldl -o ex3k > /usr/lib64/gcc/x86_64-suse-linux/7/../../../../x86_64-suse-linux/bin/ld: > /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib/libpetsc.so: > undefined reference to `.omp_offloading.img_size.cray_amdgcn-amd-amdhsa' > /usr/lib64/gcc/x86_64-suse-linux/7/../../../../x86_64-suse-linux/bin/ld: > /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib/libpetsc.so: > undefined reference to `.omp_offloading.img_start.cray_amdgcn-amd-amdhsa' > /usr/lib64/gcc/x86_64-suse-linux/7/../../../../x86_64-suse-linux/bin/ld: > /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib/libpetsc.so: > undefined reference to `.omp_offloading.img_cache.cray_amdgcn-amd-amdhsa' > clang-12: error: linker command failed with exit code 1 (use -v to see > invocation) > gmake[4]: *** > [/gpfs/alpine/csc314/scratch/adams/petsc/lib/petsc/conf/test:26: ex3k] > Error 1 > gmake[3]: [makefile:102: runex3k_kokkos] Error 2 (ignored) > 1,25c1,4 > < atol=1e-50, rtol=1e-08, stol=1e-08, maxit=50, maxf=10000 > < Vec Object: Exact Solution 2 MPI processes > < type: mpikokkos > < Process [0] > < 0. > < 0.015625 > < 0.125 > < Process [1] > < 0.421875 > < 1. > < Vec Object: Forcing function 2 MPI processes > < type: mpikokkos > < Process [0] > < 1e-72 > < 1.50024 > < 3.01563 > < Process [1] > < 4.67798 > < 7. > < 0 SNES Function norm 5.414682427127e+00 > < 1 SNES Function norm 2.952582418265e-01 > < 2 SNES Function norm 4.502293658739e-04 > < 3 SNES Function norm 1.389665806646e-09 > < Number of SNES iterations = 3 > < Norm of error 1.49752e-10 Iterations 3 > --- > > slurmstepd: error: execve(): > /gpfs/alpine/csc314/scratch/adams/petsc/src/snes/tutorials/./ex3k: No such > file or directory > > slurmstepd: error: execve(): > /gpfs/alpine/csc314/scratch/adams/petsc/src/snes/tutorials/./ex3k: No such > file or directory > > srun: error: spock01: tasks 0-1: Exited with exit code 2 > > srun: launch/slurm: _step_signal: Terminating StepId=272979.0 > /gpfs/alpine/csc314/scratch/adams/petsc/src/snes/tutorials > Possible problem with ex3k running with kokkos-kernels, diffs above > ========================================= > *******************Error detected during compile or > link!******************* > See http://www.mcs.anl.gov/petsc/documentation/faq.html > /gpfs/alpine/csc314/scratch/adams/petsc/src/snes/tutorials ex5f > ********************************************************* > ftn -L/sw/spock/spack-envs/views/rocm-4.1.0/lib -lamdhip64 -lhsa-runtime64 > -fPIC -g -O0 -fPIC -g -O0 > -I/gpfs/alpine/csc314/scratch/adams/petsc/include > -I/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/include > -I/sw/spock/spack-envs/views/rocm-4.1.0/include ex5f.F90 > -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-dbg-kokkos/lib > -Wl,-rpath,/sw/spock/spack-envs/views/rocm-4.1.0/lib > -L/sw/spock/spack-envs/views/rocm-4.1.0/lib > -Wl,-rpath,/opt/gcc/8.1.0/snos/lib64 -L/opt/gcc/8.1.0/snos/lib64 > -Wl,-rpath,/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib > -L/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib > -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib > -L/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib > -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/gtl/lib > -L/opt/cray/pe/mpich/8.1.4/gtl/lib -Wl,-rpath,/opt/cray/pe/pmi/6.0.10/lib > -L/opt/cray/pe/pmi/6.0.10/lib -Wl,-rpath,/opt/cray/pe/dsmml/0.1.4/dsmml/lib > -L/opt/cray/pe/dsmml/0.1.4/dsmml/lib > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce/x86_64/lib > -L/opt/cray/pe/cce/11.0.4/cce/x86_64/lib > -Wl,-rpath,/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 > -L/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux > -L/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux > -Wl,-rpath,/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 > -L/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 > -Wl,-rpath,/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib > -L/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib > -lpetsc -lkokkoskernels -lkokkoscontainers -lkokkoscore -lhipsparse > -lhipblas -lrocsparse -lrocsolver -lrocblas -lamdhip64 -lhsa-runtime64 > -lstdc++ -ldl -lpmi -lsci_cray_mpi -lsci_cray -lmpifort_cray -lmpi_cray > -lmpi_gtl_hsa -lxpmem -ldsmml -lpgas-shmem -lquadmath -lcrayacc_amdgpu > -lopenacc -lmodules -lfi -lcraymath -lf -lu -lcsup -lgfortran -lpthread > -lgcc_eh -lm -lclang_rt.craypgo-x86_64 -lclang_rt.builtins-x86_64 > -lquadmath -lstdc++ -ldl -o ex5f > /opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/bin/ld: > warning: alignment 128 of symbol > `$host_init$$runtime_init_for_iso_c_binding$iso_c_binding_' in > /opt/cray/pe/cce/11.0.4/cce/x86_64/lib/libmodules.so is smaller than 256 in > /tmp/pe_30429/ex5f_1.o > /opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/bin/ld: > warning: alignment 64 of symbol `$data_init$iso_c_binding_' in > /opt/cray/pe/cce/11.0.4/cce/x86_64/lib/libmodules.so is smaller than 256 in > /tmp/pe_30429/ex5f_1.o > Fortran example src/snes/tutorials/ex5f run successfully with 1 MPI process > Completed test examples > 10:49 jczhang/fix-cray-mpicxx-includes/main= > /gpfs/alpine/csc314/scratch/adams/petsc$ ll > > On Fri, Jul 16, 2021 at 11:28 PM Junchao Zhang <junchao.zh...@gmail.com> > wrote: > >> Mark, I configured with Fortran binding enabled with main + MR !4175 >> <https://gitlab.com/petsc/petsc/-/merge_requests/4175> >> >> '--with-mpiexec=srun', >> '--with-shared-libraries=1', >> '--with-cc=cc', >> '--with-cxx=CC', >> '--with-fc=ftn', >> '--with-fortran-bindings', >> '--with-hip', >> '--with-hipc=hipcc', >> '--with-debugging', >> '--CPPFLAGS=-I${ROCM_PATH}/include', >> '--CXXPPFLAGS=-I${ROCM_PATH}/include', >> '--CC_LINKER_FLAGS=-L${ROCM_PATH}/lib -lamdhip64 -lhsa-runtime64', >> '--CXX_LINKER_FLAGS=-L${ROCM_PATH}/lib -lamdhip64 -lhsa-runtime64', >> '--FC_LINKER_FLAGS=-L${ROCM_PATH}/lib -lamdhip64 -lhsa-runtime64', >> '--COPTFLAGS=-g -O0', >> '--CXXOPTFLAGS=-g -O0', >> '--FOPTFLAGS=-g -O0', >> '--download-kokkos', >> '--download-kokkos-kernels', >> '--download-kokkos-commit=3.4.01', >> '--download-kokkos-kernels-commit=3.4.01', >> '--with-kokkos-hip-arch=VEGA908', >> >> and 'make check' ran smoothly on a compute node >> >> $ make check >> Running check examples to verify correct installation >> Using PETSC_DIR=/ccs/home/jczhang/petsc and >> PETSC_ARCH=arch-spock-cray-kokkos-dbg >> C/C++ example src/snes/tutorials/ex19 run successfully with 1 MPI process >> C/C++ example src/snes/tutorials/ex19 run successfully with 2 MPI >> processes >> C/C++ example src/snes/tutorials/ex3k run successfully with kokkos-kernels >> Fortran example src/snes/tutorials/ex5f run successfully with 1 MPI >> process >> >> Completed test examples >> >> >> --Junchao Zhang >> >> >> On Fri, Jul 16, 2021 at 6:04 PM Mark Adams <mfad...@lbl.gov> wrote: >> >>> And I find that this error, on non-Kokkos C tests, is fixed by turning >>> the fortran bindings off: >>> >>> ld.lld: error: >>> /gpfs/alpine/phy122/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/lib/libpetsc.so: >>> undefined reference to .omp_offloading.img_start.cray_amdgcn-amd-amdhsa >>> [--no-allow-shlib-undefined] >>> ld.lld: error: >>> /gpfs/alpine/phy122/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/lib/libpetsc.so: >>> undefined reference to .omp_offloading.img_size.cray_amdgcn-amd-amdhsa >>> [--no-allow-shlib-undefined] >>> ld.lld: error: >>> /gpfs/alpine/phy122/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/lib/libpetsc.so: >>> undefined reference to .omp_offloading.img_cache.cray_amdgcn-amd-amdhsa >>> [--no-allow-shlib-undefined] >>> >>> On Fri, Jul 16, 2021 at 3:53 PM Mark Adams <mfad...@lbl.gov> wrote: >>> >>>> Not complex. THis has some overlap with my problem w/o Kokkos. >>>> >>>> On Fri, Jul 16, 2021 at 12:54 PM Junchao Zhang <junchao.zh...@gmail.com> >>>> wrote: >>>> >>>>> Do you use complex? post your configure.log. >>>>> >>>>> --Junchao Zhang >>>>> >>>>> >>>>> On Fri, Jul 16, 2021 at 9:47 AM Mark Adams <mfad...@lbl.gov> wrote: >>>>> >>>>>> The simple Kokkos example is failing for me on Spock. >>>>>> Any ideas? >>>>>> Thanks, >>>>>> >>>>>> 10:44 main *= >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/src/snes/tutorials$ make >>>>>> PETSC_DIR=/gpfs/alpine/csc314/scratch/adams/petsc >>>>>> PETSC_ARCH=arch-spock-opt-cray-kokkos ex3k >>>>>> MPICH_CXX="hipcc" OMPI_CXX="hipcc" CC >>>>>> -L/sw/spock/spack-envs/views/rocm-4.1.0/lib -lhsa-runtime64 >>>>>> -L/sw/spock/spack-envs/views/rocm-4.1.0/lib -lamdhip64 -lhsa-runtime64 >>>>>> -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas >>>>>> -fstack-protector -fvisibility=hidden -g -O2 -fPIC -Wall >>>>>> -Wwrite-strings >>>>>> -Wno-strict-aliasing -Wno-unknown-pragmas -fvisibility=hidden -g -O3 >>>>>> -std=c++14 -I/gpfs/alpine/csc314/scratch/adams/petsc/include >>>>>> -I/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos/include >>>>>> -I/gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include >>>>>> -I/sw/spock/spack-envs/views/rocm-4.1.0/include >>>>>> -I/sw/spock/spack-envs/views/rocm-4.1.0/include ex3k.kokkos.cxx >>>>>> >>>>>> -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos/lib >>>>>> -L/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos/lib >>>>>> -Wl,-rpath,/gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/lib >>>>>> -L/gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/lib >>>>>> -Wl,-rpath,/sw/spock/spack-envs/views/rocm-4.1.0/lib >>>>>> -L/sw/spock/spack-envs/views/rocm-4.1.0/lib >>>>>> -Wl,-rpath,/opt/gcc/8.1.0/snos/lib64 -L/opt/gcc/8.1.0/snos/lib64 >>>>>> -Wl,-rpath,/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib >>>>>> -L/opt/cray/pe/libsci/21.04.1.1/CRAY/9.0/x86_64/lib >>>>>> -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib >>>>>> -L/opt/cray/pe/mpich/8.1.4/ofi/cray/9.1/lib >>>>>> -Wl,-rpath,/opt/cray/pe/mpich/8.1.4/gtl/lib >>>>>> -L/opt/cray/pe/mpich/8.1.4/gtl/lib -Wl,-rpath,/opt/cray/pe/pmi/6.0.10/lib >>>>>> -L/opt/cray/pe/pmi/6.0.10/lib >>>>>> -Wl,-rpath,/opt/cray/pe/dsmml/0.1.4/dsmml/lib >>>>>> -L/opt/cray/pe/dsmml/0.1.4/dsmml/lib >>>>>> -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce/x86_64/lib >>>>>> -L/opt/cray/pe/cce/11.0.4/cce/x86_64/lib >>>>>> -Wl,-rpath,/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 >>>>>> -L/opt/cray/xpmem/2.2.40-2.1_2.7__g3cf3325.shasta/lib64 >>>>>> -Wl,-rpath,/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux >>>>>> -L/opt/cray/pe/cce/11.0.4/cce-clang/x86_64/lib/clang/11.0.0/lib/linux >>>>>> -Wl,-rpath,/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 >>>>>> -L/opt/gcc/8.1.0/snos/lib/gcc/x86_64-suse-linux/8.1.0 >>>>>> -Wl,-rpath,/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib >>>>>> -L/opt/cray/pe/cce/11.0.4/binutils/x86_64/x86_64-pc-linux-gnu/..//x86_64-unknown-linux-gnu/lib >>>>>> -lpetsc -lkokkoskernels -lkokkoscontainers -lkokkoscore -lhipsparse >>>>>> -lhipblas -lrocsparse -lrocsolver -lrocblas -lamdhip64 -lhsa-runtime64 >>>>>> -lstdc++ -ldl -lpmi -lsci_cray_mpi -lsci_cray -lmpifort_cray -lmpi_cray >>>>>> -lmpi_gtl_hsa -lxpmem -ldsmml -lpgas-shmem -lquadmath -lcrayacc_amdgpu >>>>>> -lopenacc -lmodules -lfi -lcraymath -lf -lu -lcsup -lgfortran -lpthread >>>>>> -lgcc_eh -lm -lclang_rt.craypgo-x86_64 -lclang_rt.builtins-x86_64 >>>>>> -lquadmath -lstdc++ -ldl -o ex3k >>>>>> In file included from ex3k.kokkos.cxx:3: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscdmda_kokkos.hpp:4: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscvec_kokkos.hpp:14: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscvec.h:9: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscsys.h:42: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscsystypes.h:255: >>>>>> In file included from >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/Kokkos_Complex.hpp:47: >>>>>> In file included from >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/Kokkos_Atomic.hpp:212: >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/impl/Kokkos_Atomic_Exchange.hpp:259:11: >>>>>> error: no member named 'lock_address_host_space' in namespace >>>>>> 'Kokkos::Impl::Kokkos::Impl'; did you mean simply >>>>>> 'lock_address_host_space'? >>>>>> while (!Impl::lock_address_host_space((void*)dest)) >>>>>> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ >>>>>> lock_address_host_space >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/Kokkos_HostSpace.hpp:83:6: >>>>>> note: 'lock_address_host_space' declared here >>>>>> bool lock_address_host_space(void* ptr); >>>>>> ^ >>>>>> In file included from ex3k.kokkos.cxx:3: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscdmda_kokkos.hpp:4: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscvec_kokkos.hpp:14: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscvec.h:9: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscsys.h:42: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscsystypes.h:255: >>>>>> In file included from >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/Kokkos_Complex.hpp:47: >>>>>> In file included from >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/Kokkos_Atomic.hpp:212: >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/impl/Kokkos_Atomic_Exchange.hpp:261:3: >>>>>> error: no member named 'memory_fence' in namespace >>>>>> 'Kokkos::Impl::Kokkos'; >>>>>> did you mean simply 'memory_fence'? >>>>>> Kokkos::memory_fence(); >>>>>> ^~~~~~~~~~~~~~~~~~~~ >>>>>> memory_fence >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/impl/Kokkos_Memory_Fence.hpp:53:6: >>>>>> note: 'memory_fence' declared here >>>>>> void memory_fence() { >>>>>> ^ >>>>>> In file included from ex3k.kokkos.cxx:3: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscdmda_kokkos.hpp:4: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscvec_kokkos.hpp:14: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscvec.h:9: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscsys.h:42: >>>>>> In file included from >>>>>> /gpfs/alpine/csc314/scratch/adams/petsc/include/petscsystypes.h:255: >>>>>> In file included from >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/Kokkos_Complex.hpp:47: >>>>>> In file included from >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/Kokkos_Atomic.hpp:212: >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/impl/Kokkos_Atomic_Exchange.hpp:277:3: >>>>>> error: no member named 'memory_fence' in namespace >>>>>> 'Kokkos::Impl::Kokkos'; >>>>>> did you mean simply 'memory_fence'? >>>>>> Kokkos::memory_fence(); >>>>>> ^~~~~~~~~~~~~~~~~~~~ >>>>>> memory_fence >>>>>> /gpfs/alpine/geo127/proj-shared/spock/petsc/current/arch-opt-cray-kokkos/include/impl/Kokkos_Memory_Fence.hpp:53:6: >>>>>> note: 'memory_fence' declared here >>>>>> void memory_fence() { >>>>>> ^ >>>>>> >>>>>