static char help[] = "Benchmarking various accessing methods of DMDA vectors on host\n\n"; /* On a machine with AMD EPYC-7452 CPUs, we got this data using one MPI rank and a serial-only Kokkos: Time (sec.), on Mar. 1, 2022 ------------------------------------------ n PETSc C Kokkos ------------------------------------------ 32 4.6464E-05 4.7451E-05 1.6880E-04 64 2.5654E-04 2.5164E-04 5.6780E-04 128 1.9383E-03 1.8878E-03 4.7938E-03 256 1.4450E-02 1.3619E-02 3.7778E-02 512 1.1580E-01 1.1551E-01 2.8428E-01 1024 1.4179E+00 1.3772E+00 2.2873E+00 Overall, C is -2% ~ 5% faster than PETSc. But Kokkos is 1.6~3.6x slower than PETSc */ #include #include #include #include using Kokkos::Iterate; using Kokkos::MDRangePolicy; using Kokkos::Rank; using HostMirrorMemorySpace = Kokkos::DualView::host_mirror_space::memory_space; using PetscScalarKokkosOffsetView3D = Kokkos::Experimental::OffsetView; using ConstPetscScalarKokkosOffsetView3D = Kokkos::Experimental::OffsetView; /* PETSc multi-dimensional array access */ static PetscErrorCode Update1(DM da, const PetscScalar ***__restrict__ x1, PetscScalar ***__restrict__ y1, PetscInt nwarm, PetscInt nloop, PetscLogDouble *avgTime) { PetscInt it, i, j, k; PetscLogDouble tstart = 0.0, tend; PetscInt xm, ym, zm, xs, ys, zs, gxm, gym, gzm, gxs, gys, gzs; PetscFunctionBegin; PetscCall(DMDAGetCorners(da, &xs, &ys, &zs, &xm, &ym, &zm)); PetscCall(DMDAGetGhostCorners(da, &gxs, &gys, &gzs, &gxm, &gym, &gzm)); for (it = 0; it < nwarm + nloop; it++) { if (it == nwarm) PetscCall(PetscTime(&tstart)); for (k = zs; k < zs + zm; k++) { for (j = ys; j < ys + ym; j++) { for (i = xs; i < xs + xm; i++) y1[k][j][i] = 6 * x1[k][j][i] - x1[k - 1][j][i] - x1[k][j - 1][i] - x1[k][j][i - 1] - x1[k + 1][j][i] - x1[k][j + 1][i] - x1[k][j][i + 1]; } } } PetscCall(PetscTime(&tend)); *avgTime = (tend - tstart) / nloop; PetscFunctionReturn(PETSC_SUCCESS); } /* C multi-dimensional array access */ static PetscErrorCode Update2(DM da, const PetscScalar *__restrict__ x2, PetscScalar *__restrict__ y2, PetscInt nwarm, PetscInt nloop, PetscLogDouble *avgTime) { PetscInt it, i, j, k; PetscLogDouble tstart = 0.0, tend; PetscInt xm, ym, zm, xs, ys, zs, gxm, gym, gzm, gxs, gys, gzs; PetscFunctionBegin; PetscCall(DMDAGetCorners(da, &xs, &ys, &zs, &xm, &ym, &zm)); PetscCall(DMDAGetGhostCorners(da, &gxs, &gys, &gzs, &gxm, &gym, &gzm)); #define X2(k, j, i) x2[(k - gzs) * gym * gxm + (j - gys) * gxm + (i - gxs)] #define Y2(k, j, i) y2[(k - zs) * ym * xm + (j - ys) * xm + (i - xs)] for (it = 0; it < nwarm + nloop; it++) { if (it == nwarm) PetscCall(PetscTime(&tstart)); for (k = zs; k < zs + zm; k++) { for (j = ys; j < ys + ym; j++) { for (i = xs; i < xs + xm; i++) Y2(k, j, i) = 6 * X2(k, j, i) - X2(k - 1, j, i) - X2(k, j - 1, i) - X2(k, j, i - 1) - X2(k + 1, j, i) - X2(k, j + 1, i) - X2(k, j, i + 1); } } } PetscCall(PetscTime(&tend)); *avgTime = (tend - tstart) / nloop; #undef X2 #undef Y2 PetscFunctionReturn(PETSC_SUCCESS); } int main(int argc, char **argv) { DM da; PetscInt xm, ym, zm, xs, ys, zs, gxm, gym, gzm, gxs, gys, gzs; PetscInt dof = 1, sw = 1; DMBoundaryType bx = DM_BOUNDARY_PERIODIC, by = DM_BOUNDARY_PERIODIC, bz = DM_BOUNDARY_PERIODIC; DMDAStencilType st = DMDA_STENCIL_STAR; Vec x, y; /* local/global vectors of the da */ PetscRandom rctx; const PetscScalar ***x1; PetscScalar ***y1; /* arrays of g, ll */ const PetscScalar *x2; PetscScalar *y2; ConstPetscScalarKokkosOffsetView3D x3; PetscScalarKokkosOffsetView3D y3; PetscLogDouble tstart = 0.0, tend = 0.0, avgTime = 0.0; PetscInt nwarm = 2, nloop = 10; PetscInt min = 32, max = 32 * 8; /* min and max sizes of the grids to sample */ PetscFunctionBeginUser; PetscCall(PetscInitialize(&argc, &argv, nullptr, help)); PetscCall(PetscRandomCreate(PETSC_COMM_WORLD, &rctx)); PetscCall(PetscOptionsGetInt(NULL, NULL, "-min", &min, NULL)); PetscCall(PetscOptionsGetInt(NULL, NULL, "-max", &max, NULL)); for (PetscInt len = min; len <= max; len = len * 2) { PetscCall(DMDACreate3d(PETSC_COMM_WORLD, bx, by, bz, st, len, len, len, PETSC_DECIDE, PETSC_DECIDE, PETSC_DECIDE, dof, sw, 0, 0, 0, &da)); PetscCall(DMSetFromOptions(da)); PetscCall(DMSetUp(da)); PetscCall(DMDAGetCorners(da, &xs, &ys, &zs, &xm, &ym, &zm)); PetscCall(DMDAGetGhostCorners(da, &gxs, &gys, &gzs, &gxm, &gym, &gzm)); PetscCall(DMCreateLocalVector(da, &x)); /* Create local x and global y */ PetscCall(DMCreateGlobalVector(da, &y)); /* Access with PETSc multi-dimensional arrays */ PetscCall(VecSetRandom(x, rctx)); PetscCall(VecSet(y, 0.0)); PetscCall(DMDAVecGetArrayRead(da, x, &x1)); PetscCall(DMDAVecGetArray(da, y, &y1)); PetscCall(Update1(da, x1, y1, nwarm, nloop, &avgTime)); PetscCall(DMDAVecRestoreArrayRead(da, x, &x1)); PetscCall(DMDAVecRestoreArray(da, y, &y1)); PetscCall(PetscTime(&tend)); PetscCall(PetscPrintf(PETSC_COMM_WORLD, "%4d^3 -- PETSc average time = %e\n", static_cast(len), avgTime)); /* Access with C multi-dimensional arrays */ PetscCall(VecSetRandom(x, rctx)); PetscCall(VecSet(y, 0.0)); PetscCall(VecGetArrayRead(x, &x2)); PetscCall(VecGetArray(y, &y2)); PetscCall(Update2(da, x2, y2, nwarm, nloop, &avgTime)); PetscCall(VecRestoreArrayRead(x, &x2)); PetscCall(VecRestoreArray(y, &y2)); PetscCall(PetscPrintf(PETSC_COMM_WORLD, "%4d^3 -- C average time = %e\n", static_cast(len), avgTime)); /* Access with Kokkos multi-dimensional OffsetViews */ PetscCall(VecSet(y, 0.0)); PetscCall(VecSetRandom(x, rctx)); PetscCall(DMDAVecGetKokkosOffsetView(da, x, &x3)); PetscCall(DMDAVecGetKokkosOffsetView(da, y, &y3)); for (PetscInt it = 0; it < nwarm + nloop; it++) { if (it == nwarm) PetscCall(PetscTime(&tstart)); Kokkos::parallel_for( "stencil", MDRangePolicy>({zs, ys, xs}, {zs + zm, ys + ym, xs + xm}), KOKKOS_LAMBDA(PetscInt k, PetscInt j, PetscInt i) { y3(k, j, i) = 6 * x3(k, j, i) - x3(k - 1, j, i) - x3(k, j - 1, i) - x3(k, j, i - 1) - x3(k + 1, j, i) - x3(k, j + 1, i) - x3(k, j, i + 1); }); } PetscCall(PetscTime(&tend)); PetscCall(DMDAVecRestoreKokkosOffsetView(da, x, &x3)); PetscCall(DMDAVecRestoreKokkosOffsetView(da, y, &y3)); avgTime = (tend - tstart) / nloop; PetscCall(PetscPrintf(PETSC_COMM_WORLD, "%4d^3 -- Kokkos average time = %e\n", static_cast(len), avgTime)); PetscCall(VecDestroy(&x)); PetscCall(VecDestroy(&y)); PetscCall(DMDestroy(&da)); } PetscCall(PetscRandomDestroy(&rctx)); PetscCall(PetscFinalize()); return 0; } /*TEST build: requires: kokkos_kernels test: suffix: 1 requires: kokkos_kernels args: -min 32 -max 32 -dm_vec_type kokkos filter: grep -v "time" output_file: output/empty.out TEST*/