/* $Id$ */ #include "testphdf5.h" #define DIM 2 #define SIZE 32 #define NDATASET 4 #define GROUP_DEPTH 128 void write_dataset(hid_t, hid_t, hid_t); int read_dataset(hid_t, hid_t, hid_t); void create_group_recursive(hid_t, hid_t, hid_t, int); void recursive_read_group(hid_t, hid_t, hid_t, int); /* * Example of using PHDF5 to create ndatasets datasets. Each process write * a slab of array to the file. */ void multiple_dset_write(char *filename, int ndatasets) { int i, j, n, mpi_size, mpi_rank; hid_t iof, plist, dataset, memspace, filespace; hssize_t chunk_origin [DIM]; hsize_t chunk_dims [DIM], file_dims [DIM]; hsize_t count[DIM]={1,1}; double outme [SIZE][SIZE]; char dname [100]; MPI_Comm_rank (MPI_COMM_WORLD, &mpi_rank); MPI_Comm_size (MPI_COMM_WORLD, &mpi_size); VRFY((mpi_size <= SIZE), "mpi_size <= SIZE"); chunk_origin [0] = mpi_rank * (SIZE / mpi_size); chunk_origin [1] = 0; chunk_dims [0] = SIZE / mpi_size; chunk_dims [1] = SIZE; for (i = 0; i < DIM; i++) file_dims [i] = SIZE; plist = H5Pcreate (H5P_FILE_ACCESS); H5Pset_fapl_mpio(plist, MPI_COMM_WORLD, MPI_INFO_NULL); iof = H5Fcreate (filename, H5F_ACC_TRUNC, H5P_DEFAULT, plist); H5Pclose (plist); memspace = H5Screate_simple (DIM, chunk_dims, NULL); filespace = H5Screate_simple (DIM, file_dims, NULL); H5Sselect_hyperslab (filespace, H5S_SELECT_SET, chunk_origin, chunk_dims, count, chunk_dims); for (n = 0; n < ndatasets; n++) { sprintf (dname, "dataset %d", n); dataset = H5Dcreate (iof, dname, H5T_NATIVE_DOUBLE, filespace, H5P_DEFAULT); VRFY((dataset > 0), dname); /* calculate data to write */ for (i = 0; i < SIZE; i++) for (j = 0; j < SIZE; j++) outme [i][j] = n*1000 + mpi_rank; H5Dwrite (dataset, H5T_NATIVE_DOUBLE, memspace, filespace, H5P_DEFAULT, outme); H5Dclose (dataset); if (! ((n+1) % 10)) { printf("created %d datasets\n", n+1); MPI_Barrier(MPI_COMM_WORLD); } } H5Sclose (filespace); H5Sclose (memspace); H5Fclose (iof); } /* * Example of using PHDF5 to create multiple groups. Under the root group, * it creates ngroups groups. Under the first group just created, it creates * recursive subgroups of depth GROUP_DEPTH. In each created group, it * generates NDATASETS datasets. Each process write a hyperslab of an array * into the file. */ void multiple_group_write(char *filename, int ngroups) { int mpi_rank, mpi_size; int i, j, l, m; char gname[64]; hid_t fid, gid, plist, memspace, filespace; hssize_t chunk_origin[DIM]; hsize_t chunk_dims[DIM], file_dims[DIM], count[DIM]={1,1}; MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank); MPI_Comm_size(MPI_COMM_WORLD, &mpi_size); plist = H5Pcreate(H5P_FILE_ACCESS); H5Pset_fapl_mpio(plist, MPI_COMM_WORLD, MPI_INFO_NULL); fid = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, plist); H5Pclose(plist); chunk_origin[0] = mpi_rank * (SIZE/mpi_size); chunk_origin[1] = 0; chunk_dims[0] = SIZE / mpi_size; chunk_dims[1] = SIZE; for(l=0; l 0), gname); if(m != 0) write_dataset(memspace, filespace, gid); H5Gclose(gid); if(! ((m+1) % 10)) { printf("created %d groups\n", m+1); MPI_Barrier(MPI_COMM_WORLD); } } /* recursively creates subgroups under the first group. */ gid = H5Gopen(fid, "group0"); create_group_recursive(memspace, filespace, gid, 0); H5Gclose(gid); H5Sclose(filespace); H5Sclose(memspace); H5Fclose(fid); } /* * In a group, creates NDATASETS datasets. Each process writes a hyperslab * of a data array to the file. */ void write_dataset(hid_t memspace, hid_t filespace, hid_t gid) { int i, j, n; int mpi_rank; char dname[32]; DATATYPE outme[SIZE][SIZE]; hid_t did; MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank); for(n=0; n < NDATASET; n++) { sprintf(dname, "dataset%d", n); did = H5Dcreate(gid, dname, H5T_NATIVE_DOUBLE, filespace, H5P_DEFAULT); VRFY((did > 0), dname); for(i=0; i < SIZE; i++) for(j=0; j < SIZE; j++) outme[i][j] = n*1000 + mpi_rank; H5Dwrite(did, H5T_NATIVE_DOUBLE, memspace, filespace, H5P_DEFAULT, outme); H5Dclose(did); } } /* * Creates subgroups of depth GROUP_DEPTH recursively. Also writes datasets * in parallel in each group. */ void create_group_recursive(hid_t memspace, hid_t filespace, hid_t gid, int counter) { hid_t child_gid; int mpi_rank; char gname[64]; MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank); if(! ((counter+1) % 10)) { printf("created %dth child groups\n", counter+1); MPI_Barrier(MPI_COMM_WORLD); } sprintf(gname, "%dth_child_group", counter+1); child_gid = H5Gcreate(gid, gname, 0); VRFY((child_gid > 0), gname); /* write datasets in parallel. */ write_dataset(memspace, filespace, gid); if( counter < GROUP_DEPTH ) create_group_recursive(memspace, filespace, child_gid, counter+1); H5Gclose(child_gid); } /* * This function is to verify the data from multiple group testing. It opens * every dataset in every group and check their correctness. */ void multiple_group_read(char *filename, int ngroups) { int mpi_rank, mpi_size, error_num; int l, m; char gname[64]; hid_t plist, fid, gid, memspace, filespace; hssize_t chunk_origin[DIM]; hsize_t chunk_dims[DIM], file_dims[DIM], count[DIM]={1,1}; MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank); MPI_Comm_size(MPI_COMM_WORLD, &mpi_size); plist = H5Pcreate(H5P_FILE_ACCESS); H5Pset_fapl_mpio(plist, MPI_COMM_WORLD, MPI_INFO_NULL); fid = H5Fopen(filename, H5F_ACC_RDONLY, plist); H5Pclose(plist); chunk_origin[0] = mpi_rank * (SIZE/mpi_size); chunk_origin[1] = 0; chunk_dims[0] = SIZE / mpi_size; chunk_dims[1] = SIZE; for(l=0; l 0), gname); /* check the data. */ if(m != 0) if( error_num = read_dataset(memspace, filespace, gid) ) nerrors += error_num; H5Gclose(gid); if(!((m+1)%10)) MPI_Barrier(MPI_COMM_WORLD); } /* open all the groups in vertical direction. */ gid = H5Gopen(fid, "group0"); VRFY((gid>0), "group0"); recursive_read_group(memspace, filespace, gid, 0); H5Gclose(gid); H5Sclose(filespace); H5Sclose(memspace); H5Fclose(fid); } /* * This function opens all the datasets in a certain, checks the data using * dataset_vrfy function. */ int read_dataset(hid_t memspace, hid_t filespace, hid_t gid) { int i, j, n, mpi_rank, vrfy_errors=0; char dname[32]; DATATYPE outdata[SIZE][SIZE], indata[SIZE][SIZE]; hid_t did; hsize_t block[DIM]={SIZE,SIZE}; MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank); for(n=0; n0), dname); H5Dread(did, H5T_NATIVE_DOUBLE, memspace, filespace, H5P_DEFAULT, indata); for(i=0; i0), gname); recursive_read_group(memspace, filespace, child_gid, counter+1); H5Gclose(child_gid); } }