mirror of
https://github.com/HDFGroup/hdf5.git
synced 2024-11-27 02:10:55 +08:00
c6f898c3c7
Code cleanup
Description:
Cleaned up some compiler warnings.
Platforms tested:
FreeBSD 4.6 (sleipnir) w/serial & parallel. Will be testing on IRIX64
6.5 (modi4) in serial & parallel shortly.
1285 lines
43 KiB
C
1285 lines
43 KiB
C
/* $Id$ */
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/*
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* Parallel tests for datasets
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*/
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/*
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* Example of using the parallel HDF5 library to access datasets.
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*
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* This program contains two major parts. Part 1 tests fixed dimension
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* datasets, for both independent and collective transfer modes.
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* Part 2 tests extendible datasets, for independent transfer mode
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* only. Collective mode for extendible datasets are not supported yet.
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*/
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#include "testphdf5.h"
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/*
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* The following are various utility routines used by the tests.
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*/
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/*
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* Setup the dimensions of the hyperslab.
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* Two modes--by rows or by columns.
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* Assume dimension rank is 2.
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* BYROW divide into slabs of rows
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* BYCOL divide into blocks of columns
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* ZROW same as BYROW except process 0 gets 0 rows
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* ZCOL same as BYCOL except process 0 gets 0 columns
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*/
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static void
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slab_set(int mpi_rank, int mpi_size, hssize_t start[], hsize_t count[],
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hsize_t stride[], hsize_t block[], int mode)
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{
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switch (mode){
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case BYROW:
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/* Each process takes a slabs of rows. */
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block[0] = dim0/mpi_size;
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block[1] = dim1;
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stride[0] = block[0];
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stride[1] = block[1];
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count[0] = 1;
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count[1] = 1;
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start[0] = mpi_rank*block[0];
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start[1] = 0;
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if (verbose) printf("slab_set BYROW\n");
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break;
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case BYCOL:
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/* Each process takes a block of columns. */
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block[0] = dim0;
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block[1] = dim1/mpi_size;
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stride[0] = block[0];
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stride[1] = block[1];
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count[0] = 1;
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count[1] = 1;
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start[0] = 0;
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start[1] = mpi_rank*block[1];
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if (verbose) printf("slab_set BYCOL\n");
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break;
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case ZROW:
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/* Similar to BYROW except process 0 gets 0 row */
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block[0] = (mpi_rank ? dim0/mpi_size : 0);
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block[1] = dim1;
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stride[0] = block[0];
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stride[1] = block[1];
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count[0] = 1;
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count[1] = 1;
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start[0] = (mpi_rank? mpi_rank*block[0] : 0);
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start[1] = 0;
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if (verbose) printf("slab_set ZROW\n");
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break;
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case ZCOL:
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/* Similar to BYCOL except process 0 gets 0 column */
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block[0] = dim0;
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block[1] = (mpi_rank ? dim1/mpi_size : 0);
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stride[0] = block[0];
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stride[1] = block[1];
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count[0] = 1;
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count[1] = 1;
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start[0] = 0;
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start[1] = (mpi_rank? mpi_rank*block[1] : 0);
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if (verbose) printf("slab_set ZCOL\n");
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break;
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default:
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/* Unknown mode. Set it to cover the whole dataset. */
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printf("unknown slab_set mode (%d)\n", mode);
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block[0] = dim0;
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block[1] = dim1;
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stride[0] = block[0];
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stride[1] = block[1];
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count[0] = 1;
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count[1] = 1;
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start[0] = 0;
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start[1] = 0;
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if (verbose) printf("slab_set wholeset\n");
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break;
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}
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if (verbose){
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printf("start[]=(%ld,%ld), count[]=(%lu,%lu), stride[]=(%lu,%lu), block[]=(%lu,%lu), total datapoints=%lu\n",
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(long)start[0], (long)start[1], (unsigned long)count[0], (unsigned long)count[1],
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(unsigned long)stride[0], (unsigned long)stride[1], (unsigned long)block[0], (unsigned long)block[1],
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(unsigned long)(block[0]*block[1]*count[0]*count[1]));
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}
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}
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/*
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* Fill the dataset with trivial data for testing.
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* Assume dimension rank is 2 and data is stored contiguous.
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*/
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static void
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dataset_fill(hssize_t start[], hsize_t block[], DATATYPE * dataset)
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{
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DATATYPE *dataptr = dataset;
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hsize_t i, j;
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/* put some trivial data in the data_array */
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for (i=0; i < block[0]; i++){
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for (j=0; j < block[1]; j++){
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*dataptr = (DATATYPE)((i+start[0])*100 + (j+start[1]+1));
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dataptr++;
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}
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}
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}
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/*
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* Print the content of the dataset.
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*/
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static void
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dataset_print(hssize_t start[], hsize_t block[], DATATYPE * dataset)
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{
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DATATYPE *dataptr = dataset;
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hsize_t i, j;
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/* print the column heading */
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printf("%-8s", "Cols:");
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for (j=0; j < block[1]; j++){
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printf("%3ld ", (long)(start[1]+j));
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}
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printf("\n");
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/* print the slab data */
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for (i=0; i < block[0]; i++){
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printf("Row %2ld: ", (long)(i+start[0]));
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for (j=0; j < block[1]; j++){
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printf("%03d ", *dataptr++);
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}
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printf("\n");
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}
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}
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/*
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* Print the content of the dataset.
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*/
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int dataset_vrfy(hssize_t start[], hsize_t count[], hsize_t stride[], hsize_t block[], DATATYPE *dataset, DATATYPE *original)
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{
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hsize_t i, j;
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int vrfyerrs;
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/* print it if verbose */
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if (verbose) {
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printf("dataset_vrfy dumping:::\n");
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printf("start(%ld, %ld), count(%lu, %lu), stride(%lu, %lu), block(%lu, %lu)\n",
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(long)start[0], (long)start[1], (unsigned long)count[0], (unsigned long)count[1],
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(unsigned long)stride[0], (unsigned long)stride[1], (unsigned long)block[0], (unsigned long)block[1]);
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printf("original values:\n");
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dataset_print(start, block, original);
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printf("compared values:\n");
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dataset_print(start, block, dataset);
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}
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vrfyerrs = 0;
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for (i=0; i < block[0]; i++){
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for (j=0; j < block[1]; j++){
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if (*dataset != *original){
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if (vrfyerrs++ < MAX_ERR_REPORT || verbose){
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printf("Dataset Verify failed at [%ld][%ld](row %ld, col %ld): expect %d, got %d\n",
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(long)i, (long)j,
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(long)(i+start[0]), (long)(j+start[1]),
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*(original), *(dataset));
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}
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dataset++;
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original++;
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}
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}
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}
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if (vrfyerrs > MAX_ERR_REPORT && !verbose)
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printf("[more errors ...]\n");
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if (vrfyerrs)
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printf("%d errors found in dataset_vrfy\n", vrfyerrs);
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return(vrfyerrs);
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}
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/*
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* Part 1.a--Independent read/write for fixed dimension datasets.
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*/
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/*
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* Example of using the parallel HDF5 library to create two datasets
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* in one HDF5 files with parallel MPIO access support.
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* The Datasets are of sizes (number-of-mpi-processes x dim0) x dim1.
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* Each process controls only a slab of size dim0 x dim1 within each
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* dataset.
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*/
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void
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dataset_writeInd(char *filename)
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{
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hid_t fid; /* HDF5 file ID */
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hid_t acc_tpl; /* File access templates */
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hid_t sid; /* Dataspace ID */
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hid_t file_dataspace; /* File dataspace ID */
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hid_t mem_dataspace; /* memory dataspace ID */
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hid_t dataset1, dataset2; /* Dataset ID */
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hsize_t dims[RANK]; /* dataset dim sizes */
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DATATYPE *data_array1 = NULL; /* data buffer */
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hssize_t start[RANK]; /* for hyperslab setting */
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hsize_t count[RANK], stride[RANK]; /* for hyperslab setting */
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hsize_t block[RANK]; /* for hyperslab setting */
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herr_t ret; /* Generic return value */
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int mpi_size, mpi_rank;
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MPI_Comm comm = MPI_COMM_WORLD;
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MPI_Info info = MPI_INFO_NULL;
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if (verbose)
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printf("Independent write test on file %s\n", filename);
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/* set up MPI parameters */
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MPI_Comm_size(MPI_COMM_WORLD,&mpi_size);
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MPI_Comm_rank(MPI_COMM_WORLD,&mpi_rank);
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/* allocate memory for data buffer */
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data_array1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
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VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
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/* ----------------------------------------
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* CREATE AN HDF5 FILE WITH PARALLEL ACCESS
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* ---------------------------------------*/
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/* setup file access template */
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acc_tpl = create_faccess_plist(comm, info, facc_type);
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VRFY((acc_tpl >= 0), "");
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/* create the file collectively */
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fid=H5Fcreate(filename,H5F_ACC_TRUNC,H5P_DEFAULT,acc_tpl);
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VRFY((fid >= 0), "H5Fcreate succeeded");
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/* Release file-access template */
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ret=H5Pclose(acc_tpl);
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VRFY((ret >= 0), "");
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/* ---------------------------------------------
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* Define the dimensions of the overall datasets
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* and the slabs local to the MPI process.
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* ------------------------------------------- */
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/* setup dimensionality object */
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dims[0] = dim0;
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dims[1] = dim1;
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sid = H5Screate_simple (RANK, dims, NULL);
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VRFY((sid >= 0), "H5Screate_simple succeeded");
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/* create a dataset collectively */
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dataset1 = H5Dcreate(fid, DATASETNAME1, H5T_NATIVE_INT, sid,
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H5P_DEFAULT);
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VRFY((dataset1 >= 0), "H5Dcreate succeeded");
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/* create another dataset collectively */
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dataset2 = H5Dcreate(fid, DATASETNAME2, H5T_NATIVE_INT, sid,
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H5P_DEFAULT);
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VRFY((dataset2 >= 0), "H5Dcreate succeeded");
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/*
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* To test the independent orders of writes between processes, all
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* even number processes write to dataset1 first, then dataset2.
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* All odd number processes write to dataset2 first, then dataset1.
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*/
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/* set up dimensions of the slab this process accesses */
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slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
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/* put some trivial data in the data_array */
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dataset_fill(start, block, data_array1);
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MESG("data_array initialized");
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/* create a file dataspace independently */
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file_dataspace = H5Dget_space (dataset1);
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VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
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ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
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VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
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/* create a memory dataspace independently */
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mem_dataspace = H5Screate_simple (RANK, block, NULL);
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VRFY((mem_dataspace >= 0), "");
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/* write data independently */
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ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
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H5P_DEFAULT, data_array1);
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VRFY((ret >= 0), "H5Dwrite dataset1 succeeded");
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/* write data independently */
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ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
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H5P_DEFAULT, data_array1);
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VRFY((ret >= 0), "H5Dwrite dataset2 succeeded");
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/* setup dimensions again to write with zero rows for process 0 */
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if (verbose)
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printf("writeInd by some with zero row\n");
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slab_set(mpi_rank, mpi_size, start, count, stride, block, ZROW);
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ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
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VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
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/* need to make mem_dataspace to match for process 0 */
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if (MAINPROCESS){
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ret=H5Sselect_hyperslab(mem_dataspace, H5S_SELECT_SET, start, stride, count, block);
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VRFY((ret >= 0), "H5Sset_hyperslab mem_dataspace succeeded");
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}
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MESG("writeInd by some with zero row");
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if ((mpi_rank/2)*2 != mpi_rank){
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ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
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H5P_DEFAULT, data_array1);
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VRFY((ret >= 0), "H5Dwrite dataset1 by ZROW succeeded");
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}
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#ifdef BARRIER_CHECKS
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MPI_Barrier(MPI_COMM_WORLD);
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#endif /* BARRIER_CHECKS */
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/* release dataspace ID */
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H5Sclose(file_dataspace);
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/* close dataset collectively */
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ret=H5Dclose(dataset1);
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VRFY((ret >= 0), "H5Dclose1 succeeded");
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ret=H5Dclose(dataset2);
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VRFY((ret >= 0), "H5Dclose2 succeeded");
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/* release all IDs created */
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H5Sclose(sid);
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/* close the file collectively */
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H5Fclose(fid);
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/* release data buffers */
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if (data_array1) free(data_array1);
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}
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/* Example of using the parallel HDF5 library to read a dataset */
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void
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dataset_readInd(char *filename)
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{
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hid_t fid; /* HDF5 file ID */
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hid_t acc_tpl; /* File access templates */
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hid_t file_dataspace; /* File dataspace ID */
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hid_t mem_dataspace; /* memory dataspace ID */
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hid_t dataset1, dataset2; /* Dataset ID */
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DATATYPE *data_array1 = NULL; /* data buffer */
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DATATYPE *data_origin1 = NULL; /* expected data buffer */
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hssize_t start[RANK]; /* for hyperslab setting */
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hsize_t count[RANK], stride[RANK]; /* for hyperslab setting */
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hsize_t block[RANK]; /* for hyperslab setting */
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herr_t ret; /* Generic return value */
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int mpi_size, mpi_rank;
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MPI_Comm comm = MPI_COMM_WORLD;
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MPI_Info info = MPI_INFO_NULL;
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if (verbose)
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printf("Independent read test on file %s\n", filename);
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/* set up MPI parameters */
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MPI_Comm_size(MPI_COMM_WORLD,&mpi_size);
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MPI_Comm_rank(MPI_COMM_WORLD,&mpi_rank);
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/* allocate memory for data buffer */
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data_array1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
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VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
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data_origin1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
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VRFY((data_origin1 != NULL), "data_origin1 malloc succeeded");
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/* setup file access template */
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acc_tpl = create_faccess_plist(comm, info, facc_type);
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VRFY((acc_tpl >= 0), "");
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/* open the file collectively */
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fid=H5Fopen(filename,H5F_ACC_RDONLY,acc_tpl);
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VRFY((fid >= 0), "");
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/* Release file-access template */
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ret=H5Pclose(acc_tpl);
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VRFY((ret >= 0), "");
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/* open the dataset1 collectively */
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dataset1 = H5Dopen(fid, DATASETNAME1);
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VRFY((dataset1 >= 0), "");
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/* open another dataset collectively */
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dataset2 = H5Dopen(fid, DATASETNAME1);
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VRFY((dataset2 >= 0), "");
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/* set up dimensions of the slab this process accesses */
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slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
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/* create a file dataspace independently */
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file_dataspace = H5Dget_space (dataset1);
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VRFY((file_dataspace >= 0), "");
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ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
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VRFY((ret >= 0), "");
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/* create a memory dataspace independently */
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mem_dataspace = H5Screate_simple (RANK, block, NULL);
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VRFY((mem_dataspace >= 0), "");
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/* fill dataset with test data */
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dataset_fill(start, block, data_origin1);
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/* read data independently */
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ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
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H5P_DEFAULT, data_array1);
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VRFY((ret >= 0), "");
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/* verify the read data with original expected data */
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ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
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if (ret) nerrors++;
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/* read data independently */
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ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
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H5P_DEFAULT, data_array1);
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VRFY((ret >= 0), "");
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/* verify the read data with original expected data */
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ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
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if (ret) nerrors++;
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/* close dataset collectively */
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ret=H5Dclose(dataset1);
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VRFY((ret >= 0), "");
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ret=H5Dclose(dataset2);
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VRFY((ret >= 0), "");
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/* release all IDs created */
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H5Sclose(file_dataspace);
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/* close the file collectively */
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H5Fclose(fid);
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/* release data buffers */
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if (data_array1) free(data_array1);
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if (data_origin1) free(data_origin1);
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}
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/*
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* Part 1.b--Collective read/write for fixed dimension datasets.
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*/
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/*
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* Example of using the parallel HDF5 library to create two datasets
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* in one HDF5 file with collective parallel access support.
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* The Datasets are of sizes (number-of-mpi-processes x dim0) x dim1.
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* Each process controls only a slab of size dim0 x dim1 within each
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* dataset. [Note: not so yet. Datasets are of sizes dim0xdim1 and
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* each process controls a hyperslab within.]
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*/
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void
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dataset_writeAll(char *filename)
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{
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hid_t fid; /* HDF5 file ID */
|
|
hid_t acc_tpl; /* File access templates */
|
|
hid_t xfer_plist; /* Dataset transfer properties list */
|
|
hid_t sid; /* Dataspace ID */
|
|
hid_t file_dataspace; /* File dataspace ID */
|
|
hid_t mem_dataspace; /* memory dataspace ID */
|
|
hid_t dataset1, dataset2; /* Dataset ID */
|
|
hid_t datatype; /* Datatype ID */
|
|
hsize_t dims[RANK]; /* dataset dim sizes */
|
|
DATATYPE *data_array1 = NULL; /* data buffer */
|
|
|
|
hssize_t start[RANK]; /* for hyperslab setting */
|
|
hsize_t count[RANK], stride[RANK]; /* for hyperslab setting */
|
|
hsize_t block[RANK]; /* for hyperslab setting */
|
|
|
|
herr_t ret; /* Generic return value */
|
|
int mpi_size, mpi_rank;
|
|
|
|
MPI_Comm comm = MPI_COMM_WORLD;
|
|
MPI_Info info = MPI_INFO_NULL;
|
|
|
|
if (verbose)
|
|
printf("Collective write test on file %s\n", filename);
|
|
|
|
/* set up MPI parameters */
|
|
MPI_Comm_size(MPI_COMM_WORLD,&mpi_size);
|
|
MPI_Comm_rank(MPI_COMM_WORLD,&mpi_rank);
|
|
|
|
/* allocate memory for data buffer */
|
|
data_array1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
|
|
VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
|
|
|
|
/* -------------------
|
|
* START AN HDF5 FILE
|
|
* -------------------*/
|
|
/* setup file access template */
|
|
acc_tpl = create_faccess_plist(comm, info, facc_type);
|
|
VRFY((acc_tpl >= 0), "");
|
|
|
|
/* create the file collectively */
|
|
fid=H5Fcreate(filename,H5F_ACC_TRUNC,H5P_DEFAULT,acc_tpl);
|
|
VRFY((fid >= 0), "H5Fcreate succeeded");
|
|
|
|
/* Release file-access template */
|
|
ret=H5Pclose(acc_tpl);
|
|
VRFY((ret >= 0), "");
|
|
|
|
|
|
/* --------------------------
|
|
* Define the dimensions of the overall datasets
|
|
* and create the dataset
|
|
* ------------------------- */
|
|
/* setup dimensionality object */
|
|
dims[0] = dim0;
|
|
dims[1] = dim1;
|
|
sid = H5Screate_simple (RANK, dims, NULL);
|
|
VRFY((sid >= 0), "H5Screate_simple succeeded");
|
|
|
|
|
|
/* create a dataset collectively */
|
|
dataset1 = H5Dcreate(fid, DATASETNAME1, H5T_NATIVE_INT, sid, H5P_DEFAULT);
|
|
VRFY((dataset1 >= 0), "H5Dcreate succeeded");
|
|
|
|
/* create another dataset collectively */
|
|
datatype = H5Tcopy(H5T_NATIVE_INT);
|
|
ret = H5Tset_order(datatype, H5T_ORDER_LE);
|
|
VRFY((ret >= 0), "H5Tset_order succeeded");
|
|
|
|
dataset2 = H5Dcreate(fid, DATASETNAME2, datatype, sid, H5P_DEFAULT);
|
|
VRFY((dataset2 >= 0), "H5Dcreate 2 succeeded");
|
|
|
|
/*
|
|
* Set up dimensions of the slab this process accesses.
|
|
*/
|
|
|
|
/* Dataset1: each process takes a block of rows. */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset1);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* fill the local slab with some trivial data */
|
|
dataset_fill(start, block, data_array1);
|
|
MESG("data_array initialized");
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_array1);
|
|
}
|
|
|
|
/* set up the collective transfer properties list */
|
|
xfer_plist = H5Pcreate (H5P_DATASET_XFER);
|
|
VRFY((xfer_plist >= 0), "");
|
|
ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
|
|
VRFY((ret >= 0), "H5Pcreate xfer succeeded");
|
|
|
|
/* write data collectively */
|
|
MESG("writeAll by Row");
|
|
ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dwrite dataset1 succeeded");
|
|
|
|
/* setup dimensions again to writeAll with zero rows for process 0 */
|
|
if (verbose)
|
|
printf("writeAll by some with zero row\n");
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, ZROW);
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
/* need to make mem_dataspace to match for process 0 */
|
|
if (MAINPROCESS){
|
|
ret=H5Sselect_hyperslab(mem_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab mem_dataspace succeeded");
|
|
}
|
|
MESG("writeAll by some with zero row");
|
|
ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dwrite dataset1 by ZROW succeeded");
|
|
|
|
/* release all temporary handles. */
|
|
/* Could have used them for dataset2 but it is cleaner */
|
|
/* to create them again.*/
|
|
H5Sclose(file_dataspace);
|
|
H5Sclose(mem_dataspace);
|
|
H5Pclose(xfer_plist);
|
|
|
|
/* Dataset2: each process takes a block of columns. */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYCOL);
|
|
|
|
/* put some trivial data in the data_array */
|
|
dataset_fill(start, block, data_array1);
|
|
MESG("data_array initialized");
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_array1);
|
|
}
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset1);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* fill the local slab with some trivial data */
|
|
dataset_fill(start, block, data_array1);
|
|
MESG("data_array initialized");
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_array1);
|
|
}
|
|
|
|
/* set up the collective transfer properties list */
|
|
xfer_plist = H5Pcreate (H5P_DATASET_XFER);
|
|
VRFY((xfer_plist >= 0), "");
|
|
ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
|
|
VRFY((ret >= 0), "H5Pcreate xfer succeeded");
|
|
|
|
/* write data independently */
|
|
ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dwrite dataset2 succeeded");
|
|
|
|
/* setup dimensions again to writeAll with zero columns for process 0 */
|
|
if (verbose)
|
|
printf("writeAll by some with zero col\n");
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, ZCOL);
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
/* need to make mem_dataspace to match for process 0 */
|
|
if (MAINPROCESS){
|
|
ret=H5Sselect_hyperslab(mem_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab mem_dataspace succeeded");
|
|
}
|
|
MESG("writeAll by some with zero col");
|
|
ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dwrite dataset1 by ZCOL succeeded");
|
|
|
|
/* release all temporary handles. */
|
|
H5Sclose(file_dataspace);
|
|
H5Sclose(mem_dataspace);
|
|
H5Pclose(xfer_plist);
|
|
|
|
|
|
/*
|
|
* All writes completed. Close datasets collectively
|
|
*/
|
|
ret=H5Dclose(dataset1);
|
|
VRFY((ret >= 0), "H5Dclose1 succeeded");
|
|
ret=H5Dclose(dataset2);
|
|
VRFY((ret >= 0), "H5Dclose2 succeeded");
|
|
|
|
/* release all IDs created */
|
|
H5Sclose(sid);
|
|
|
|
/* close the file collectively */
|
|
H5Fclose(fid);
|
|
|
|
/* release data buffers */
|
|
if (data_array1) free(data_array1);
|
|
}
|
|
|
|
/*
|
|
* Example of using the parallel HDF5 library to read two datasets
|
|
* in one HDF5 file with collective parallel access support.
|
|
* The Datasets are of sizes (number-of-mpi-processes x dim0) x dim1.
|
|
* Each process controls only a slab of size dim0 x dim1 within each
|
|
* dataset. [Note: not so yet. Datasets are of sizes dim0xdim1 and
|
|
* each process controls a hyperslab within.]
|
|
*/
|
|
|
|
void
|
|
dataset_readAll(char *filename)
|
|
{
|
|
hid_t fid; /* HDF5 file ID */
|
|
hid_t acc_tpl; /* File access templates */
|
|
hid_t xfer_plist; /* Dataset transfer properties list */
|
|
hid_t file_dataspace; /* File dataspace ID */
|
|
hid_t mem_dataspace; /* memory dataspace ID */
|
|
hid_t dataset1, dataset2; /* Dataset ID */
|
|
DATATYPE *data_array1 = NULL; /* data buffer */
|
|
DATATYPE *data_origin1 = NULL; /* expected data buffer */
|
|
|
|
hssize_t start[RANK]; /* for hyperslab setting */
|
|
hsize_t count[RANK], stride[RANK]; /* for hyperslab setting */
|
|
hsize_t block[RANK]; /* for hyperslab setting */
|
|
|
|
herr_t ret; /* Generic return value */
|
|
int mpi_size, mpi_rank;
|
|
|
|
MPI_Comm comm = MPI_COMM_WORLD;
|
|
MPI_Info info = MPI_INFO_NULL;
|
|
|
|
if (verbose)
|
|
printf("Collective read test on file %s\n", filename);
|
|
|
|
/* set up MPI parameters */
|
|
MPI_Comm_size(MPI_COMM_WORLD,&mpi_size);
|
|
MPI_Comm_rank(MPI_COMM_WORLD,&mpi_rank);
|
|
|
|
/* allocate memory for data buffer */
|
|
data_array1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
|
|
VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
|
|
data_origin1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
|
|
VRFY((data_origin1 != NULL), "data_origin1 malloc succeeded");
|
|
|
|
/* -------------------
|
|
* OPEN AN HDF5 FILE
|
|
* -------------------*/
|
|
/* setup file access template */
|
|
acc_tpl = create_faccess_plist(comm, info, facc_type);
|
|
VRFY((acc_tpl >= 0), "");
|
|
|
|
/* open the file collectively */
|
|
fid=H5Fopen(filename,H5F_ACC_RDONLY,acc_tpl);
|
|
VRFY((fid >= 0), "H5Fopen succeeded");
|
|
|
|
/* Release file-access template */
|
|
ret=H5Pclose(acc_tpl);
|
|
VRFY((ret >= 0), "");
|
|
|
|
|
|
/* --------------------------
|
|
* Open the datasets in it
|
|
* ------------------------- */
|
|
/* open the dataset1 collectively */
|
|
dataset1 = H5Dopen(fid, DATASETNAME1);
|
|
VRFY((dataset1 >= 0), "H5Dopen succeeded");
|
|
|
|
/* open another dataset collectively */
|
|
dataset2 = H5Dopen(fid, DATASETNAME2);
|
|
VRFY((dataset2 >= 0), "H5Dopen 2 succeeded");
|
|
|
|
/*
|
|
* Set up dimensions of the slab this process accesses.
|
|
*/
|
|
|
|
/* Dataset1: each process takes a block of columns. */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYCOL);
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset1);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* fill dataset with test data */
|
|
dataset_fill(start, block, data_origin1);
|
|
MESG("data_array initialized");
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_origin1);
|
|
}
|
|
|
|
/* set up the collective transfer properties list */
|
|
xfer_plist = H5Pcreate (H5P_DATASET_XFER);
|
|
VRFY((xfer_plist >= 0), "");
|
|
ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
|
|
VRFY((ret >= 0), "H5Pcreate xfer succeeded");
|
|
|
|
/* read data collectively */
|
|
ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dread dataset1 succeeded");
|
|
|
|
/* verify the read data with original expected data */
|
|
ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
|
|
if (ret) nerrors++;
|
|
|
|
/* setup dimensions again to readAll with zero columns for process 0 */
|
|
if (verbose)
|
|
printf("readAll by some with zero col\n");
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, ZCOL);
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
/* need to make mem_dataspace to match for process 0 */
|
|
if (MAINPROCESS){
|
|
ret=H5Sselect_hyperslab(mem_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab mem_dataspace succeeded");
|
|
}
|
|
MESG("readAll by some with zero col");
|
|
ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dread dataset1 by ZCOL succeeded");
|
|
|
|
/* verify the read data with original expected data */
|
|
ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
|
|
if (ret) nerrors++;
|
|
|
|
/* release all temporary handles. */
|
|
/* Could have used them for dataset2 but it is cleaner */
|
|
/* to create them again.*/
|
|
H5Sclose(file_dataspace);
|
|
H5Sclose(mem_dataspace);
|
|
H5Pclose(xfer_plist);
|
|
|
|
/* Dataset2: each process takes a block of rows. */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset1);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* fill dataset with test data */
|
|
dataset_fill(start, block, data_origin1);
|
|
MESG("data_array initialized");
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_origin1);
|
|
}
|
|
|
|
/* set up the collective transfer properties list */
|
|
xfer_plist = H5Pcreate (H5P_DATASET_XFER);
|
|
VRFY((xfer_plist >= 0), "");
|
|
ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
|
|
VRFY((ret >= 0), "H5Pcreate xfer succeeded");
|
|
|
|
/* read data collectively */
|
|
ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dread dataset2 succeeded");
|
|
|
|
/* verify the read data with original expected data */
|
|
ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
|
|
if (ret) nerrors++;
|
|
|
|
/* setup dimensions again to readAll with zero rows for process 0 */
|
|
if (verbose)
|
|
printf("readAll by some with zero row\n");
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, ZROW);
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
/* need to make mem_dataspace to match for process 0 */
|
|
if (MAINPROCESS){
|
|
ret=H5Sselect_hyperslab(mem_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab mem_dataspace succeeded");
|
|
}
|
|
MESG("readAll by some with zero row");
|
|
ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
xfer_plist, data_array1);
|
|
VRFY((ret >= 0), "H5Dread dataset1 by ZROW succeeded");
|
|
|
|
/* verify the read data with original expected data */
|
|
ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
|
|
if (ret) nerrors++;
|
|
|
|
/* release all temporary handles. */
|
|
H5Sclose(file_dataspace);
|
|
H5Sclose(mem_dataspace);
|
|
H5Pclose(xfer_plist);
|
|
|
|
|
|
/*
|
|
* All reads completed. Close datasets collectively
|
|
*/
|
|
ret=H5Dclose(dataset1);
|
|
VRFY((ret >= 0), "H5Dclose1 succeeded");
|
|
ret=H5Dclose(dataset2);
|
|
VRFY((ret >= 0), "H5Dclose2 succeeded");
|
|
|
|
/* close the file collectively */
|
|
H5Fclose(fid);
|
|
|
|
/* release data buffers */
|
|
if (data_array1) free(data_array1);
|
|
if (data_origin1) free(data_origin1);
|
|
}
|
|
|
|
|
|
/*
|
|
* Part 2--Independent read/write for extendible datasets.
|
|
*/
|
|
|
|
/*
|
|
* Example of using the parallel HDF5 library to create two extendible
|
|
* datasets in one HDF5 file with independent parallel MPIO access support.
|
|
* The Datasets are of sizes (number-of-mpi-processes x dim0) x dim1.
|
|
* Each process controls only a slab of size dim0 x dim1 within each
|
|
* dataset.
|
|
*/
|
|
|
|
void
|
|
extend_writeInd(char *filename)
|
|
{
|
|
hid_t fid; /* HDF5 file ID */
|
|
hid_t acc_tpl; /* File access templates */
|
|
hid_t sid; /* Dataspace ID */
|
|
hid_t file_dataspace; /* File dataspace ID */
|
|
hid_t mem_dataspace; /* memory dataspace ID */
|
|
hid_t dataset1, dataset2; /* Dataset ID */
|
|
hsize_t dims[RANK]; /* dataset dim sizes */
|
|
hsize_t max_dims[RANK] =
|
|
{H5S_UNLIMITED, H5S_UNLIMITED}; /* dataset maximum dim sizes */
|
|
DATATYPE *data_array1 = NULL; /* data buffer */
|
|
hsize_t chunk_dims[RANK]; /* chunk sizes */
|
|
hid_t dataset_pl; /* dataset create prop. list */
|
|
|
|
hssize_t start[RANK]; /* for hyperslab setting */
|
|
hsize_t count[RANK]; /* for hyperslab setting */
|
|
hsize_t stride[RANK]; /* for hyperslab setting */
|
|
hsize_t block[RANK]; /* for hyperslab setting */
|
|
|
|
herr_t ret; /* Generic return value */
|
|
int mpi_size, mpi_rank;
|
|
|
|
MPI_Comm comm = MPI_COMM_WORLD;
|
|
MPI_Info info = MPI_INFO_NULL;
|
|
|
|
if (verbose)
|
|
printf("Extend independent write test on file %s\n", filename);
|
|
|
|
/* set up MPI parameters */
|
|
MPI_Comm_size(MPI_COMM_WORLD,&mpi_size);
|
|
MPI_Comm_rank(MPI_COMM_WORLD,&mpi_rank);
|
|
|
|
/* setup chunk-size. Make sure sizes are > 0 */
|
|
chunk_dims[0] = chunkdim0;
|
|
chunk_dims[1] = chunkdim1;
|
|
|
|
/* allocate memory for data buffer */
|
|
data_array1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
|
|
VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
|
|
|
|
/* -------------------
|
|
* START AN HDF5 FILE
|
|
* -------------------*/
|
|
/* setup file access template */
|
|
acc_tpl = create_faccess_plist(comm, info, facc_type);
|
|
VRFY((acc_tpl >= 0), "");
|
|
|
|
/* create the file collectively */
|
|
fid=H5Fcreate(filename,H5F_ACC_TRUNC,H5P_DEFAULT,acc_tpl);
|
|
VRFY((fid >= 0), "H5Fcreate succeeded");
|
|
|
|
/* Release file-access template */
|
|
ret=H5Pclose(acc_tpl);
|
|
VRFY((ret >= 0), "");
|
|
|
|
|
|
/* --------------------------------------------------------------
|
|
* Define the dimensions of the overall datasets and create them.
|
|
* ------------------------------------------------------------- */
|
|
|
|
/* set up dataset storage chunk sizes and creation property list */
|
|
if (verbose)
|
|
printf("chunks[]=%lu,%lu\n", (unsigned long)chunk_dims[0], (unsigned long)chunk_dims[1]);
|
|
dataset_pl = H5Pcreate(H5P_DATASET_CREATE);
|
|
VRFY((dataset_pl >= 0), "H5Pcreate succeeded");
|
|
ret = H5Pset_chunk(dataset_pl, RANK, chunk_dims);
|
|
VRFY((ret >= 0), "H5Pset_chunk succeeded");
|
|
|
|
/* setup dimensionality object */
|
|
/* start out with no rows, extend it later. */
|
|
dims[0] = dims[1] = 0;
|
|
sid = H5Screate_simple (RANK, dims, max_dims);
|
|
VRFY((sid >= 0), "H5Screate_simple succeeded");
|
|
|
|
/* create an extendible dataset collectively */
|
|
dataset1 = H5Dcreate(fid, DATASETNAME1, H5T_NATIVE_INT, sid, dataset_pl);
|
|
VRFY((dataset1 >= 0), "H5Dcreate succeeded");
|
|
|
|
/* create another extendible dataset collectively */
|
|
dataset2 = H5Dcreate(fid, DATASETNAME2, H5T_NATIVE_INT, sid, dataset_pl);
|
|
VRFY((dataset2 >= 0), "H5Dcreate succeeded");
|
|
|
|
/* release resource */
|
|
H5Sclose(sid);
|
|
H5Pclose(dataset_pl);
|
|
|
|
|
|
|
|
/* -------------------------
|
|
* Test writing to dataset1
|
|
* -------------------------*/
|
|
/* set up dimensions of the slab this process accesses */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
|
|
|
|
/* put some trivial data in the data_array */
|
|
dataset_fill(start, block, data_array1);
|
|
MESG("data_array initialized");
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_array1);
|
|
}
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* Extend its current dim sizes before writing */
|
|
dims[0] = dim0;
|
|
dims[1] = dim1;
|
|
ret = H5Dextend (dataset1, dims);
|
|
VRFY((ret >= 0), "H5Dextend succeeded");
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset1);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
|
|
/* write data independently */
|
|
ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
H5P_DEFAULT, data_array1);
|
|
VRFY((ret >= 0), "H5Dwrite succeeded");
|
|
|
|
/* release resource */
|
|
H5Sclose(file_dataspace);
|
|
H5Sclose(mem_dataspace);
|
|
|
|
|
|
/* -------------------------
|
|
* Test writing to dataset2
|
|
* -------------------------*/
|
|
/* set up dimensions of the slab this process accesses */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYCOL);
|
|
|
|
/* put some trivial data in the data_array */
|
|
dataset_fill(start, block, data_array1);
|
|
MESG("data_array initialized");
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_array1);
|
|
}
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* Try write to dataset2 beyond its current dim sizes. Should fail. */
|
|
/* Temporary turn off auto error reporting */
|
|
H5Eget_auto(&old_func, &old_client_data);
|
|
H5Eset_auto(NULL, NULL);
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset2);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
|
|
/* write data independently. Should fail. */
|
|
ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
H5P_DEFAULT, data_array1);
|
|
VRFY((ret < 0), "H5Dwrite failed as expected");
|
|
|
|
/* restore auto error reporting */
|
|
H5Eset_auto(old_func, old_client_data);
|
|
H5Sclose(file_dataspace);
|
|
|
|
/* Extend dataset2 and try again. Should succeed. */
|
|
dims[0] = dim0;
|
|
dims[1] = dim1;
|
|
ret = H5Dextend (dataset2, dims);
|
|
VRFY((ret >= 0), "H5Dextend succeeded");
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset2);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
|
|
|
|
/* write data independently */
|
|
ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
H5P_DEFAULT, data_array1);
|
|
VRFY((ret >= 0), "H5Dwrite succeeded");
|
|
|
|
/* release resource */
|
|
ret=H5Sclose(file_dataspace);
|
|
VRFY((ret >= 0), "H5Sclose succeeded");
|
|
ret=H5Sclose(mem_dataspace);
|
|
VRFY((ret >= 0), "H5Sclose succeeded");
|
|
|
|
|
|
/* close dataset collectively */
|
|
ret=H5Dclose(dataset1);
|
|
VRFY((ret >= 0), "H5Dclose1 succeeded");
|
|
ret=H5Dclose(dataset2);
|
|
VRFY((ret >= 0), "H5Dclose2 succeeded");
|
|
|
|
/* close the file collectively */
|
|
H5Fclose(fid);
|
|
|
|
/* release data buffers */
|
|
if (data_array1) free(data_array1);
|
|
}
|
|
|
|
/* Example of using the parallel HDF5 library to read an extendible dataset */
|
|
void
|
|
extend_readInd(char *filename)
|
|
{
|
|
hid_t fid; /* HDF5 file ID */
|
|
hid_t acc_tpl; /* File access templates */
|
|
hid_t file_dataspace; /* File dataspace ID */
|
|
hid_t mem_dataspace; /* memory dataspace ID */
|
|
hid_t dataset1, dataset2; /* Dataset ID */
|
|
hsize_t dims[RANK]; /* dataset dim sizes */
|
|
DATATYPE *data_array1 = NULL; /* data buffer */
|
|
DATATYPE *data_array2 = NULL; /* data buffer */
|
|
DATATYPE *data_origin1 = NULL; /* expected data buffer */
|
|
|
|
hssize_t start[RANK]; /* for hyperslab setting */
|
|
hsize_t count[RANK], stride[RANK]; /* for hyperslab setting */
|
|
hsize_t block[RANK]; /* for hyperslab setting */
|
|
|
|
herr_t ret; /* Generic return value */
|
|
int mpi_size, mpi_rank;
|
|
|
|
MPI_Comm comm = MPI_COMM_WORLD;
|
|
MPI_Info info = MPI_INFO_NULL;
|
|
|
|
if (verbose)
|
|
printf("Extend independent read test on file %s\n", filename);
|
|
|
|
/* set up MPI parameters */
|
|
MPI_Comm_size(MPI_COMM_WORLD,&mpi_size);
|
|
MPI_Comm_rank(MPI_COMM_WORLD,&mpi_rank);
|
|
|
|
/* allocate memory for data buffer */
|
|
data_array1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
|
|
VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
|
|
data_array2 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
|
|
VRFY((data_array2 != NULL), "data_array2 malloc succeeded");
|
|
data_origin1 = (DATATYPE *)malloc(dim0*dim1*sizeof(DATATYPE));
|
|
VRFY((data_origin1 != NULL), "data_origin1 malloc succeeded");
|
|
|
|
/* -------------------
|
|
* OPEN AN HDF5 FILE
|
|
* -------------------*/
|
|
/* setup file access template */
|
|
acc_tpl = create_faccess_plist(comm, info, facc_type);
|
|
VRFY((acc_tpl >= 0), "");
|
|
|
|
/* open the file collectively */
|
|
fid=H5Fopen(filename,H5F_ACC_RDONLY,acc_tpl);
|
|
VRFY((fid >= 0), "");
|
|
|
|
/* Release file-access template */
|
|
ret=H5Pclose(acc_tpl);
|
|
VRFY((ret >= 0), "");
|
|
|
|
/* open the dataset1 collectively */
|
|
dataset1 = H5Dopen(fid, DATASETNAME1);
|
|
VRFY((dataset1 >= 0), "");
|
|
|
|
/* open another dataset collectively */
|
|
dataset2 = H5Dopen(fid, DATASETNAME1);
|
|
VRFY((dataset2 >= 0), "");
|
|
|
|
/* Try extend dataset1 which is open RDONLY. Should fail. */
|
|
/* first turn off auto error reporting */
|
|
H5Eget_auto(&old_func, &old_client_data);
|
|
H5Eset_auto(NULL, NULL);
|
|
|
|
file_dataspace = H5Dget_space (dataset1);
|
|
VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
|
|
ret=H5Sget_simple_extent_dims(file_dataspace, dims, NULL);
|
|
VRFY((ret > 0), "H5Sget_simple_extent_dims succeeded");
|
|
dims[0]++;
|
|
ret=H5Dextend(dataset1, dims);
|
|
VRFY((ret < 0), "H5Dextend failed as expected");
|
|
|
|
/* restore auto error reporting */
|
|
H5Eset_auto(old_func, old_client_data);
|
|
H5Sclose(file_dataspace);
|
|
|
|
|
|
/* Read dataset1 using BYROW pattern */
|
|
/* set up dimensions of the slab this process accesses */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset1);
|
|
VRFY((file_dataspace >= 0), "");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "");
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* fill dataset with test data */
|
|
dataset_fill(start, block, data_origin1);
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_array1);
|
|
}
|
|
|
|
/* read data independently */
|
|
ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
H5P_DEFAULT, data_array1);
|
|
VRFY((ret >= 0), "H5Dread succeeded");
|
|
|
|
/* verify the read data with original expected data */
|
|
ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
|
|
VRFY((ret == 0), "dataset1 read verified correct");
|
|
if (ret) nerrors++;
|
|
|
|
H5Sclose(mem_dataspace);
|
|
H5Sclose(file_dataspace);
|
|
|
|
|
|
/* Read dataset2 using BYCOL pattern */
|
|
/* set up dimensions of the slab this process accesses */
|
|
slab_set(mpi_rank, mpi_size, start, count, stride, block, BYCOL);
|
|
|
|
/* create a file dataspace independently */
|
|
file_dataspace = H5Dget_space (dataset2);
|
|
VRFY((file_dataspace >= 0), "");
|
|
ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
|
|
VRFY((ret >= 0), "");
|
|
|
|
/* create a memory dataspace independently */
|
|
mem_dataspace = H5Screate_simple (RANK, block, NULL);
|
|
VRFY((mem_dataspace >= 0), "");
|
|
|
|
/* fill dataset with test data */
|
|
dataset_fill(start, block, data_origin1);
|
|
if (verbose){
|
|
MESG("data_array created");
|
|
dataset_print(start, block, data_array1);
|
|
}
|
|
|
|
/* read data independently */
|
|
ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
|
|
H5P_DEFAULT, data_array1);
|
|
VRFY((ret >= 0), "H5Dread succeeded");
|
|
|
|
/* verify the read data with original expected data */
|
|
ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
|
|
VRFY((ret == 0), "dataset2 read verified correct");
|
|
if (ret) nerrors++;
|
|
|
|
H5Sclose(mem_dataspace);
|
|
H5Sclose(file_dataspace);
|
|
|
|
/* close dataset collectively */
|
|
ret=H5Dclose(dataset1);
|
|
VRFY((ret >= 0), "");
|
|
ret=H5Dclose(dataset2);
|
|
VRFY((ret >= 0), "");
|
|
|
|
|
|
/* close the file collectively */
|
|
H5Fclose(fid);
|
|
|
|
/* release data buffers */
|
|
if (data_array1) free(data_array1);
|
|
if (data_array2) free(data_array2);
|
|
if (data_origin1) free(data_origin1);
|
|
}
|