/* * This example writes dataset sing chunking. Each process writes * exactly one chunk. * - | * * V * Number of processes is assumed to be 4. */ #include "hdf5.h" #include "stdlib.h" #define H5FILE_NAME "SDS_chnk.h5" #define DATASETNAME "IntArray" #define NX 8 /* dataset dimensions */ #define NY 4 #define CH_NX 4 /* chunk dimensions */ #define CH_NY 2 #define RANK 2 int main(int argc, char **argv) { /* * HDF5 APIs definitions */ hid_t file_id, dset_id; /* file and dataset identifiers */ hid_t filespace, memspace; /* file and memory dataspace identifiers */ hsize_t dimsf[2]; /* dataset dimensions */ hsize_t chunk_dims[2]; /* chunk dimensions */ int *data; /* pointer to data buffer to write */ hsize_t count[2]; /* hyperslab selection parameters */ hsize_t stride[2]; hsize_t block[2]; hsize_t offset[2]; hid_t plist_id; /* property list identifier */ int i; herr_t status; /* * MPI variables */ int mpi_size, mpi_rank; MPI_Comm comm = MPI_COMM_WORLD; MPI_Info info = MPI_INFO_NULL; /* * Initialize MPI */ MPI_Init(&argc, &argv); MPI_Comm_size(comm, &mpi_size); MPI_Comm_rank(comm, &mpi_rank); /* * Exit if number of processes is not 4. */ if (mpi_size != 4) { printf("This example to set up to use only 4 processes \n"); printf("Quitting...\n"); return 0; } /* * Set up file access property list with parallel I/O access */ plist_id = H5Pcreate(H5P_FILE_ACCESS); H5Pset_fapl_mpio(plist_id, comm, info); /* * Create a new file collectively and release property list identifier. */ file_id = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, plist_id); H5Pclose(plist_id); /* * Create the dataspace for the dataset. */ dimsf[0] = NX; dimsf[1] = NY; chunk_dims[0] = CH_NX; chunk_dims[1] = CH_NY; filespace = H5Screate_simple(RANK, dimsf, NULL); memspace = H5Screate_simple(RANK, chunk_dims, NULL); /* * Create chunked dataset. */ plist_id = H5Pcreate(H5P_DATASET_CREATE); H5Pset_chunk(plist_id, RANK, chunk_dims); dset_id = H5Dcreate(file_id, DATASETNAME, H5T_NATIVE_INT, filespace, H5P_DEFAULT, plist_id, H5P_DEFAULT); H5Pclose(plist_id); H5Sclose(filespace); /* * Each process defines dataset in memory and writes it to the hyperslab * in the file. */ count[0] = 1; count[1] = 1; stride[0] = 1; stride[1] = 1; block[0] = chunk_dims[0]; block[1] = chunk_dims[1]; if (mpi_rank == 0) { offset[0] = 0; offset[1] = 0; } if (mpi_rank == 1) { offset[0] = 0; offset[1] = chunk_dims[1]; } if (mpi_rank == 2) { offset[0] = chunk_dims[0]; offset[1] = 0; } if (mpi_rank == 3) { offset[0] = chunk_dims[0]; offset[1] = chunk_dims[1]; } /* * Select hyperslab in the file. */ filespace = H5Dget_space(dset_id); status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, stride, count, block); /* * Initialize data buffer */ data = (int *)malloc(sizeof(int) * chunk_dims[0] * chunk_dims[1]); for (i = 0; i < (int)chunk_dims[0] * chunk_dims[1]; i++) { data[i] = mpi_rank + 1; } /* * Create property list for collective dataset write. */ plist_id = H5Pcreate(H5P_DATASET_XFER); H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE); status = H5Dwrite(dset_id, H5T_NATIVE_INT, memspace, filespace, plist_id, data); free(data); /* * Close/release resources. */ H5Dclose(dset_id); H5Sclose(filespace); H5Sclose(memspace); H5Pclose(plist_id); H5Fclose(file_id); if (mpi_rank == 0) printf("PHDF5 example finished with no errors\n"); MPI_Finalize(); return 0; }