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authorJerome Soumagne <jsoumagne@hdfgroup.org>2019-12-09 18:16:52 (GMT)
committerJerome Soumagne <jsoumagne@hdfgroup.org>2019-12-09 18:16:52 (GMT)
commit49fe497201bcefcd9beb01fe8fc2175974b73799 (patch)
tree82ec36c32198122e75c1dfa20e61678b8722f56b /testpar
parent62e6349eabb00c69fa69aab0fbe34cdc092d072f (diff)
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Revert "Merge branch 'hdf5_1_12' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into hdf5_1_12"
This reverts commit 9f9336a5bd541752f472bab4c93da8de89f862cd, reversing changes made to 437a1919e7ba60fe75a33a466d264183a0255319.
Diffstat (limited to 'testpar')
-rw-r--r--testpar/CMakeLists.txt1
-rw-r--r--testpar/Makefile.am2
-rw-r--r--testpar/t_2Gio.c4974
3 files changed, 1 insertions, 4976 deletions
diff --git a/testpar/CMakeLists.txt b/testpar/CMakeLists.txt
index 9795c65..51c3420 100644
--- a/testpar/CMakeLists.txt
+++ b/testpar/CMakeLists.txt
@@ -72,7 +72,6 @@ set (H5P_TESTS
t_init_term
t_shapesame
t_filters_parallel
- t_2Gio
)
foreach (h5_testp ${H5P_TESTS})
diff --git a/testpar/Makefile.am b/testpar/Makefile.am
index 0cdba24..0e7898e 100644
--- a/testpar/Makefile.am
+++ b/testpar/Makefile.am
@@ -30,7 +30,7 @@ check_SCRIPTS = $(TEST_SCRIPT_PARA)
# Test programs. These are our main targets.
#
-TEST_PROG_PARA=t_mpi t_bigio testphdf5 t_cache t_cache_image t_pread t_pshutdown t_prestart t_init_term t_shapesame t_filters_parallel t_2Gio
+TEST_PROG_PARA=t_mpi t_bigio testphdf5 t_cache t_cache_image t_pread t_pshutdown t_prestart t_init_term t_shapesame t_filters_parallel
# t_pflush1 and t_pflush2 are used by testpflush.sh
check_PROGRAMS = $(TEST_PROG_PARA) t_pflush1 t_pflush2
diff --git a/testpar/t_2Gio.c b/testpar/t_2Gio.c
deleted file mode 100644
index d4253d7..0000000
--- a/testpar/t_2Gio.c
+++ /dev/null
@@ -1,4974 +0,0 @@
-/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
- * Copyright by The HDF Group. *
- * All rights reserved. *
- * *
- * This file is part of HDF5. The full HDF5 copyright notice, including *
- * terms governing use, modification, and redistribution, is contained in *
- * the COPYING file, which can be found at the root of the source code *
- * distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases. *
- * If you do not have access to either file, you may request a copy from *
- * help@hdfgroup.org. *
- * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
-
-/*
- * Parallel tests for datasets
- */
-
-/*
- * Example of using the parallel HDF5 library to access datasets.
- *
- * This program contains three major parts. Part 1 tests fixed dimension
- * datasets, for both independent and collective transfer modes.
- * Part 2 tests extendible datasets, for independent transfer mode
- * only.
- * Part 3 tests extendible datasets, for collective transfer mode
- * only.
- */
-
-#include <stdio.h>
-#include "hdf5.h"
-#include "testphdf5.h"
-
-#include "mpi.h"
-
-
-/* For this test, we don't want to inherit the RANK definition
- * from testphdf5.h. We'll define MAX_RANK to accomodate 3D arrays
- * and use that definition rather than RANK.
- */
-#ifndef MAX_RANK
-#define MAX_RANK 2
-#endif
-
-/* As with RANK vs MAX_RANK, we use BIG_X_FACTOR vs ROW_FACTOR
- * and BIG_Y_FACTOR vs COL_FACTOR. We introduce BIG_Z_FACTOR
- * for the 3rd dimension.
- */
-
-#ifndef BIG_X_FACTOR
-#define BIG_X_FACTOR 1048576
-#endif
-#ifndef BIG_Y_FACTOR
-#define BIG_Y_FACTOR 32
-#endif
-#ifndef BIG_Z_FACTOR
-#define BIG_Z_FACTOR 2048
-#endif
-
-#ifndef PATH_MAX
-#define PATH_MAX 512
-#endif /* !PATH_MAX */
-
-/* global variables */
-int dim0;
-int dim1;
-int dim2;
-int chunkdim0;
-int chunkdim1;
-int nerrors = 0; /* errors count */
-int ndatasets = 300; /* number of datasets to create*/
-int ngroups = 512; /* number of groups to create in root
- * group. */
-int facc_type = FACC_MPIO; /*Test file access type */
-int dxfer_coll_type = DXFER_COLLECTIVE_IO;
-
-H5E_auto2_t old_func; /* previous error handler */
-void *old_client_data; /* previous error handler arg.*/
-
-#define NFILENAME 3
-#define PARATESTFILE filenames[0]
-const char *FILENAME[NFILENAME]={
- "ParaTest",
- "Hugefile",
- NULL};
-char filenames[NFILENAME][PATH_MAX];
-hid_t fapl; /* file access property list */
-MPI_Comm test_comm = MPI_COMM_WORLD;
-
-// static int enable_error_stack = 0; /* enable error stack; disable=0 enable=1 */
-// static const char *TestProgName = NULL;
-// static void (*TestPrivateUsage)(void) = NULL;
-// static int (*TestPrivateParser)(int ac, char *av[]) = NULL;
-
-/*
- * The following are various utility routines used by the tests.
- */
-
-
-/*
- * Show command usage
- */
-static void
-usage(void)
-{
- HDprintf(" [-r] [-w] [-m<n_datasets>] [-n<n_groups>] "
- "[-o] [-f <prefix>] [-d <dim0> <dim1>]\n");
- HDprintf("\t-m<n_datasets>"
- "\tset number of datasets for the multiple dataset test\n");
- HDprintf("\t-n<n_groups>"
- "\tset number of groups for the multiple group test\n");
- HDprintf("\t-f <prefix>\tfilename prefix\n");
- HDprintf("\t-i\tuse Independent IO \n");
- HDprintf("\t-d <factor0> <factor1>\tdataset dimensions factors. Defaults (%d,%d)\n",
- BIG_X_FACTOR, BIG_Y_FACTOR);
- HDprintf("\t-c <dim0> <dim1>\tdataset chunk dimensions. Defaults (dim0/10,dim1/10)\n");
- HDprintf("\n");
-}
-
-/*
- * parse the command line options
- */
-static int
-parse_options(int argc, char **argv)
-{
- int mpi_size, mpi_rank; /* mpi variables */
-
- MPI_Comm_size(test_comm, &mpi_size);
- MPI_Comm_rank(test_comm, &mpi_rank);
-
- /* setup default chunk-size. Make sure sizes are > 0 */
-
- chunkdim0 = (dim0+9)/10;
- chunkdim1 = (dim1+9)/10;
-
- while (--argc){
- if (**(++argv) != '-'){
- break;
- }else{
- switch(*(*argv+1)){
- case 'm': ndatasets = atoi((*argv+1)+1);
- if (ndatasets < 0){
- nerrors++;
- return(1);
- }
- break;
- case 'n': ngroups = atoi((*argv+1)+1);
- if (ngroups < 0){
- nerrors++;
- return(1);
- }
- break;
- case 'f': if (--argc < 1) {
- nerrors++;
- return(1);
- }
- if (**(++argv) == '-') {
- nerrors++;
- return(1);
- }
- paraprefix = *argv;
- break;
- case 'i': /* Collective MPI-IO access with independent IO */
- dxfer_coll_type = DXFER_INDEPENDENT_IO;
- break;
- case 'd': /* dimension sizes */
- if (--argc < 2){
- nerrors++;
- return(1);
- }
- dim0 = atoi(*(++argv))*mpi_size;
- argc--;
- dim1 = atoi(*(++argv))*mpi_size;
- /* set default chunkdim sizes too */
- chunkdim0 = (dim0+9)/10;
- chunkdim1 = (dim1+9)/10;
- break;
- case 'c': /* chunk dimensions */
- if (--argc < 2){
- nerrors++;
- return(1);
- }
- chunkdim0 = atoi(*(++argv));
- argc--;
- chunkdim1 = atoi(*(++argv));
- break;
- case 'h': /* print help message--return with nerrors set */
- return(1);
- default: HDprintf("Illegal option(%s)\n", *argv);
- nerrors++;
- return(1);
- }
- }
- } /*while*/
-
- /* check validity of dimension and chunk sizes */
- if (dim0 <= 0 || dim1 <= 0){
- HDprintf("Illegal dim sizes (%d, %d)\n", dim0, dim1);
- nerrors++;
- return(1);
- }
- if (chunkdim0 <= 0 || chunkdim1 <= 0){
- HDprintf("Illegal chunkdim sizes (%d, %d)\n", chunkdim0, chunkdim1);
- nerrors++;
- return(1);
- }
-
- /* Make sure datasets can be divided into equal portions by the processes */
- if ((dim0 % mpi_size) || (dim1 % mpi_size)){
- if (MAINPROCESS)
- HDprintf("dim0(%d) and dim1(%d) must be multiples of processes(%d)\n",
- dim0, dim1, mpi_size);
- nerrors++;
- return(1);
- }
-
- /* compose the test filenames */
- {
- int i, n;
-
- n = sizeof(FILENAME)/sizeof(FILENAME[0]) - 1; /* exclude the NULL */
-
- for (i=0; i < n; i++)
- if (h5_fixname(FILENAME[i],fapl,filenames[i],sizeof(filenames[i]))
- == NULL){
- HDprintf("h5_fixname failed\n");
- nerrors++;
- return(1);
- }
-
- if (MAINPROCESS) {
- HDprintf("Test filenames are:\n");
- for (i=0; i < n; i++)
- HDprintf(" %s\n", filenames[i]);
- }
- }
-
- return(0);
-}
-
-/*
- * Create the appropriate File access property list
- */
-hid_t
-create_faccess_plist(MPI_Comm comm, MPI_Info info, int l_facc_type)
-{
- hid_t ret_pl = -1;
- herr_t ret; /* generic return value */
- int mpi_rank; /* mpi variables */
-
- /* need the rank for error checking macros */
- MPI_Comm_rank(test_comm, &mpi_rank);
-
- ret_pl = H5Pcreate (H5P_FILE_ACCESS);
- VRFY((ret_pl >= 0), "H5P_FILE_ACCESS");
-
- if (l_facc_type == FACC_DEFAULT)
- return (ret_pl);
-
- if (l_facc_type == FACC_MPIO){
- /* set Parallel access with communicator */
- ret = H5Pset_fapl_mpio(ret_pl, comm, info);
- VRFY((ret >= 0), "");
- ret = H5Pset_all_coll_metadata_ops(ret_pl, TRUE);
- VRFY((ret >= 0), "");
- ret = H5Pset_coll_metadata_write(ret_pl, TRUE);
- VRFY((ret >= 0), "");
- return(ret_pl);
- }
-
- if (l_facc_type == (FACC_MPIO | FACC_SPLIT)){
- hid_t mpio_pl;
-
- mpio_pl = H5Pcreate (H5P_FILE_ACCESS);
- VRFY((mpio_pl >= 0), "");
- /* set Parallel access with communicator */
- ret = H5Pset_fapl_mpio(mpio_pl, comm, info);
- VRFY((ret >= 0), "");
-
- /* setup file access template */
- ret_pl = H5Pcreate (H5P_FILE_ACCESS);
- VRFY((ret_pl >= 0), "");
- /* set Parallel access with communicator */
- ret = H5Pset_fapl_split(ret_pl, ".meta", mpio_pl, ".raw", mpio_pl);
- VRFY((ret >= 0), "H5Pset_fapl_split succeeded");
- H5Pclose(mpio_pl);
- return(ret_pl);
- }
-
- /* unknown file access types */
- return (ret_pl);
-}
-
-
-/*
- * Setup the dimensions of the hyperslab.
- * Two modes--by rows or by columns.
- * Assume dimension rank is 2.
- * BYROW divide into slabs of rows
- * BYCOL divide into blocks of columns
- * ZROW same as BYROW except process 0 gets 0 rows
- * ZCOL same as BYCOL except process 0 gets 0 columns
- */
-static void
-slab_set(int mpi_rank, int mpi_size, hsize_t start[], hsize_t count[],
- hsize_t stride[], hsize_t block[], int mode)
-{
- switch (mode) {
- case BYROW:
- /* Each process takes a slabs of rows. */
- block[0] = dim0 / mpi_size;
- block[1] = dim1;
- stride[0] = block[0];
- stride[1] = block[1];
- count[0] = 1;
- count[1] = 1;
- start[0] = mpi_rank * block[0];
- start[1] = 0;
- if (VERBOSE_MED)
- HDprintf("slab_set BYROW\n");
- break;
- case BYCOL:
- /* Each process takes a block of columns. */
- block[0] = dim0;
- block[1] = dim1 / mpi_size;
- stride[0] = block[0];
- stride[1] = block[1];
- count[0] = 1;
- count[1] = 1;
- start[0] = 0;
- start[1] = mpi_rank * block[1];
- if (VERBOSE_MED)
- HDprintf("slab_set BYCOL\n");
- break;
- case ZROW:
- /* Similar to BYROW except process 0 gets 0 row */
- block[0] = (mpi_rank ? dim0 / mpi_size : 0);
- block[1] = dim1;
- stride[0] = (mpi_rank ? block[0] : 1); /* avoid setting stride to 0 */
- stride[1] = block[1];
- count[0] = 1;
- count[1] = 1;
- start[0] = (mpi_rank ? mpi_rank * block[0] : 0);
- start[1] = 0;
- if (VERBOSE_MED)
- HDprintf("slab_set ZROW\n");
- break;
- case ZCOL:
- /* Similar to BYCOL except process 0 gets 0 column */
- block[0] = dim0;
- block[1] = (mpi_rank ? dim1 / mpi_size : 0);
- stride[0] = block[0];
- stride[1] = (mpi_rank ? block[1] : 1); /* avoid setting stride to 0 */
- count[0] = 1;
- count[1] = 1;
- start[0] = 0;
- start[1] = (mpi_rank ? mpi_rank * block[1] : 0);
- if (VERBOSE_MED)
- HDprintf("slab_set ZCOL\n");
- break;
- default:
- /* Unknown mode. Set it to cover the whole dataset. */
- HDprintf("unknown slab_set mode (%d)\n", mode);
- block[0] = dim0;
- block[1] = dim1;
- stride[0] = block[0];
- stride[1] = block[1];
- count[0] = 1;
- count[1] = 1;
- start[0] = 0;
- start[1] = 0;
- if (VERBOSE_MED)
- HDprintf("slab_set wholeset\n");
- break;
- }
- if (VERBOSE_MED) {
- HDprintf(
- "start[]=(%lu,%lu), count[]=(%lu,%lu), stride[]=(%lu,%lu), block[]=(%lu,%lu), total datapoints=%lu\n",
- (unsigned long) start[0], (unsigned long) start[1],
- (unsigned long) count[0], (unsigned long) count[1],
- (unsigned long) stride[0], (unsigned long) stride[1],
- (unsigned long) block[0], (unsigned long) block[1],
- (unsigned long) (block[0] * block[1] * count[0] * count[1]));
- }
-}
-
-/*
- * Setup the coordinates for point selection.
- */
-void point_set(hsize_t start[],
- hsize_t count[],
- hsize_t stride[],
- hsize_t block[],
- size_t num_points,
- hsize_t coords[],
- int order)
-{
- hsize_t i,j, k = 0, m ,n, s1 ,s2;
-
- // HDcompile_assert(MAX_RANK == 3);
- HDcompile_assert(MAX_RANK == 2);
-
- if(OUT_OF_ORDER == order)
- k = (num_points * MAX_RANK) - 1;
- else if(IN_ORDER == order)
- k = 0;
-
- s1 = start[0];
- s2 = start[1];
-
- for(i = 0 ; i < count[0]; i++)
- for(j = 0 ; j < count[1]; j++)
- for(m = 0 ; m < block[0]; m++)
- for(n = 0 ; n < block[1]; n++)
- if(OUT_OF_ORDER == order) {
- coords[k--] = s2 + (stride[1] * j) + n;
- coords[k--] = s1 + (stride[0] * i) + m;
- }
- else if(IN_ORDER == order) {
- coords[k++] = s1 + stride[0] * i + m;
- coords[k++] = s2 + stride[1] * j + n;
- }
-
- if(VERBOSE_MED) {
- HDprintf("start[]=(%lu, %lu), count[]=(%lu, %lu), stride[]=(%lu, %lu), block[]=(%lu, %lu), total datapoints=%lu\n",
- (unsigned long)start[0], (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1],
- (unsigned long)stride[0], (unsigned long)stride[1], (unsigned long)block[0], (unsigned long)block[1],
- (unsigned long)(block[0] * block[1] * count[0] * count[1]));
- k = 0;
- for(i = 0; i < num_points ; i++) {
- HDprintf("(%d, %d)\n", (int)coords[k], (int)coords[k + 1]);
- k += 2;
- }
- }
-}
-
-
-/*
- * Fill the dataset with trivial data for testing.
- * Assume dimension rank is 2 and data is stored contiguous.
- */
-static void
-dataset_fill(hsize_t start[], hsize_t block[], DATATYPE * dataset)
-{
- DATATYPE *dataptr = dataset;
- hsize_t i, j;
-
- /* put some trivial data in the data_array */
- for (i=0; i < block[0]; i++){
- for (j=0; j < block[1]; j++){
- *dataptr = (DATATYPE)((i+start[0])*100 + (j+start[1]+1));
- dataptr++;
- }
- }
-}
-
-
-/*
- * Print the content of the dataset.
- */
-static void
-dataset_print(hsize_t start[], hsize_t block[], DATATYPE * dataset)
-{
- DATATYPE *dataptr = dataset;
- hsize_t i, j;
-
- /* print the column heading */
- HDprintf("%-8s", "Cols:");
- for (j=0; j < block[1]; j++){
- HDprintf("%3lu ", (unsigned long)(start[1]+j));
- }
- HDprintf("\n");
-
- /* print the slab data */
- for (i=0; i < block[0]; i++){
- HDprintf("Row %2lu: ", (unsigned long)(i+start[0]));
- for (j=0; j < block[1]; j++){
- HDprintf("%03d ", *dataptr++);
- }
- HDprintf("\n");
- }
-}
-
-
-/*
- * Print the content of the dataset.
- */
-int
-dataset_vrfy(hsize_t start[], hsize_t count[], hsize_t stride[], hsize_t block[], DATATYPE *dataset, DATATYPE *original)
-{
- hsize_t i, j;
- int vrfyerrs;
-
- /* print it if VERBOSE_MED */
- if(VERBOSE_MED) {
- HDprintf("dataset_vrfy dumping:::\n");
- HDprintf("start(%lu, %lu), count(%lu, %lu), stride(%lu, %lu), block(%lu, %lu)\n",
- (unsigned long)start[0], (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1],
- (unsigned long)stride[0], (unsigned long)stride[1], (unsigned long)block[0], (unsigned long)block[1]);
- HDprintf("original values:\n");
- dataset_print(start, block, original);
- HDprintf("compared values:\n");
- dataset_print(start, block, dataset);
- }
-
- vrfyerrs = 0;
- for (i=0; i < block[0]; i++){
- for (j=0; j < block[1]; j++){
- if(*dataset != *original){
- if(vrfyerrs++ < MAX_ERR_REPORT || VERBOSE_MED){
- HDprintf("Dataset Verify failed at [%lu][%lu](row %lu, col %lu): expect %d, got %d\n",
- (unsigned long)i, (unsigned long)j,
- (unsigned long)(i+start[0]), (unsigned long)(j+start[1]),
- *(original), *(dataset));
- }
- dataset++;
- original++;
- }
- }
- }
- if(vrfyerrs > MAX_ERR_REPORT && !VERBOSE_MED)
- HDprintf("[more errors ...]\n");
- if(vrfyerrs)
- HDprintf("%d errors found in dataset_vrfy\n", vrfyerrs);
- return(vrfyerrs);
-}
-
-/* NOTE: This is a memory intensive test and is only run
- * with 2 MPI ranks and with $HDF5TestExpress == 0
- * i.e. Exhaustive test run is allowed. Otherwise
- * the test is skipped.
- *
- * Thanks to l.ferraro@cineca.it for the following test::
- *
- * This is a simple test case to reproduce a problem
- * occurring on LUSTRE filesystem with the creation
- * of a 4GB dataset using chunking with parallel HDF5.
- * The test works correctly if disabling chunking or
- * when the bytes assigned to each process is less
- * that 4GB. if equal or more, either hangs or results
- * in a PMPI_Waitall error.
- *
- * $> mpirun -genv I_MPI_EXTRA_FILESYSTEM on
- * -genv I_MPI_EXTRA_FILESYSTEM_LIST gpfs
- * -n 1 ./h5_mpi_big_dataset.x 1024 1024 1024
- */
-
-#define H5FILE_NAME "hugefile.h5"
-#define DATASETNAME "dataset"
-
-int MpioTest2G( MPI_Comm comm )
-{
- /*
- * HDF5 APIs definitions
- */
- herr_t status;
- hid_t file_id, dset_id; /* file and dataset identifiers */
- hid_t plist_id; /* property list identifier */
- hid_t filespace; /* file and memory dataspace identifiers */
- int *data; /* pointer to data buffer to write */
-
- hsize_t shape[3] = {1024, 1024, 1152};
-
- /*
- * MPI variables
- */
- int mpi_size, mpi_rank;
- MPI_Info info = MPI_INFO_NULL;
-
- MPI_Comm_size(comm, &mpi_size);
- MPI_Comm_rank(comm, &mpi_rank);
-
- if(mpi_rank == 0) {
- HDprintf("Using %d process on dataset shape [%llu, %llu, %llu]\n",
- mpi_size, shape[0], shape[1], shape[2]);
- }
-
- /*
- * Set up file access property list with parallel I/O access
- */
- plist_id = H5Pcreate(H5P_FILE_ACCESS);
- VRFY((plist_id >= 0), "H5Pcreate file_access succeeded");
- status = H5Pset_fapl_mpio(plist_id, comm, info);
- VRFY((status >= 0), "H5Pset_dxpl_mpio succeeded");
-
- /*
- * Create a new file collectively and release property list identifier.
- */
- file_id = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, plist_id);
- VRFY((file_id >= 0), "H5Fcreate succeeded");
-
- H5Pclose(plist_id);
-
- /*
- * Create the dataspace for the dataset.
- */
- size_t tot_size_bytes = sizeof(int);
- for (int i = 0; i < 3; i++) {
- tot_size_bytes *= shape[i];
- }
- if(mpi_rank == 0) {
- HDprintf("Dataset of %llu bytes\n", tot_size_bytes);
- }
- filespace = H5Screate_simple(3, shape, NULL);
- VRFY((filespace >= 0), "H5Screate_simple succeeded");
-
- /*
- * Select chunking
- */
- hid_t dcpl_id = H5Pcreate (H5P_DATASET_CREATE);
- VRFY((dcpl_id >= 0), "H5P_DATASET_CREATE");
- hsize_t chunk[3] = {4, shape[1], shape[2]};
- status = H5Pset_chunk(dcpl_id, 3, chunk);
- VRFY((status >= 0), "H5Pset_chunk succeeded");
-
- /*
- * Create the dataset with default properties and close filespace.
- */
- dset_id = H5Dcreate(file_id, DATASETNAME,
- H5T_NATIVE_INT, filespace,
- H5P_DEFAULT, dcpl_id, H5P_DEFAULT);
- VRFY((dset_id >= 0), "H5Dcreate succeeded");
- H5Sclose(filespace);
-
- /*
- * Create property list for collective dataset write.
- */
- plist_id = H5Pcreate(H5P_DATASET_XFER);
- VRFY((plist_id >= 0), "H5P_DATASET_XFER");
- status = H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE);
- VRFY((status >= 0), "");
-
- size_t slice_per_process = (shape[0] + mpi_size - 1) / mpi_size;
- size_t data_size = slice_per_process * shape[1] * shape[2];
- size_t data_size_bytes = sizeof(int) * data_size;
- data = HDmalloc(data_size_bytes);
- VRFY((data != NULL), "data HDmalloc succeeded");
-
- for (size_t i = 0; i < data_size; i++) {
- data[i] = mpi_rank;
- }
-
- hsize_t h5_counts[3] = { slice_per_process, shape[1], shape[2] };
- hsize_t h5_offsets[3] = { mpi_rank * slice_per_process, 0, 0};
- hid_t filedataspace = H5Screate_simple(3, shape, NULL);
- VRFY((filedataspace >= 0), "H5Screate_simple succeeded");
-
- // fix reminder along first dimension multiple of chunk[0]
- if ( h5_offsets[0] + h5_counts[0] > shape[0]) {
- h5_counts[0] = shape[0] - h5_offsets[0];
- }
-
- status = H5Sselect_hyperslab(filedataspace, H5S_SELECT_SET,
- h5_offsets, NULL, h5_counts, NULL);
- VRFY((status >= 0), "H5Sselect_hyperslab succeeded");
-
- hid_t memorydataspace = H5Screate_simple(3, h5_counts, NULL);
- VRFY((memorydataspace >= 0), "H5Screate_simple succeeded");
-
- status = H5Dwrite(dset_id, H5T_NATIVE_INT,
- memorydataspace, filedataspace, plist_id, data);
- VRFY((status >= 0), "H5Dwrite succeeded");
- H5Pclose(plist_id);
-
- /*
- * Close/release resources.
- */
- H5Sclose(filedataspace);
- H5Sclose(memorydataspace);
- H5Dclose(dset_id);
- H5Fclose(file_id);
-
- free(data);
- HDprintf("Proc %d - MpioTest2G test succeeded\n", mpi_rank, data_size_bytes);
-
- if (mpi_rank == 0)
- HDremove(FILENAME[1]);
- return 0;
-}
-
-
-/*
- * Part 1.a--Independent read/write for fixed dimension datasets.
- */
-
-/*
- * Example of using the parallel HDF5 library to create two datasets
- * in one HDF5 files with 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
-dataset_writeInd(void)
-{
- 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[MAX_RANK] = {1,}; /* dataset dim sizes */
- hsize_t data_size;
- DATATYPE *data_array1 = NULL; /* data buffer */
- const char *filename;
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK];
- hsize_t stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Independent write test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* allocate memory for data buffer */
- data_size = sizeof(DATATYPE);
- data_size *= (hsize_t)dim0 * (hsize_t)dim1;
- data_array1 = (DATATYPE *)HDmalloc(data_size);
- VRFY((data_array1 != NULL), "data_array1 HDmalloc succeeded");
-
- /* ----------------------------------------
- * CREATE AN HDF5 FILE WITH PARALLEL ACCESS
- * ---------------------------------------*/
- /* 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 the slabs local to the MPI process.
- * ------------------------------------------- */
- /* setup dimensionality object */
- dims[0] = dim0;
- dims[1] = dim1;
- sid = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
-
- /* create a dataset collectively */
- dataset1 = H5Dcreate2(fid, DATASETNAME1, H5T_NATIVE_INT, sid,
- H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dcreate2 succeeded");
-
- /* create another dataset collectively */
- dataset2 = H5Dcreate2(fid, DATASETNAME2, H5T_NATIVE_INT, sid,
- H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dcreate2 succeeded");
-
-
- /*
- * To test the independent orders of writes between processes, all
- * even number processes write to dataset1 first, then dataset2.
- * All odd number processes write to dataset2 first, then 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");
-
- /* 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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* write data independently */
- ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset1 succeeded");
- /* write data independently */
- ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset2 succeeded");
-
- /* setup dimensions again to write with zero rows for process 0 */
- if(VERBOSE_MED)
- HDprintf("writeInd 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("writeInd by some with zero row");
-if((mpi_rank/2)*2 != mpi_rank){
- ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset1 by ZROW succeeded");
-}
-#ifdef BARRIER_CHECKS
-MPI_Barrier(test_comm);
-#endif /* BARRIER_CHECKS */
-
- /* release dataspace ID */
- H5Sclose(file_dataspace);
-
- /* close dataset 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) HDfree(data_array1);
-}
-
-/* Example of using the parallel HDF5 library to read a dataset */
-void
-dataset_readInd(void)
-{
- 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 */
- DATATYPE *data_array1 = NULL; /* data buffer */
- DATATYPE *data_origin1 = NULL; /* expected data buffer */
- const char *filename;
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK], stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Independent read test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* allocate memory for data buffer */
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 HDmalloc succeeded");
- data_origin1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_origin1 != NULL), "data_origin1 HDmalloc succeeded");
-
- /* 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 = H5Dopen2(fid, DATASETNAME1, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "");
-
- /* open another dataset collectively */
- dataset2 = H5Dopen2(fid, DATASETNAME1, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "");
-
-
- /* 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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* fill dataset with test data */
- dataset_fill(start, block, data_origin1);
-
- /* read data independently */
- ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, data_array1);
- VRFY((ret >= 0), "");
-
- /* verify the read data with original expected data */
- ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
- if(ret) nerrors++;
-
- /* read data independently */
- ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, data_array1);
- VRFY((ret >= 0), "");
-
- /* verify the read data with original expected data */
- ret = dataset_vrfy(start, count, stride, block, data_array1, data_origin1);
- if(ret) nerrors++;
-
- /* close dataset collectively */
- ret = H5Dclose(dataset1);
- VRFY((ret >= 0), "");
- ret = H5Dclose(dataset2);
- VRFY((ret >= 0), "");
-
- /* release all IDs created */
- H5Sclose(file_dataspace);
-
- /* close the file collectively */
- H5Fclose(fid);
-
- /* release data buffers */
- if(data_array1) HDfree(data_array1);
- if(data_origin1) HDfree(data_origin1);
-}
-
-
-/*
- * Part 1.b--Collective read/write for fixed dimension datasets.
- */
-
-/*
- * Example of using the parallel HDF5 library to create 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_writeAll(void)
-{
- 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, dataset3, dataset4; /* Dataset ID */
- hid_t dataset5, dataset6, dataset7; /* Dataset ID */
- hid_t datatype; /* Datatype ID */
- hsize_t dims[MAX_RANK] = {1,}; /* dataset dim sizes */
- DATATYPE *data_array1 = NULL; /* data buffer */
- const char *filename;
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK];
- hsize_t stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- size_t num_points; /* for point selection */
- hsize_t *coords = NULL; /* for point selection */
- hsize_t current_dims; /* for point selection */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Collective write test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* set up the coords array selection */
- num_points = dim1;
- coords = (hsize_t *)HDmalloc(dim1 * MAX_RANK * sizeof(hsize_t));
- VRFY((coords != NULL), "coords malloc succeeded");
-
- /* allocate memory for data buffer */
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 HDmalloc 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 2-D dimensionality object */
- dims[0] = dim0;
- dims[1] = dim1;
- sid = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
-
- /* create a dataset collectively */
- dataset1 = H5Dcreate2(fid, DATASETNAME1, H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dcreate2 succeeded");
-
- /* create another dataset collectively */
- datatype = H5Tcopy(H5T_NATIVE_INT);
- ret = H5Tset_order(datatype, H5T_ORDER_LE);
- VRFY((ret >= 0), "H5Tset_order succeeded");
-
- dataset2 = H5Dcreate2(fid, DATASETNAME2, datatype, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dcreate2 2 succeeded");
-
- /* create a third dataset collectively */
- dataset3 = H5Dcreate2(fid, DATASETNAME3, H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset3 >= 0), "H5Dcreate2 succeeded");
-
- dataset5 = H5Dcreate2(fid, DATASETNAME7, H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset5 >= 0), "H5Dcreate2 succeeded");
- dataset6 = H5Dcreate2(fid, DATASETNAME8, H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset6 >= 0), "H5Dcreate2 succeeded");
- dataset7 = H5Dcreate2(fid, DATASETNAME9, H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset7 >= 0), "H5Dcreate2 succeeded");
-
- /* release 2-D space ID created */
- H5Sclose(sid);
-
- /* setup scalar dimensionality object */
- sid = H5Screate(H5S_SCALAR);
- VRFY((sid >= 0), "H5Screate succeeded");
-
- /* create a fourth dataset collectively */
- dataset4 = H5Dcreate2(fid, DATASETNAME4, H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset4 >= 0), "H5Dcreate2 succeeded");
-
- /* release scalar space ID created */
- H5Sclose(sid);
-
- /*
- * 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 (MAX_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_MED){
- 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), "H5Pcreate xfer succeeded");
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively 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_MED)
- HDprintf("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_MED){
- 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 (MAX_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_MED){
- 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively 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_MED)
- HDprintf("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. */
- /* Could have used them for dataset3 but it is cleaner */
- /* to create them again.*/
- H5Sclose(file_dataspace);
- H5Sclose(mem_dataspace);
- H5Pclose(xfer_plist);
-
-
- /* Dataset3: each process takes a block of rows, except process zero uses "none" selection. */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
-
- /* create a file dataspace independently */
- file_dataspace = H5Dget_space (dataset3);
- VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
- if(MAINPROCESS) {
- ret = H5Sselect_none(file_dataspace);
- VRFY((ret >= 0), "H5Sselect_none file_dataspace succeeded");
- } /* end if */
- else {
- ret = H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, block);
- VRFY((ret >= 0), "H5Sselect_hyperslab succeeded");
- } /* end else */
-
- /* create a memory dataspace independently */
- mem_dataspace = H5Screate_simple (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
- if(MAINPROCESS) {
- ret = H5Sselect_none(mem_dataspace);
- VRFY((ret >= 0), "H5Sselect_none mem_dataspace succeeded");
- } /* end if */
-
- /* fill the local slab with some trivial data */
- dataset_fill(start, block, data_array1);
- MESG("data_array initialized");
- if(VERBOSE_MED) {
- MESG("data_array created");
- dataset_print(start, block, data_array1);
- } /* end if */
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
-
- /* write data collectively */
- MESG("writeAll with none");
- ret = H5Dwrite(dataset3, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset3 succeeded");
-
- /* write data collectively (with datatype conversion) */
- MESG("writeAll with none");
- ret = H5Dwrite(dataset3, H5T_NATIVE_UCHAR, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset3 succeeded");
-
- /* release all temporary handles. */
- /* Could have used them for dataset4 but it is cleaner */
- /* to create them again.*/
- H5Sclose(file_dataspace);
- H5Sclose(mem_dataspace);
- H5Pclose(xfer_plist);
-
- /* Dataset4: each process writes no data, except process zero uses "all" selection. */
- /* Additionally, these are in a scalar dataspace */
-
- /* create a file dataspace independently */
- file_dataspace = H5Dget_space (dataset4);
- VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
- if(MAINPROCESS) {
- ret = H5Sselect_none(file_dataspace);
- VRFY((ret >= 0), "H5Sselect_all file_dataspace succeeded");
- } /* end if */
- else {
- ret = H5Sselect_all(file_dataspace);
- VRFY((ret >= 0), "H5Sselect_none succeeded");
- } /* end else */
-
- /* create a memory dataspace independently */
- mem_dataspace = H5Screate(H5S_SCALAR);
- VRFY((mem_dataspace >= 0), "");
- if(MAINPROCESS) {
- ret = H5Sselect_none(mem_dataspace);
- VRFY((ret >= 0), "H5Sselect_all mem_dataspace succeeded");
- } /* end if */
- else {
- ret = H5Sselect_all(mem_dataspace);
- VRFY((ret >= 0), "H5Sselect_none succeeded");
- } /* end else */
-
- /* fill the local slab with some trivial data */
- dataset_fill(start, block, data_array1);
- MESG("data_array initialized");
- if(VERBOSE_MED) {
- MESG("data_array created");
- dataset_print(start, block, data_array1);
- } /* end if */
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
- /* write data collectively */
- MESG("writeAll with scalar dataspace");
- ret = H5Dwrite(dataset4, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset4 succeeded");
-
- /* write data collectively (with datatype conversion) */
- MESG("writeAll with scalar dataspace");
- ret = H5Dwrite(dataset4, H5T_NATIVE_UCHAR, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset4 succeeded");
-
- /* release all temporary handles. */
- H5Sclose(file_dataspace);
- H5Sclose(mem_dataspace);
- H5Pclose(xfer_plist);
-
-
- if(data_array1) free(data_array1);
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
-
- block[0] = 1;
- block[1] = dim1;
- stride[0] = 1;
- stride[1] = dim1;
- count[0] = 1;
- count[1] = 1;
- start[0] = dim0/mpi_size * mpi_rank;
- start[1] = 0;
-
- dataset_fill(start, block, data_array1);
- MESG("data_array initialized");
- if(VERBOSE_MED){
- MESG("data_array created");
- dataset_print(start, block, data_array1);
- }
-
- /* Dataset5: point selection in File - Hyperslab selection in Memory*/
- /* create a file dataspace independently */
- point_set (start, count, stride, block, num_points, coords, OUT_OF_ORDER);
- file_dataspace = H5Dget_space (dataset5);
- VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(file_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- start[0] = 0;
- start[1] = 0;
- mem_dataspace = H5Dget_space (dataset5);
- VRFY((mem_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_hyperslab(mem_dataspace, H5S_SELECT_SET, start, stride, count, block);
- VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
- /* write data collectively */
- ret = H5Dwrite(dataset5, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset5 succeeded");
-
- /* release all temporary handles. */
- H5Sclose(file_dataspace);
- H5Sclose(mem_dataspace);
- H5Pclose(xfer_plist);
-
- /* Dataset6: point selection in File - Point selection in Memory*/
- /* create a file dataspace independently */
- start[0] = dim0/mpi_size * mpi_rank;
- start[1] = 0;
- point_set (start, count, stride, block, num_points, coords, OUT_OF_ORDER);
- file_dataspace = H5Dget_space (dataset6);
- VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(file_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- start[0] = 0;
- start[1] = 0;
- point_set (start, count, stride, block, num_points, coords, IN_ORDER);
- mem_dataspace = H5Dget_space (dataset6);
- VRFY((mem_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(mem_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
- /* write data collectively */
- ret = H5Dwrite(dataset6, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset6 succeeded");
-
- /* release all temporary handles. */
- H5Sclose(file_dataspace);
- H5Sclose(mem_dataspace);
- H5Pclose(xfer_plist);
-
- /* Dataset7: point selection in File - All selection in Memory*/
- /* create a file dataspace independently */
- start[0] = dim0/mpi_size * mpi_rank;
- start[1] = 0;
- point_set (start, count, stride, block, num_points, coords, IN_ORDER);
- file_dataspace = H5Dget_space (dataset7);
- VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(file_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- current_dims = num_points;
- mem_dataspace = H5Screate_simple (1, &current_dims, NULL);
- VRFY((mem_dataspace >= 0), "mem_dataspace create succeeded");
-
- ret = H5Sselect_all(mem_dataspace);
- VRFY((ret >= 0), "H5Sselect_all succeeded");
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
- /* write data collectively */
- ret = H5Dwrite(dataset7, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite dataset7 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");
- ret = H5Dclose(dataset3);
- VRFY((ret >= 0), "H5Dclose3 succeeded");
- ret = H5Dclose(dataset4);
- VRFY((ret >= 0), "H5Dclose4 succeeded");
- ret = H5Dclose(dataset5);
- VRFY((ret >= 0), "H5Dclose5 succeeded");
- ret = H5Dclose(dataset6);
- VRFY((ret >= 0), "H5Dclose6 succeeded");
- ret = H5Dclose(dataset7);
- VRFY((ret >= 0), "H5Dclose7 succeeded");
-
- /* close the file collectively */
- H5Fclose(fid);
-
- /* release data buffers */
- if(coords) HDfree(coords);
- if(data_array1) HDfree(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(void)
-{
- 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, dataset5, dataset6, dataset7; /* Dataset ID */
- DATATYPE *data_array1 = NULL; /* data buffer */
- DATATYPE *data_origin1 = NULL; /* expected data buffer */
- const char *filename;
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK], stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- size_t num_points; /* for point selection */
- hsize_t *coords = NULL; /* for point selection */
- int i,j,k;
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Collective read test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* set up the coords array selection */
- num_points = dim1;
- coords = (hsize_t *)HDmalloc(dim0 * dim1 * MAX_RANK * sizeof(hsize_t));
- VRFY((coords != NULL), "coords malloc succeeded");
-
- /* allocate memory for data buffer */
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 HDmalloc succeeded");
- data_origin1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_origin1 != NULL), "data_origin1 HDmalloc 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 = H5Dopen2(fid, DATASETNAME1, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dopen2 succeeded");
-
- /* open another dataset collectively */
- dataset2 = H5Dopen2(fid, DATASETNAME2, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dopen2 2 succeeded");
-
- /* open another dataset collectively */
- dataset5 = H5Dopen2(fid, DATASETNAME7, H5P_DEFAULT);
- VRFY((dataset5 >= 0), "H5Dopen2 5 succeeded");
- dataset6 = H5Dopen2(fid, DATASETNAME8, H5P_DEFAULT);
- VRFY((dataset6 >= 0), "H5Dopen2 6 succeeded");
- dataset7 = H5Dopen2(fid, DATASETNAME9, H5P_DEFAULT);
- VRFY((dataset7 >= 0), "H5Dopen2 7 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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* fill dataset with test data */
- dataset_fill(start, block, data_origin1);
- MESG("data_array initialized");
- if(VERBOSE_MED){
- 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively 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_MED)
- HDprintf("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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* fill dataset with test data */
- dataset_fill(start, block, data_origin1);
- MESG("data_array initialized");
- if(VERBOSE_MED){
- 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively 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_MED)
- HDprintf("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);
-
- if(data_array1) free(data_array1);
- if(data_origin1) free(data_origin1);
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
- data_origin1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_origin1 != NULL), "data_origin1 malloc succeeded");
-
- block[0] = 1;
- block[1] = dim1;
- stride[0] = 1;
- stride[1] = dim1;
- count[0] = 1;
- count[1] = 1;
- start[0] = dim0/mpi_size * mpi_rank;
- start[1] = 0;
-
- dataset_fill(start, block, data_origin1);
- MESG("data_array initialized");
- if(VERBOSE_MED){
- MESG("data_array created");
- dataset_print(start, block, data_origin1);
- }
-
- /* Dataset5: point selection in memory - Hyperslab selection in file*/
- /* create a file dataspace independently */
- file_dataspace = H5Dget_space (dataset5);
- 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");
-
- start[0] = 0;
- start[1] = 0;
- point_set (start, count, stride, block, num_points, coords, OUT_OF_ORDER);
- mem_dataspace = H5Dget_space (dataset5);
- VRFY((mem_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(mem_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
- /* read data collectively */
- ret = H5Dread(dataset5, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dread dataset5 succeeded");
-
-
- 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);
-
- if(data_array1) free(data_array1);
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
-
- /* Dataset6: point selection in File - Point selection in Memory*/
- /* create a file dataspace independently */
- start[0] = dim0/mpi_size * mpi_rank;
- start[1] = 0;
- point_set (start, count, stride, block, num_points, coords, IN_ORDER);
- file_dataspace = H5Dget_space (dataset6);
- VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(file_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- start[0] = 0;
- start[1] = 0;
- point_set (start, count, stride, block, num_points, coords, OUT_OF_ORDER);
- mem_dataspace = H5Dget_space (dataset6);
- VRFY((mem_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(mem_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
- /* read data collectively */
- ret = H5Dread(dataset6, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dread dataset6 succeeded");
-
- 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);
-
- if(data_array1) free(data_array1);
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 malloc succeeded");
-
- /* Dataset7: point selection in memory - All selection in file*/
- /* create a file dataspace independently */
- file_dataspace = H5Dget_space (dataset7);
- VRFY((file_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_all(file_dataspace);
- VRFY((ret >= 0), "H5Sselect_all succeeded");
-
- num_points = dim0 * dim1;
- k=0;
- for (i=0 ; i<dim0; i++) {
- for (j=0 ; j<dim1; j++) {
- coords[k++] = i;
- coords[k++] = j;
- }
- }
- mem_dataspace = H5Dget_space (dataset7);
- VRFY((mem_dataspace >= 0), "H5Dget_space succeeded");
- ret = H5Sselect_elements(mem_dataspace, H5S_SELECT_SET, num_points, coords);
- VRFY((ret >= 0), "H5Sselect_elements succeeded");
-
- /* 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");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
- /* read data collectively */
- ret = H5Dread(dataset7, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dread dataset7 succeeded");
-
- start[0] = dim0/mpi_size * mpi_rank;
- start[1] = 0;
- ret = dataset_vrfy(start, count, stride, block, data_array1+(dim0/mpi_size * dim1 * mpi_rank), 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");
- ret = H5Dclose(dataset5);
- VRFY((ret >= 0), "H5Dclose5 succeeded");
- ret = H5Dclose(dataset6);
- VRFY((ret >= 0), "H5Dclose6 succeeded");
- ret = H5Dclose(dataset7);
- VRFY((ret >= 0), "H5Dclose7 succeeded");
-
- /* close the file collectively */
- H5Fclose(fid);
-
- /* release data buffers */
- if(coords) HDfree(coords);
- if(data_array1) HDfree(data_array1);
- if(data_origin1) HDfree(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(void)
-{
- 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 */
- const char *filename;
- hsize_t dims[MAX_RANK]; /* dataset dim sizes */
- hsize_t max_dims[MAX_RANK] =
- {H5S_UNLIMITED, H5S_UNLIMITED}; /* dataset maximum dim sizes */
- DATATYPE *data_array1 = NULL; /* data buffer */
- hsize_t chunk_dims[MAX_RANK]; /* chunk sizes */
- hid_t dataset_pl; /* dataset create prop. list */
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK]; /* for hyperslab setting */
- hsize_t stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Extend independent write test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&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 *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 HDmalloc succeeded");
-
- /* -------------------
- * START AN HDF5 FILE
- * -------------------*/
- /* setup file access template */
- acc_tpl = create_faccess_plist(comm, info, facc_type);
- VRFY((acc_tpl >= 0), "");
-
-/* Reduce the number of metadata cache slots, so that there are cache
- * collisions during the raw data I/O on the chunked dataset. This stresses
- * the metadata cache and tests for cache bugs. -QAK
- */
-{
- int mdc_nelmts;
- size_t rdcc_nelmts;
- size_t rdcc_nbytes;
- double rdcc_w0;
-
- ret = H5Pget_cache(acc_tpl,&mdc_nelmts,&rdcc_nelmts,&rdcc_nbytes,&rdcc_w0);
- VRFY((ret >= 0), "H5Pget_cache succeeded");
- mdc_nelmts=4;
- ret = H5Pset_cache(acc_tpl,mdc_nelmts,rdcc_nelmts,rdcc_nbytes,rdcc_w0);
- VRFY((ret >= 0), "H5Pset_cache succeeded");
-}
-
- /* 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_MED)
- HDprintf("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, MAX_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 (MAX_RANK, dims, max_dims);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
- /* create an extendible dataset collectively */
- dataset1 = H5Dcreate2(fid, DATASETNAME1, H5T_NATIVE_INT, sid, H5P_DEFAULT, dataset_pl, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dcreate2 succeeded");
-
- /* create another extendible dataset collectively */
- dataset2 = H5Dcreate2(fid, DATASETNAME2, H5T_NATIVE_INT, sid, H5P_DEFAULT, dataset_pl, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dcreate2 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_MED) {
- MESG("data_array created");
- dataset_print(start, block, data_array1);
- }
-
- /* create a memory dataspace independently */
- mem_dataspace = H5Screate_simple (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* Extend its current dim sizes before writing */
- dims[0] = dim0;
- dims[1] = dim1;
- ret = H5Dset_extent(dataset1, dims);
- VRFY((ret >= 0), "H5Dset_extent 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_MED){
- MESG("data_array created");
- dataset_print(start, block, data_array1);
- }
-
- /* create a memory dataspace independently */
- mem_dataspace = H5Screate_simple (MAX_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_auto2(H5E_DEFAULT, &old_func, &old_client_data);
- H5Eset_auto2(H5E_DEFAULT, 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_auto2(H5E_DEFAULT, old_func, old_client_data);
- H5Sclose(file_dataspace);
-
- /* Extend dataset2 and try again. Should succeed. */
- dims[0] = dim0;
- dims[1] = dim1;
- ret = H5Dset_extent(dataset2, dims);
- VRFY((ret >= 0), "H5Dset_extent 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) HDfree(data_array1);
-}
-
-/*
- * Example of using the parallel HDF5 library to create an extendable dataset
- * and perform I/O on it in a way that verifies that the chunk cache is
- * bypassed for parallel I/O.
- */
-
-void
-extend_writeInd2(void)
-{
- const char *filename;
- hid_t fid; /* HDF5 file ID */
- hid_t fapl; /* File access templates */
- hid_t fs; /* File dataspace ID */
- hid_t ms; /* Memory dataspace ID */
- hid_t dataset; /* Dataset ID */
- hsize_t orig_size=10; /* Original dataset dim size */
- hsize_t new_size=20; /* Extended dataset dim size */
- hsize_t one=1;
- hsize_t max_size = H5S_UNLIMITED; /* dataset maximum dim size */
- hsize_t chunk_size = 16384; /* chunk size */
- hid_t dcpl; /* dataset create prop. list */
- int written[10], /* Data to write */
- retrieved[10]; /* Data read in */
- int mpi_size, mpi_rank; /* MPI settings */
- int i; /* Local index variable */
- herr_t ret; /* Generic return value */
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Extend independent write test #2 on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* -------------------
- * START AN HDF5 FILE
- * -------------------*/
- /* setup file access template */
- fapl = create_faccess_plist(test_comm, MPI_INFO_NULL, facc_type);
- VRFY((fapl >= 0), "create_faccess_plist succeeded");
-
- /* create the file collectively */
- fid = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl);
- VRFY((fid >= 0), "H5Fcreate succeeded");
-
- /* Release file-access template */
- ret = H5Pclose(fapl);
- VRFY((ret >= 0), "H5Pclose succeeded");
-
-
- /* --------------------------------------------------------------
- * Define the dimensions of the overall datasets and create them.
- * ------------------------------------------------------------- */
-
- /* set up dataset storage chunk sizes and creation property list */
- dcpl = H5Pcreate(H5P_DATASET_CREATE);
- VRFY((dcpl >= 0), "H5Pcreate succeeded");
- ret = H5Pset_chunk(dcpl, 1, &chunk_size);
- VRFY((ret >= 0), "H5Pset_chunk succeeded");
-
- /* setup dimensionality object */
- fs = H5Screate_simple (1, &orig_size, &max_size);
- VRFY((fs >= 0), "H5Screate_simple succeeded");
-
- /* create an extendible dataset collectively */
- dataset = H5Dcreate2(fid, DATASETNAME1, H5T_NATIVE_INT, fs, H5P_DEFAULT, dcpl, H5P_DEFAULT);
- VRFY((dataset >= 0), "H5Dcreat2e succeeded");
-
- /* release resource */
- ret = H5Pclose(dcpl);
- VRFY((ret >= 0), "H5Pclose succeeded");
-
-
- /* -------------------------
- * Test writing to dataset
- * -------------------------*/
- /* create a memory dataspace independently */
- ms = H5Screate_simple(1, &orig_size, &max_size);
- VRFY((ms >= 0), "H5Screate_simple succeeded");
-
- /* put some trivial data in the data_array */
- for(i = 0; i < (int)orig_size; i++)
- written[i] = i;
- MESG("data array initialized");
- if(VERBOSE_MED) {
- MESG("writing at offset zero: ");
- for(i = 0; i < (int)orig_size; i++)
- HDprintf("%s%d", i?", ":"", written[i]);
- HDprintf("\n");
- }
- ret = H5Dwrite(dataset, H5T_NATIVE_INT, ms, fs, H5P_DEFAULT, written);
- VRFY((ret >= 0), "H5Dwrite succeeded");
-
- /* -------------------------
- * Read initial data from dataset.
- * -------------------------*/
- ret = H5Dread(dataset, H5T_NATIVE_INT, ms, fs, H5P_DEFAULT, retrieved);
- VRFY((ret >= 0), "H5Dread succeeded");
- for (i=0; i<(int)orig_size; i++)
- if(written[i]!=retrieved[i]) {
- HDprintf("Line #%d: written!=retrieved: written[%d]=%d, retrieved[%d]=%d\n",__LINE__,
- i,written[i], i,retrieved[i]);
- nerrors++;
- }
- if(VERBOSE_MED){
- MESG("read at offset zero: ");
- for (i=0; i<(int)orig_size; i++)
- HDprintf("%s%d", i?", ":"", retrieved[i]);
- HDprintf("\n");
- }
-
- /* -------------------------
- * Extend the dataset & retrieve new dataspace
- * -------------------------*/
- ret = H5Dset_extent(dataset, &new_size);
- VRFY((ret >= 0), "H5Dset_extent succeeded");
- ret = H5Sclose(fs);
- VRFY((ret >= 0), "H5Sclose succeeded");
- fs = H5Dget_space(dataset);
- VRFY((fs >= 0), "H5Dget_space succeeded");
-
- /* -------------------------
- * Write to the second half of the dataset
- * -------------------------*/
- for (i=0; i<(int)orig_size; i++)
- written[i] = orig_size + i;
- MESG("data array re-initialized");
- if(VERBOSE_MED) {
- MESG("writing at offset 10: ");
- for (i=0; i<(int)orig_size; i++)
- HDprintf("%s%d", i?", ":"", written[i]);
- HDprintf("\n");
- }
- ret = H5Sselect_hyperslab(fs, H5S_SELECT_SET, &orig_size, NULL, &one, &orig_size);
- VRFY((ret >= 0), "H5Sselect_hyperslab succeeded");
- ret = H5Dwrite(dataset, H5T_NATIVE_INT, ms, fs, H5P_DEFAULT, written);
- VRFY((ret >= 0), "H5Dwrite succeeded");
-
- /* -------------------------
- * Read the new data
- * -------------------------*/
- ret = H5Dread(dataset, H5T_NATIVE_INT, ms, fs, H5P_DEFAULT, retrieved);
- VRFY((ret >= 0), "H5Dread succeeded");
- for (i=0; i<(int)orig_size; i++)
- if(written[i]!=retrieved[i]) {
- HDprintf("Line #%d: written!=retrieved: written[%d]=%d, retrieved[%d]=%d\n",__LINE__,
- i,written[i], i,retrieved[i]);
- nerrors++;
- }
- if(VERBOSE_MED){
- MESG("read at offset 10: ");
- for (i=0; i<(int)orig_size; i++)
- HDprintf("%s%d", i?", ":"", retrieved[i]);
- HDprintf("\n");
- }
-
-
- /* Close dataset collectively */
- ret = H5Dclose(dataset);
- VRFY((ret >= 0), "H5Dclose succeeded");
-
- /* Close the file collectively */
- ret = H5Fclose(fid);
- VRFY((ret >= 0), "H5Fclose succeeded");
-}
-
-/* Example of using the parallel HDF5 library to read an extendible dataset */
-void
-extend_readInd(void)
-{
- 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[MAX_RANK]; /* dataset dim sizes */
- DATATYPE *data_array1 = NULL; /* data buffer */
- DATATYPE *data_array2 = NULL; /* data buffer */
- DATATYPE *data_origin1 = NULL; /* expected data buffer */
- const char *filename;
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK], stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Extend independent read test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* allocate memory for data buffer */
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 HDmalloc succeeded");
- data_array2 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array2 != NULL), "data_array2 HDmalloc succeeded");
- data_origin1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_origin1 != NULL), "data_origin1 HDmalloc 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 = H5Dopen2(fid, DATASETNAME1, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "");
-
- /* open another dataset collectively */
- dataset2 = H5Dopen2(fid, DATASETNAME1, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "");
-
- /* Try extend dataset1 which is open RDONLY. Should fail. */
- /* first turn off auto error reporting */
- H5Eget_auto2(H5E_DEFAULT, &old_func, &old_client_data);
- H5Eset_auto2(H5E_DEFAULT, 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 = H5Dset_extent(dataset1, dims);
- VRFY((ret < 0), "H5Dset_extent failed as expected");
-
- /* restore auto error reporting */
- H5Eset_auto2(H5E_DEFAULT, 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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* fill dataset with test data */
- dataset_fill(start, block, data_origin1);
- if(VERBOSE_MED){
- 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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* fill dataset with test data */
- dataset_fill(start, block, data_origin1);
- if(VERBOSE_MED){
- 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) HDfree(data_array1);
- if(data_array2) HDfree(data_array2);
- if(data_origin1) HDfree(data_origin1);
-}
-
-/*
- * Part 3--Collective read/write for extendible datasets.
- */
-
-/*
- * Example of using the parallel HDF5 library to create two extendible
- * datasets in one HDF5 file with collective 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_writeAll(void)
-{
- 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 */
- const char *filename;
- hsize_t dims[MAX_RANK]; /* dataset dim sizes */
- hsize_t max_dims[MAX_RANK] =
- {H5S_UNLIMITED, H5S_UNLIMITED}; /* dataset maximum dim sizes */
- DATATYPE *data_array1 = NULL; /* data buffer */
- hsize_t chunk_dims[MAX_RANK]; /* chunk sizes */
- hid_t dataset_pl; /* dataset create prop. list */
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK]; /* for hyperslab setting */
- hsize_t stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Extend independent write test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&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 *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 HDmalloc succeeded");
-
- /* -------------------
- * START AN HDF5 FILE
- * -------------------*/
- /* setup file access template */
- acc_tpl = create_faccess_plist(comm, info, facc_type);
- VRFY((acc_tpl >= 0), "");
-
-/* Reduce the number of metadata cache slots, so that there are cache
- * collisions during the raw data I/O on the chunked dataset. This stresses
- * the metadata cache and tests for cache bugs. -QAK
- */
-{
- int mdc_nelmts;
- size_t rdcc_nelmts;
- size_t rdcc_nbytes;
- double rdcc_w0;
-
- ret = H5Pget_cache(acc_tpl,&mdc_nelmts,&rdcc_nelmts,&rdcc_nbytes,&rdcc_w0);
- VRFY((ret >= 0), "H5Pget_cache succeeded");
- mdc_nelmts=4;
- ret = H5Pset_cache(acc_tpl,mdc_nelmts,rdcc_nelmts,rdcc_nbytes,rdcc_w0);
- VRFY((ret >= 0), "H5Pset_cache succeeded");
-}
-
- /* 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_MED)
- HDprintf("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, MAX_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 (MAX_RANK, dims, max_dims);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
- /* create an extendible dataset collectively */
- dataset1 = H5Dcreate2(fid, DATASETNAME1, H5T_NATIVE_INT, sid, H5P_DEFAULT, dataset_pl, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dcreate2 succeeded");
-
- /* create another extendible dataset collectively */
- dataset2 = H5Dcreate2(fid, DATASETNAME2, H5T_NATIVE_INT, sid, H5P_DEFAULT, dataset_pl, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dcreate2 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_MED) {
- MESG("data_array created");
- dataset_print(start, block, data_array1);
- }
-
- /* create a memory dataspace independently */
- mem_dataspace = H5Screate_simple (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* Extend its current dim sizes before writing */
- dims[0] = dim0;
- dims[1] = dim1;
- ret = H5Dset_extent(dataset1, dims);
- VRFY((ret >= 0), "H5Dset_extent 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");
-
- /* set up the collective transfer properties list */
- xfer_plist = H5Pcreate (H5P_DATASET_XFER);
- VRFY((xfer_plist >= 0), "H5Pcreate xfer succeeded");
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
-
- /* write data collectively */
- ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_array1);
- VRFY((ret >= 0), "H5Dwrite succeeded");
-
- /* release resource */
- H5Sclose(file_dataspace);
- H5Sclose(mem_dataspace);
- H5Pclose(xfer_plist);
-
-
- /* -------------------------
- * 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_MED){
- MESG("data_array created");
- dataset_print(start, block, data_array1);
- }
-
- /* create a memory dataspace independently */
- mem_dataspace = H5Screate_simple (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* set up the collective transfer properties list */
- xfer_plist = H5Pcreate (H5P_DATASET_XFER);
- VRFY((xfer_plist >= 0), "H5Pcreate xfer succeeded");
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
-
- /* Try write to dataset2 beyond its current dim sizes. Should fail. */
- /* Temporary turn off auto error reporting */
- H5Eget_auto2(H5E_DEFAULT, &old_func, &old_client_data);
- H5Eset_auto2(H5E_DEFAULT, 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,
- xfer_plist, data_array1);
- VRFY((ret < 0), "H5Dwrite failed as expected");
-
- /* restore auto error reporting */
- H5Eset_auto2(H5E_DEFAULT, old_func, old_client_data);
- H5Sclose(file_dataspace);
-
- /* Extend dataset2 and try again. Should succeed. */
- dims[0] = dim0;
- dims[1] = dim1;
- ret = H5Dset_extent(dataset2, dims);
- VRFY((ret >= 0), "H5Dset_extent 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,
- xfer_plist, 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");
- ret = H5Pclose(xfer_plist);
- VRFY((ret >= 0), "H5Pclose 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) HDfree(data_array1);
-}
-
-/* Example of using the parallel HDF5 library to read an extendible dataset */
-void
-extend_readAll(void)
-{
- 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 */
- const char *filename;
- hsize_t dims[MAX_RANK]; /* dataset dim sizes */
- DATATYPE *data_array1 = NULL; /* data buffer */
- DATATYPE *data_array2 = NULL; /* data buffer */
- DATATYPE *data_origin1 = NULL; /* expected data buffer */
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK], stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Extend independent read test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* allocate memory for data buffer */
- data_array1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array1 != NULL), "data_array1 HDmalloc succeeded");
- data_array2 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_array2 != NULL), "data_array2 HDmalloc succeeded");
- data_origin1 = (DATATYPE *)HDmalloc(dim0*dim1*sizeof(DATATYPE));
- VRFY((data_origin1 != NULL), "data_origin1 HDmalloc 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 = H5Dopen2(fid, DATASETNAME1, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "");
-
- /* open another dataset collectively */
- dataset2 = H5Dopen2(fid, DATASETNAME1, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "");
-
- /* Try extend dataset1 which is open RDONLY. Should fail. */
- /* first turn off auto error reporting */
- H5Eget_auto2(H5E_DEFAULT, &old_func, &old_client_data);
- H5Eset_auto2(H5E_DEFAULT, 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 = H5Dset_extent(dataset1, dims);
- VRFY((ret < 0), "H5Dset_extent failed as expected");
-
- /* restore auto error reporting */
- H5Eset_auto2(H5E_DEFAULT, 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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* fill dataset with test data */
- dataset_fill(start, block, data_origin1);
- if(VERBOSE_MED){
- 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), "H5Pcreate xfer succeeded");
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
-
- /* read data collectively */
- ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, 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);
- H5Pclose(xfer_plist);
-
-
- /* 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 (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* fill dataset with test data */
- dataset_fill(start, block, data_origin1);
- if(VERBOSE_MED){
- 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), "H5Pcreate xfer succeeded");
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
-
- /* read data collectively */
- ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, 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);
- H5Pclose(xfer_plist);
-
- /* 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) HDfree(data_array1);
- if(data_array2) HDfree(data_array2);
- if(data_origin1) HDfree(data_origin1);
-}
-
-/*
- * Example of using the parallel HDF5 library to read a compressed
- * dataset in an HDF5 file with collective parallel access support.
- */
-#ifdef H5_HAVE_FILTER_DEFLATE
-void
-compress_readAll(void)
-{
- hid_t fid; /* HDF5 file ID */
- hid_t acc_tpl; /* File access templates */
- hid_t dcpl; /* Dataset creation property list */
- hid_t xfer_plist; /* Dataset transfer properties list */
- hid_t dataspace; /* Dataspace ID */
- hid_t dataset; /* Dataset ID */
- int rank=1; /* Dataspace rank */
- hsize_t dim=dim0; /* Dataspace dimensions */
- unsigned u; /* Local index variable */
- unsigned chunk_opts; /* Chunk options */
- unsigned disable_partial_chunk_filters; /* Whether filters are disabled on partial chunks */
- DATATYPE *data_read = NULL; /* data buffer */
- DATATYPE *data_orig = NULL; /* expected data buffer */
- const char *filename;
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
- int mpi_size, mpi_rank;
- herr_t ret; /* Generic return value */
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Collective chunked dataset read test on file %s\n", filename);
-
- /* Retrieve MPI parameters */
- MPI_Comm_size(comm,&mpi_size);
- MPI_Comm_rank(comm,&mpi_rank);
-
- /* Allocate data buffer */
- data_orig = (DATATYPE *)HDmalloc((size_t)dim*sizeof(DATATYPE));
- VRFY((data_orig != NULL), "data_origin1 HDmalloc succeeded");
- data_read = (DATATYPE *)HDmalloc((size_t)dim*sizeof(DATATYPE));
- VRFY((data_read != NULL), "data_array1 HDmalloc succeeded");
-
- /* Initialize data buffers */
- for(u=0; u<dim;u++)
- data_orig[u]=u;
-
- /* Run test both with and without filters disabled on partial chunks */
- for(disable_partial_chunk_filters = 0; disable_partial_chunk_filters <= 1;
- disable_partial_chunk_filters++) {
- /* Process zero creates the file with a compressed, chunked dataset */
- if(mpi_rank==0) {
- hsize_t chunk_dim; /* Chunk dimensions */
-
- /* Create the file */
- fid = H5Fcreate(h5_rmprefix(filename), H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((fid > 0), "H5Fcreate succeeded");
-
- /* Create property list for chunking and compression */
- dcpl = H5Pcreate(H5P_DATASET_CREATE);
- VRFY((dcpl > 0), "H5Pcreate succeeded");
-
- ret = H5Pset_layout(dcpl, H5D_CHUNKED);
- VRFY((ret >= 0), "H5Pset_layout succeeded");
-
- /* Use eight chunks */
- chunk_dim = dim / 8;
- ret = H5Pset_chunk(dcpl, rank, &chunk_dim);
- VRFY((ret >= 0), "H5Pset_chunk succeeded");
-
- /* Set chunk options appropriately */
- if(disable_partial_chunk_filters) {
- ret = H5Pget_chunk_opts(dcpl, &chunk_opts);
- VRFY((ret>=0),"H5Pget_chunk_opts succeeded");
-
- chunk_opts |= H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS;
-
- ret = H5Pset_chunk_opts(dcpl, chunk_opts);
- VRFY((ret>=0),"H5Pset_chunk_opts succeeded");
- } /* end if */
-
- ret = H5Pset_deflate(dcpl, 9);
- VRFY((ret >= 0), "H5Pset_deflate succeeded");
-
- /* Create dataspace */
- dataspace = H5Screate_simple(rank, &dim, NULL);
- VRFY((dataspace > 0), "H5Screate_simple succeeded");
-
- /* Create dataset */
- dataset = H5Dcreate2(fid, "compressed_data", H5T_NATIVE_INT, dataspace, H5P_DEFAULT, dcpl, H5P_DEFAULT);
- VRFY((dataset > 0), "H5Dcreate2 succeeded");
-
- /* Write compressed data */
- ret = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, data_orig);
- VRFY((ret >= 0), "H5Dwrite succeeded");
-
- /* Close objects */
- ret = H5Pclose(dcpl);
- VRFY((ret >= 0), "H5Pclose succeeded");
- ret = H5Sclose(dataspace);
- VRFY((ret >= 0), "H5Sclose succeeded");
- ret = H5Dclose(dataset);
- VRFY((ret >= 0), "H5Dclose succeeded");
- ret = H5Fclose(fid);
- VRFY((ret >= 0), "H5Fclose succeeded");
- }
-
- /* Wait for file to be created */
- MPI_Barrier(comm);
-
- /* -------------------
- * 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_RDWR,acc_tpl);
- VRFY((fid > 0), "H5Fopen succeeded");
-
- /* Release file-access template */
- ret = H5Pclose(acc_tpl);
- VRFY((ret >= 0), "H5Pclose succeeded");
-
-
- /* Open dataset with compressed chunks */
- dataset = H5Dopen2(fid, "compressed_data", H5P_DEFAULT);
- VRFY((dataset > 0), "H5Dopen2 succeeded");
-
- /* Try reading & writing data */
- if(dataset>0) {
- /* Create dataset transfer property list */
- xfer_plist = H5Pcreate(H5P_DATASET_XFER);
- VRFY((xfer_plist > 0), "H5Pcreate succeeded");
-
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- if(dxfer_coll_type == DXFER_INDEPENDENT_IO) {
- ret = H5Pset_dxpl_mpio_collective_opt(xfer_plist,H5FD_MPIO_INDIVIDUAL_IO);
- VRFY((ret>= 0),"set independent IO collectively succeeded");
- }
-
-
- /* Try reading the data */
- ret = H5Dread(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, xfer_plist, data_read);
- VRFY((ret >= 0), "H5Dread succeeded");
-
- /* Verify data read */
- for(u=0; u<dim; u++)
- if(data_orig[u]!=data_read[u]) {
- HDprintf("Line #%d: written!=retrieved: data_orig[%u]=%d, data_read[%u]=%d\n",__LINE__,
- (unsigned)u,data_orig[u],(unsigned)u,data_read[u]);
- nerrors++;
- }
-
-#if MPI_VERSION >= 3
- ret = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, xfer_plist, data_read);
- VRFY((ret >= 0), "H5Dwrite succeeded");
-#endif
-
- ret = H5Pclose(xfer_plist);
- VRFY((ret >= 0), "H5Pclose succeeded");
- ret = H5Dclose(dataset);
- VRFY((ret >= 0), "H5Dclose succeeded");
- } /* end if */
-
- /* Close file */
- ret = H5Fclose(fid);
- VRFY((ret >= 0), "H5Fclose succeeded");
- } /* end for */
-
- /* release data buffers */
- if(data_read) HDfree(data_read);
- if(data_orig) HDfree(data_orig);
-}
-#endif /* H5_HAVE_FILTER_DEFLATE */
-
-/*
- * Part 4--Non-selection for chunked dataset
- */
-
-/*
- * Example of using the parallel HDF5 library to create chunked
- * dataset in one HDF5 file with collective and independent parallel
- * MPIO access support. The Datasets are of sizes dim0 x dim1.
- * Each process controls only a slab of size dim0 x dim1 within the
- * dataset with the exception that one processor selects no element.
- */
-
-void
-none_selection_chunk(void)
-{
- 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 */
- const char *filename;
- hsize_t dims[MAX_RANK]; /* dataset dim sizes */
- DATATYPE *data_origin = NULL; /* data buffer */
- DATATYPE *data_array = NULL; /* data buffer */
- hsize_t chunk_dims[MAX_RANK]; /* chunk sizes */
- hid_t dataset_pl; /* dataset create prop. list */
-
- hsize_t start[MAX_RANK]; /* for hyperslab setting */
- hsize_t count[MAX_RANK]; /* for hyperslab setting */
- hsize_t stride[MAX_RANK]; /* for hyperslab setting */
- hsize_t block[MAX_RANK]; /* for hyperslab setting */
- hsize_t mstart[MAX_RANK]; /* for data buffer in memory */
-
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
-
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- filename = GetTestParameters();
- if(VERBOSE_MED)
- HDprintf("Extend independent write test on file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- /* setup chunk-size. Make sure sizes are > 0 */
- chunk_dims[0] = chunkdim0;
- chunk_dims[1] = chunkdim1;
-
- /* -------------------
- * 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_MED)
- HDprintf("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, MAX_RANK, chunk_dims);
- VRFY((ret >= 0), "H5Pset_chunk succeeded");
-
- /* setup dimensionality object */
- dims[0] = dim0;
- dims[1] = dim1;
- sid = H5Screate_simple(MAX_RANK, dims, NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
- /* create an extendible dataset collectively */
- dataset1 = H5Dcreate2(fid, DATASETNAME1, H5T_NATIVE_INT, sid, H5P_DEFAULT, dataset_pl, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dcreate2 succeeded");
-
- /* create another extendible dataset collectively */
- dataset2 = H5Dcreate2(fid, DATASETNAME2, H5T_NATIVE_INT, sid, H5P_DEFAULT, dataset_pl, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dcreate2 succeeded");
-
- /* release resource */
- H5Sclose(sid);
- H5Pclose(dataset_pl);
-
- /* -------------------------
- * Test collective writing to dataset1
- * -------------------------*/
- /* set up dimensions of the slab this process accesses */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
-
- /* allocate memory for data buffer. Only allocate enough buffer for
- * each processor's data. */
- if(mpi_rank) {
- data_origin = (DATATYPE *)HDmalloc(block[0]*block[1]*sizeof(DATATYPE));
- VRFY((data_origin != NULL), "data_origin HDmalloc succeeded");
-
- data_array = (DATATYPE *)HDmalloc(block[0]*block[1]*sizeof(DATATYPE));
- VRFY((data_array != NULL), "data_array HDmalloc succeeded");
-
- /* put some trivial data in the data_array */
- mstart[0] = mstart[1] = 0;
- dataset_fill(mstart, block, data_origin);
- MESG("data_array initialized");
- if(VERBOSE_MED){
- MESG("data_array created");
- dataset_print(mstart, block, data_origin);
- }
- }
-
- /* create a memory dataspace independently */
- mem_dataspace = H5Screate_simple (MAX_RANK, block, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- /* Process 0 has no selection */
- if(!mpi_rank) {
- ret = H5Sselect_none(mem_dataspace);
- VRFY((ret >= 0), "H5Sselect_none 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");
-
- /* Process 0 has no selection */
- if(!mpi_rank) {
- ret = H5Sselect_none(file_dataspace);
- VRFY((ret >= 0), "H5Sselect_none succeeded");
- }
-
- /* set up the collective transfer properties list */
- xfer_plist = H5Pcreate (H5P_DATASET_XFER);
- VRFY((xfer_plist >= 0), "H5Pcreate xfer succeeded");
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
-
- /* write data collectively */
- ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_origin);
- VRFY((ret >= 0), "H5Dwrite succeeded");
-
- /* read data independently */
- ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, data_array);
- VRFY((ret >= 0), "");
-
- /* verify the read data with original expected data */
- if(mpi_rank) {
- ret = dataset_vrfy(mstart, count, stride, block, data_array, data_origin);
- if(ret) nerrors++;
- }
-
- /* -------------------------
- * Test independent writing to dataset2
- * -------------------------*/
- ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_INDEPENDENT);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
-
- /* write data collectively */
- ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- xfer_plist, data_origin);
- VRFY((ret >= 0), "H5Dwrite succeeded");
-
- /* read data independently */
- ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, data_array);
- VRFY((ret >= 0), "");
-
- /* verify the read data with original expected data */
- if(mpi_rank) {
- ret = dataset_vrfy(mstart, count, stride, block, data_array, data_origin);
- if(ret) nerrors++;
- }
-
- /* release resource */
- ret = H5Sclose(file_dataspace);
- VRFY((ret >= 0), "H5Sclose succeeded");
- ret = H5Sclose(mem_dataspace);
- VRFY((ret >= 0), "H5Sclose succeeded");
- ret = H5Pclose(xfer_plist);
- VRFY((ret >= 0), "H5Pclose 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_origin) HDfree(data_origin);
- if(data_array) HDfree(data_array);
-}
-
-
-/* Function: test_actual_io_mode
- *
- * Purpose: tests one specific case of collective I/O and checks that the
- * actual_chunk_opt_mode property and the actual_io_mode
- * properties in the DXPL have the correct values.
- *
- * Input: selection_mode: changes the way processes select data from the space, as well
- * as some dxpl flags to get collective I/O to break in different ways.
- *
- * The relevant I/O function and expected response for each mode:
- * TEST_ACTUAL_IO_MULTI_CHUNK_IND:
- * H5D_mpi_chunk_collective_io, each process reports independent I/O
- *
- * TEST_ACTUAL_IO_MULTI_CHUNK_COL:
- * H5D_mpi_chunk_collective_io, each process reports collective I/O
- *
- * TEST_ACTUAL_IO_MULTI_CHUNK_MIX:
- * H5D_mpi_chunk_collective_io, each process reports mixed I/O
- *
- * TEST_ACTUAL_IO_MULTI_CHUNK_MIX_DISAGREE:
- * H5D_mpi_chunk_collective_io, processes disagree. The root reports
- * collective, the rest report independent I/O
- *
- * TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_IND:
- * Same test TEST_ACTUAL_IO_MULTI_CHUNK_IND.
- * Set directly go to multi-chunk-io without num threshold calc.
- * TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_COL:
- * Same test TEST_ACTUAL_IO_MULTI_CHUNK_COL.
- * Set directly go to multi-chunk-io without num threshold calc.
- *
- * TEST_ACTUAL_IO_LINK_CHUNK:
- * H5D_link_chunk_collective_io, processes report linked chunk I/O
- *
- * TEST_ACTUAL_IO_CONTIGUOUS:
- * H5D__contig_collective_write or H5D__contig_collective_read
- * each process reports contiguous collective I/O
- *
- * TEST_ACTUAL_IO_NO_COLLECTIVE:
- * Simple independent I/O. This tests that the defaults are properly set.
- *
- * TEST_ACTUAL_IO_RESET:
- * Perfroms collective and then independent I/O wit hthe same dxpl to
- * make sure the peroperty is correctly reset to the default on each use.
- * Specifically, this test runs TEST_ACTUAL_IO_MULTI_CHUNK_NO_OPT_MIX_DISAGREE
- * (The most complex case that works on all builds) and then performs
- * an independent read and write with the same dxpls.
- *
- * Note: DIRECT_MULTI_CHUNK_MIX and DIRECT_MULTI_CHUNK_MIX_DISAGREE
- * is not needed as they are covered by DIRECT_CHUNK_MIX and
- * MULTI_CHUNK_MIX_DISAGREE cases. _DIRECT_ cases are only for testing
- * path way to multi-chunk-io by H5FD_MPIO_CHUNK_MULTI_IO insted of num-threshold.
- *
- * Modification:
- * - Refctore to remove multi-chunk-without-opimization test and update for
- * testing direct to multi-chunk-io
- * Programmer: Jonathan Kim
- * Date: 2012-10-10
- *
- *
- * Programmer: Jacob Gruber
- * Date: 2011-04-06
- */
-static void
-test_actual_io_mode(int selection_mode) {
- H5D_mpio_actual_chunk_opt_mode_t actual_chunk_opt_mode_write = -1;
- H5D_mpio_actual_chunk_opt_mode_t actual_chunk_opt_mode_read = -1;
- H5D_mpio_actual_chunk_opt_mode_t actual_chunk_opt_mode_expected = -1;
- H5D_mpio_actual_io_mode_t actual_io_mode_write = -1;
- H5D_mpio_actual_io_mode_t actual_io_mode_read = -1;
- H5D_mpio_actual_io_mode_t actual_io_mode_expected = -1;
- const char * filename;
- const char * test_name;
- hbool_t direct_multi_chunk_io;
- hbool_t multi_chunk_io;
- hbool_t is_chunked;
- hbool_t is_collective;
- int mpi_size = -1;
- int mpi_rank = -1;
- int length;
- int * buffer;
- int i;
- MPI_Comm mpi_comm = MPI_COMM_NULL;
- MPI_Info mpi_info = MPI_INFO_NULL;
- hid_t fid = -1;
- hid_t sid = -1;
- hid_t dataset = -1;
- hid_t data_type = H5T_NATIVE_INT;
- hid_t fapl = -1;
- hid_t mem_space = -1;
- hid_t file_space = -1;
- hid_t dcpl = -1;
- hid_t dxpl_write = -1;
- hid_t dxpl_read = -1;
- hsize_t dims[MAX_RANK];
- hsize_t chunk_dims[MAX_RANK];
- hsize_t start[MAX_RANK];
- hsize_t stride[MAX_RANK];
- hsize_t count[MAX_RANK];
- hsize_t block[MAX_RANK];
- char message[256];
- herr_t ret;
-
- /* Set up some flags to make some future if statements slightly more readable */
- direct_multi_chunk_io = (
- selection_mode == TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_IND ||
- selection_mode == TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_COL );
-
- /* Note: RESET performs the same tests as MULTI_CHUNK_MIX_DISAGREE and then
- * tests independent I/O
- */
- multi_chunk_io = (
- selection_mode == TEST_ACTUAL_IO_MULTI_CHUNK_IND ||
- selection_mode == TEST_ACTUAL_IO_MULTI_CHUNK_COL ||
- selection_mode == TEST_ACTUAL_IO_MULTI_CHUNK_MIX ||
- selection_mode == TEST_ACTUAL_IO_MULTI_CHUNK_MIX_DISAGREE ||
- selection_mode == TEST_ACTUAL_IO_RESET );
-
- is_chunked = (
- selection_mode != TEST_ACTUAL_IO_CONTIGUOUS &&
- selection_mode != TEST_ACTUAL_IO_NO_COLLECTIVE);
-
- is_collective = selection_mode != TEST_ACTUAL_IO_NO_COLLECTIVE;
-
- /* Set up MPI parameters */
- MPI_Comm_size(test_comm, &mpi_size);
- MPI_Comm_rank(test_comm, &mpi_rank);
-
- MPI_Barrier(test_comm);
-
- HDassert(mpi_size >= 1);
-
- mpi_comm = test_comm;
- mpi_info = MPI_INFO_NULL;
-
- filename = (const char *)GetTestParameters();
- HDassert(filename != NULL);
-
- /* Setup the file access template */
- fapl = create_faccess_plist(mpi_comm, mpi_info, facc_type);
- VRFY((fapl >= 0), "create_faccess_plist() succeeded");
-
- /* Create the file */
- fid = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl);
- VRFY((fid >= 0), "H5Fcreate succeeded");
-
- /* Create the basic Space */
- dims[0] = dim0;
- dims[1] = dim1;
- sid = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
- /* Create the dataset creation plist */
- dcpl = H5Pcreate(H5P_DATASET_CREATE);
- VRFY((dcpl >= 0), "dataset creation plist created successfully");
-
- /* If we are not testing contiguous datasets */
- if(is_chunked) {
- /* Set up chunk information. */
- chunk_dims[0] = dims[0]/mpi_size;
- chunk_dims[1] = dims[1];
- ret = H5Pset_chunk(dcpl, 2, chunk_dims);
- VRFY((ret >= 0),"chunk creation property list succeeded");
- }
-
- /* Create the dataset */
- dataset = H5Dcreate2(fid, "actual_io", data_type, sid, H5P_DEFAULT,
- dcpl, H5P_DEFAULT);
- VRFY((dataset >= 0), "H5Dcreate2() dataset succeeded");
-
- /* Create the file dataspace */
- file_space = H5Dget_space(dataset);
- VRFY((file_space >= 0), "H5Dget_space succeeded");
-
- /* Choose a selection method based on the type of I/O we want to occur,
- * and also set up some selection-dependeent test info. */
- switch(selection_mode) {
-
- /* Independent I/O with optimization */
- case TEST_ACTUAL_IO_MULTI_CHUNK_IND:
- case TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_IND:
- /* Since the dataset is chunked by row and each process selects a row,
- * each process writes to a different chunk. This forces all I/O to be
- * independent.
- */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
-
- test_name = "Multi Chunk - Independent";
- actual_chunk_opt_mode_expected = H5D_MPIO_MULTI_CHUNK;
- actual_io_mode_expected = H5D_MPIO_CHUNK_INDEPENDENT;
- break;
-
- /* Collective I/O with optimization */
- case TEST_ACTUAL_IO_MULTI_CHUNK_COL:
- case TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_COL:
- /* The dataset is chunked by rows, so each process takes a column which
- * spans all chunks. Since the processes write non-overlapping regular
- * selections to each chunk, the operation is purely collective.
- */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYCOL);
-
- test_name = "Multi Chunk - Collective";
- actual_chunk_opt_mode_expected = H5D_MPIO_MULTI_CHUNK;
- if(mpi_size > 1)
- actual_io_mode_expected = H5D_MPIO_CHUNK_COLLECTIVE;
- else
- actual_io_mode_expected = H5D_MPIO_CHUNK_INDEPENDENT;
- break;
-
- /* Mixed I/O with optimization */
- case TEST_ACTUAL_IO_MULTI_CHUNK_MIX:
- /* A chunk will be assigned collective I/O only if it is selected by each
- * process. To get mixed I/O, have the root select all chunks and each
- * subsequent process select the first and nth chunk. The first chunk,
- * accessed by all, will be assigned collective I/O while each other chunk
- * will be accessed only by the root and the nth procecess and will be
- * assigned independent I/O. Each process will access one chunk collectively
- * and at least one chunk independently, reporting mixed I/O.
- */
-
- if(mpi_rank == 0) {
- /* Select the first column */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYCOL);
- } else {
- /* Select the first and the nth chunk in the nth column */
- block[0] = dim0 / mpi_size;
- block[1] = dim1 / mpi_size;
- count[0] = 2;
- count[1] = 1;
- stride[0] = mpi_rank * block[0];
- stride[1] = 1;
- start[0] = 0;
- start[1] = mpi_rank*block[1];
- }
-
- test_name = "Multi Chunk - Mixed";
- actual_chunk_opt_mode_expected = H5D_MPIO_MULTI_CHUNK;
- actual_io_mode_expected = H5D_MPIO_CHUNK_MIXED;
- break;
-
- /* RESET tests that the properties are properly reset to defaults each time I/O is
- * performed. To acheive this, we have RESET perform collective I/O (which would change
- * the values from the defaults) followed by independent I/O (which should report the
- * default values). RESET doesn't need to have a unique selection, so we reuse
- * MULTI_CHUMK_MIX_DISAGREE, which was chosen because it is a complex case that works
- * on all builds. The independent section of RESET can be found at the end of this function.
- */
- case TEST_ACTUAL_IO_RESET:
-
- /* Mixed I/O with optimization and internal disagreement */
- case TEST_ACTUAL_IO_MULTI_CHUNK_MIX_DISAGREE:
- /* A chunk will be assigned collective I/O only if it is selected by each
- * process. To get mixed I/O with disagreement, assign process n to the
- * first chunk and the nth chunk. The first chunk, selected by all, is
- * assgigned collective I/O, while each other process gets independent I/O.
- * Since the root process with only access the first chunk, it will report
- * collective I/O. The subsequent processes will access the first chunk
- * collectively, and their other chunk indpendently, reporting mixed I/O.
- */
-
- if(mpi_rank == 0) {
- /* Select the first chunk in the first column */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYCOL);
- block[0] = block[0] / mpi_size;
- } else {
- /* Select the first and the nth chunk in the nth column */
- block[0] = dim0 / mpi_size;
- block[1] = dim1 / mpi_size;
- count[0] = 2;
- count[1] = 1;
- stride[0] = mpi_rank * block[0];
- stride[1] = 1;
- start[0] = 0;
- start[1] = mpi_rank*block[1];
- }
-
- /* If the testname was not already set by the RESET case */
- if (selection_mode == TEST_ACTUAL_IO_RESET)
- test_name = "RESET";
- else
- test_name = "Multi Chunk - Mixed (Disagreement)";
-
- actual_chunk_opt_mode_expected = H5D_MPIO_MULTI_CHUNK;
- if(mpi_size > 1) {
- if(mpi_rank == 0)
- actual_io_mode_expected = H5D_MPIO_CHUNK_COLLECTIVE;
- else
- actual_io_mode_expected = H5D_MPIO_CHUNK_MIXED;
- }
- else
- actual_io_mode_expected = H5D_MPIO_CHUNK_INDEPENDENT;
-
- break;
-
- /* Linked Chunk I/O */
- case TEST_ACTUAL_IO_LINK_CHUNK:
- /* Nothing special; link chunk I/O is forced in the dxpl settings. */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
-
- test_name = "Link Chunk";
- actual_chunk_opt_mode_expected = H5D_MPIO_LINK_CHUNK;
- actual_io_mode_expected = H5D_MPIO_CHUNK_COLLECTIVE;
- break;
-
- /* Contiguous Dataset */
- case TEST_ACTUAL_IO_CONTIGUOUS:
- /* A non overlapping, regular selection in a contiguous dataset leads to
- * collective I/O */
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
-
- test_name = "Contiguous";
- actual_chunk_opt_mode_expected = H5D_MPIO_NO_CHUNK_OPTIMIZATION;
- actual_io_mode_expected = H5D_MPIO_CONTIGUOUS_COLLECTIVE;
- break;
-
- case TEST_ACTUAL_IO_NO_COLLECTIVE:
- slab_set(mpi_rank, mpi_size, start, count, stride, block, BYROW);
-
- test_name = "Independent";
- actual_chunk_opt_mode_expected = H5D_MPIO_NO_CHUNK_OPTIMIZATION;
- actual_io_mode_expected = H5D_MPIO_NO_COLLECTIVE;
- break;
-
- default:
- test_name = "Undefined Selection Mode";
- actual_chunk_opt_mode_expected = -1;
- actual_io_mode_expected = -1;
- break;
- }
-
- ret = H5Sselect_hyperslab(file_space, H5S_SELECT_SET, start, stride, count, block);
- VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
-
- /* Create a memory dataspace mirroring the dataset and select the same hyperslab
- * as in the file space.
- */
- mem_space = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((mem_space >= 0), "mem_space created");
-
- ret = H5Sselect_hyperslab(mem_space, H5S_SELECT_SET, start, stride, count, block);
- VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
-
- /* Get the number of elements in the selection */
- length = dim0 * dim1;
-
- /* Allocate and initialize the buffer */
- buffer = (int *)HDmalloc(sizeof(int) * length);
- VRFY((buffer != NULL), "HDmalloc of buffer succeeded");
- for(i = 0; i < length; i++)
- buffer[i] = i;
-
- /* Set up the dxpl for the write */
- dxpl_write = H5Pcreate(H5P_DATASET_XFER);
- VRFY((dxpl_write >= 0), "H5Pcreate(H5P_DATASET_XFER) succeeded");
-
- /* Set collective I/O properties in the dxpl. */
- if(is_collective) {
- /* Request collective I/O */
- ret = H5Pset_dxpl_mpio(dxpl_write, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
-
- /* Set the threshold number of processes per chunk to twice mpi_size.
- * This will prevent the threshold from ever being met, thus forcing
- * multi chunk io instead of link chunk io.
- * This is via deault.
- */
- if(multi_chunk_io) {
- /* force multi-chunk-io by threshold */
- ret = H5Pset_dxpl_mpio_chunk_opt_num(dxpl_write, (unsigned) mpi_size*2);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio_chunk_opt_num succeeded");
-
- /* set this to manipulate testing senario about allocating processes
- * to chunks */
- ret = H5Pset_dxpl_mpio_chunk_opt_ratio(dxpl_write, (unsigned) 99);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio_chunk_opt_ratio succeeded");
- }
-
- /* Set directly go to multi-chunk-io without threshold calc. */
- if(direct_multi_chunk_io) {
- /* set for multi chunk io by property*/
- ret = H5Pset_dxpl_mpio_chunk_opt(dxpl_write, H5FD_MPIO_CHUNK_MULTI_IO);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- }
- }
-
- /* Make a copy of the dxpl to test the read operation */
- dxpl_read = H5Pcopy(dxpl_write);
- VRFY((dxpl_read >= 0), "H5Pcopy succeeded");
-
- /* Write */
- ret = H5Dwrite(dataset, data_type, mem_space, file_space, dxpl_write, buffer);
- if(ret < 0) H5Eprint2(H5E_DEFAULT, stdout);
- VRFY((ret >= 0), "H5Dwrite() dataset multichunk write succeeded");
-
- /* Retreive Actual io valuess */
- ret = H5Pget_mpio_actual_io_mode(dxpl_write, &actual_io_mode_write);
- VRFY((ret >= 0), "retriving actual io mode suceeded" );
-
- ret = H5Pget_mpio_actual_chunk_opt_mode(dxpl_write, &actual_chunk_opt_mode_write);
- VRFY((ret >= 0), "retriving actual chunk opt mode succeeded" );
-
- /* Read */
- ret = H5Dread(dataset, data_type, mem_space, file_space, dxpl_read, buffer);
- if(ret < 0) H5Eprint2(H5E_DEFAULT, stdout);
- VRFY((ret >= 0), "H5Dread() dataset multichunk read succeeded");
-
- /* Retreive Actual io values */
- ret = H5Pget_mpio_actual_io_mode(dxpl_read, &actual_io_mode_read);
- VRFY((ret >= 0), "retriving actual io mode succeeded" );
-
- ret = H5Pget_mpio_actual_chunk_opt_mode(dxpl_read, &actual_chunk_opt_mode_read);
- VRFY((ret >= 0), "retriving actual chunk opt mode succeeded" );
-
- /* Check write vs read */
- VRFY((actual_io_mode_read == actual_io_mode_write),
- "reading and writing are the same for actual_io_mode");
- VRFY((actual_chunk_opt_mode_read == actual_chunk_opt_mode_write),
- "reading and writing are the same for actual_chunk_opt_mode");
-
- /* Test values */
- if(actual_chunk_opt_mode_expected != (H5D_mpio_actual_chunk_opt_mode_t) -1 && actual_io_mode_expected != (H5D_mpio_actual_io_mode_t) -1) {
- HDsprintf(message, "Actual Chunk Opt Mode has the correct value for %s.\n",test_name);
- VRFY((actual_chunk_opt_mode_write == actual_chunk_opt_mode_expected), message);
- HDsprintf(message, "Actual IO Mode has the correct value for %s.\n",test_name);
- VRFY((actual_io_mode_write == actual_io_mode_expected), message);
- } else {
- HDfprintf(stderr, "%s %d -> (%d,%d)\n", test_name, mpi_rank,
- actual_chunk_opt_mode_write, actual_io_mode_write);
- }
-
- /* To test that the property is succesfully reset to the default, we perform some
- * independent I/O after the collective I/O
- */
- if (selection_mode == TEST_ACTUAL_IO_RESET) {
- if (mpi_rank == 0) {
- /* Switch to independent io */
- ret = H5Pset_dxpl_mpio(dxpl_write, H5FD_MPIO_INDEPENDENT);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- ret = H5Pset_dxpl_mpio(dxpl_read, H5FD_MPIO_INDEPENDENT);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
-
- /* Write */
- ret = H5Dwrite(dataset, data_type, H5S_ALL, H5S_ALL, dxpl_write, buffer);
- VRFY((ret >= 0), "H5Dwrite() dataset multichunk write succeeded");
-
- /* Check Properties */
- ret = H5Pget_mpio_actual_io_mode(dxpl_write, &actual_io_mode_write);
- VRFY( (ret >= 0), "retriving actual io mode succeeded" );
- ret = H5Pget_mpio_actual_chunk_opt_mode(dxpl_write, &actual_chunk_opt_mode_write);
- VRFY( (ret >= 0), "retriving actual chunk opt mode succeeded" );
-
- VRFY(actual_chunk_opt_mode_write == H5D_MPIO_NO_CHUNK_OPTIMIZATION,
- "actual_chunk_opt_mode has correct value for reset write (independent)");
- VRFY(actual_io_mode_write == H5D_MPIO_NO_COLLECTIVE,
- "actual_io_mode has correct value for reset write (independent)");
-
- /* Read */
- ret = H5Dread(dataset, data_type, H5S_ALL, H5S_ALL, dxpl_read, buffer);
- VRFY((ret >= 0), "H5Dwrite() dataset multichunk write succeeded");
-
- /* Check Properties */
- ret = H5Pget_mpio_actual_io_mode(dxpl_read, &actual_io_mode_read);
- VRFY( (ret >= 0), "retriving actual io mode succeeded" );
- ret = H5Pget_mpio_actual_chunk_opt_mode(dxpl_read, &actual_chunk_opt_mode_read);
- VRFY( (ret >= 0), "retriving actual chunk opt mode succeeded" );
-
- VRFY(actual_chunk_opt_mode_read == H5D_MPIO_NO_CHUNK_OPTIMIZATION,
- "actual_chunk_opt_mode has correct value for reset read (independent)");
- VRFY(actual_io_mode_read == H5D_MPIO_NO_COLLECTIVE,
- "actual_io_mode has correct value for reset read (independent)");
- }
- }
-
- /* Release some resources */
- ret = H5Sclose(sid);
- ret = H5Pclose(fapl);
- ret = H5Pclose(dcpl);
- ret = H5Pclose(dxpl_write);
- ret = H5Pclose(dxpl_read);
- ret = H5Dclose(dataset);
- ret = H5Sclose(mem_space);
- ret = H5Sclose(file_space);
- ret = H5Fclose(fid);
- HDfree(buffer);
- return;
-}
-
-
-/* Function: actual_io_mode_tests
- *
- * Purpose: Tests all possible cases of the actual_io_mode property.
- *
- * Programmer: Jacob Gruber
- * Date: 2011-04-06
- */
-void
-actual_io_mode_tests(void) {
- int mpi_size = -1;
- int mpi_rank = -1;
- MPI_Comm_size(test_comm, &mpi_size);
- MPI_Comm_size(test_comm, &mpi_rank);
-
- test_actual_io_mode(TEST_ACTUAL_IO_NO_COLLECTIVE);
-
- /*
- * Test multi-chunk-io via proc_num threshold
- */
- test_actual_io_mode(TEST_ACTUAL_IO_MULTI_CHUNK_IND);
- test_actual_io_mode(TEST_ACTUAL_IO_MULTI_CHUNK_COL);
-
- /* The Multi Chunk Mixed test requires atleast three processes. */
- if (mpi_size > 2)
- test_actual_io_mode(TEST_ACTUAL_IO_MULTI_CHUNK_MIX);
- else
- HDfprintf(stdout, "Multi Chunk Mixed test requires 3 proceses minimum\n");
-
- test_actual_io_mode(TEST_ACTUAL_IO_MULTI_CHUNK_MIX_DISAGREE);
-
- /*
- * Test multi-chunk-io via setting direct property
- */
- test_actual_io_mode(TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_IND);
- test_actual_io_mode(TEST_ACTUAL_IO_DIRECT_MULTI_CHUNK_COL);
-
- test_actual_io_mode(TEST_ACTUAL_IO_LINK_CHUNK);
- test_actual_io_mode(TEST_ACTUAL_IO_CONTIGUOUS);
-
- test_actual_io_mode(TEST_ACTUAL_IO_RESET);
- return;
-}
-
-/*
- * Function: test_no_collective_cause_mode
- *
- * Purpose:
- * tests cases for broken collective I/O and checks that the
- * H5Pget_mpio_no_collective_cause properties in the DXPL have the correct values.
- *
- * Input:
- * selection_mode: various mode to cause broken collective I/O
- * Note: Originally, each TEST case is supposed to be used alone.
- * After some discussion, this is updated to take multiple TEST cases
- * with '|'. However there is no error check for any of combined
- * test cases, so a tester is responsible to understand and feed
- * proper combination of TESTs if needed.
- *
- *
- * TEST_COLLECTIVE:
- * Test for regular collective I/O without cause of breaking.
- * Just to test normal behavior.
- *
- * TEST_SET_INDEPENDENT:
- * Test for Independent I/O as the cause of breaking collective I/O.
- *
- * TEST_DATATYPE_CONVERSION:
- * Test for Data Type Conversion as the cause of breaking collective I/O.
- *
- * TEST_DATA_TRANSFORMS:
- * Test for Data Transfrom feature as the cause of breaking collective I/O.
- *
- * TEST_NOT_SIMPLE_OR_SCALAR_DATASPACES:
- * Test for NULL dataspace as the cause of breaking collective I/O.
- *
- * TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_COMPACT:
- * Test for Compact layout as the cause of breaking collective I/O.
- *
- * TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL:
- * Test for Externl-File storage as the cause of breaking collective I/O.
- *
- * TEST_FILTERS:
- * Test for using filter (checksum) as the cause of breaking collective I/O.
- * Note: TEST_FILTERS mode will not work until H5Dcreate and H5write is supported for mpio and filter feature. Use test_no_collective_cause_mode_filter() function instead.
- *
- *
- * Programmer: Jonathan Kim
- * Date: Aug, 2012
- */
-#define DSET_NOCOLCAUSE "nocolcause"
-#define NELM 2
-#define FILE_EXTERNAL "nocolcause_extern.data"
-static void
-test_no_collective_cause_mode(int selection_mode)
-{
- uint32_t no_collective_cause_local_write = 0;
- uint32_t no_collective_cause_local_read = 0;
- uint32_t no_collective_cause_local_expected = 0;
- uint32_t no_collective_cause_global_write = 0;
- uint32_t no_collective_cause_global_read = 0;
- uint32_t no_collective_cause_global_expected = 0;
- // hsize_t coord[NELM][MAX_RANK];
-
- const char * filename;
- const char * test_name;
- hbool_t is_chunked=1;
- hbool_t is_independent=0;
- int mpi_size = -1;
- int mpi_rank = -1;
- int length;
- int * buffer;
- int i;
- MPI_Comm mpi_comm;
- MPI_Info mpi_info;
- hid_t fid = -1;
- hid_t sid = -1;
- hid_t dataset = -1;
- hid_t data_type = H5T_NATIVE_INT;
- hid_t fapl = -1;
- hid_t dcpl = -1;
- hid_t dxpl_write = -1;
- hid_t dxpl_read = -1;
- hsize_t dims[MAX_RANK];
- hid_t mem_space = -1;
- hid_t file_space = -1;
- hsize_t chunk_dims[MAX_RANK];
- herr_t ret;
-#ifdef LATER /* fletcher32 */
- H5Z_filter_t filter_info;
-#endif /* LATER */
- /* set to global value as default */
- int l_facc_type = facc_type;
- char message[256];
-
- /* Set up MPI parameters */
- MPI_Comm_size(test_comm, &mpi_size);
- MPI_Comm_rank(test_comm, &mpi_rank);
-
- MPI_Barrier(test_comm);
-
- HDassert(mpi_size >= 1);
-
- mpi_comm = test_comm;
- mpi_info = MPI_INFO_NULL;
-
- /* Create the dataset creation plist */
- dcpl = H5Pcreate(H5P_DATASET_CREATE);
- VRFY((dcpl >= 0), "dataset creation plist created successfully");
-
- if (selection_mode & TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_COMPACT) {
- ret = H5Pset_layout (dcpl, H5D_COMPACT);
- VRFY((ret >= 0),"set COMPACT layout succeeded");
- is_chunked = 0;
- }
-
- if (selection_mode & TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL) {
- ret = H5Pset_external (dcpl, FILE_EXTERNAL, (off_t) 0, H5F_UNLIMITED);
- VRFY((ret >= 0),"set EXTERNAL file layout succeeded");
- is_chunked = 0;
- }
-
-#ifdef LATER /* fletcher32 */
- if (selection_mode & TEST_FILTERS) {
- ret = H5Zfilter_avail(H5Z_FILTER_FLETCHER32);
- VRFY ((ret >=0 ), "Fletcher32 filter is available.\n");
-
- ret = H5Zget_filter_info (H5Z_FILTER_FLETCHER32, &filter_info);
- VRFY ( ( (filter_info & H5Z_FILTER_CONFIG_ENCODE_ENABLED) || (filter_info & H5Z_FILTER_CONFIG_DECODE_ENABLED) ) , "Fletcher32 filter encoding and decoding available.\n");
-
- ret = H5Pset_fletcher32(dcpl);
- VRFY((ret >= 0),"set filter (flecher32) succeeded");
- }
-#endif /* LATER */
-
- if (selection_mode & TEST_NOT_SIMPLE_OR_SCALAR_DATASPACES) {
- sid = H5Screate(H5S_NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
- is_chunked = 0;
- }
- else {
- /* Create the basic Space */
- /* if this is a compact dataset, create a small dataspace that does not exceed 64K */
- if (selection_mode & TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_COMPACT) {
- dims[0] = BIG_X_FACTOR * 6;
- dims[1] = BIG_Y_FACTOR * 6;
- }
- else {
- dims[0] = dim0;
- dims[1] = dim1;
- }
- sid = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
- }
-
-
- filename = (const char *)GetTestParameters();
- HDassert(filename != NULL);
-
- /* Setup the file access template */
- fapl = create_faccess_plist(mpi_comm, mpi_info, l_facc_type);
- VRFY((fapl >= 0), "create_faccess_plist() succeeded");
-
- /* Create the file */
- fid = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl);
-
- VRFY((fid >= 0), "H5Fcreate succeeded");
-
- /* If we are not testing contiguous datasets */
- if(is_chunked) {
- /* Set up chunk information. */
- chunk_dims[0] = dims[0]/mpi_size;
- chunk_dims[1] = dims[1];
- ret = H5Pset_chunk(dcpl, 2, chunk_dims);
- VRFY((ret >= 0),"chunk creation property list succeeded");
- }
-
-
- /* Create the dataset */
- dataset = H5Dcreate2(fid, "nocolcause", data_type, sid, H5P_DEFAULT, dcpl, H5P_DEFAULT);
- VRFY((dataset >= 0), "H5Dcreate2() dataset succeeded");
-
-
- /*
- * Set expected causes and some tweaks based on the type of test
- */
- if (selection_mode & TEST_DATATYPE_CONVERSION) {
- test_name = "Broken Collective I/O - Datatype Conversion";
- no_collective_cause_local_expected |= H5D_MPIO_DATATYPE_CONVERSION;
- no_collective_cause_global_expected |= H5D_MPIO_DATATYPE_CONVERSION;
- /* set different sign to trigger type conversion */
- data_type = H5T_NATIVE_UINT;
- }
-
- if (selection_mode & TEST_DATA_TRANSFORMS) {
- test_name = "Broken Collective I/O - DATA Transfroms";
- no_collective_cause_local_expected |= H5D_MPIO_DATA_TRANSFORMS;
- no_collective_cause_global_expected |= H5D_MPIO_DATA_TRANSFORMS;
- }
-
- if (selection_mode & TEST_NOT_SIMPLE_OR_SCALAR_DATASPACES) {
- test_name = "Broken Collective I/O - No Simple or Scalar DataSpace";
- no_collective_cause_local_expected |= H5D_MPIO_NOT_SIMPLE_OR_SCALAR_DATASPACES;
- no_collective_cause_global_expected |= H5D_MPIO_NOT_SIMPLE_OR_SCALAR_DATASPACES;
- }
-
- if (selection_mode & TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_COMPACT ||
- selection_mode & TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL) {
- test_name = "Broken Collective I/O - No CONTI or CHUNKED Dataset";
- no_collective_cause_local_expected |= H5D_MPIO_NOT_CONTIGUOUS_OR_CHUNKED_DATASET;
- no_collective_cause_global_expected |= H5D_MPIO_NOT_CONTIGUOUS_OR_CHUNKED_DATASET;
- }
-
-#ifdef LATER /* fletcher32 */
- if (selection_mode & TEST_FILTERS) {
- test_name = "Broken Collective I/O - Filter is required";
- no_collective_cause_local_expected |= H5D_MPIO_FILTERS;
- no_collective_cause_global_expected |= H5D_MPIO_FILTERS;
- }
-#endif /* LATER */
-
- if (selection_mode & TEST_COLLECTIVE) {
- test_name = "Broken Collective I/O - Not Broken";
- no_collective_cause_local_expected = H5D_MPIO_COLLECTIVE;
- no_collective_cause_global_expected = H5D_MPIO_COLLECTIVE;
- }
-
- if (selection_mode & TEST_SET_INDEPENDENT) {
- test_name = "Broken Collective I/O - Independent";
- no_collective_cause_local_expected = H5D_MPIO_SET_INDEPENDENT;
- no_collective_cause_global_expected = H5D_MPIO_SET_INDEPENDENT;
- /* switch to independent io */
- is_independent = 1;
- }
-
- /* use all spaces for certain tests */
- if (selection_mode & TEST_NOT_SIMPLE_OR_SCALAR_DATASPACES ||
- selection_mode & TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL) {
- file_space = H5S_ALL;
- mem_space = H5S_ALL;
- }
- else {
- /* Get the file dataspace */
- file_space = H5Dget_space(dataset);
- VRFY((file_space >= 0), "H5Dget_space succeeded");
-
- /* Create the memory dataspace */
- mem_space = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((mem_space >= 0), "mem_space created");
- }
-
- /* Get the number of elements in the selection */
- length = dims[0] * dims[1];
-
- /* Allocate and initialize the buffer */
- buffer = (int *)HDmalloc(sizeof(int) * length);
- VRFY((buffer != NULL), "HDmalloc of buffer succeeded");
- for(i = 0; i < length; i++)
- buffer[i] = i;
-
- /* Set up the dxpl for the write */
- dxpl_write = H5Pcreate(H5P_DATASET_XFER);
- VRFY((dxpl_write >= 0), "H5Pcreate(H5P_DATASET_XFER) succeeded");
-
- if(is_independent) {
- /* Set Independent I/O */
- ret = H5Pset_dxpl_mpio(dxpl_write, H5FD_MPIO_INDEPENDENT);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- }
- else {
- /* Set Collective I/O */
- ret = H5Pset_dxpl_mpio(dxpl_write, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
-
- }
-
- if (selection_mode & TEST_DATA_TRANSFORMS) {
- ret = H5Pset_data_transform (dxpl_write, "x+1");
- VRFY((ret >= 0), "H5Pset_data_transform succeeded");
- }
-
- /*---------------------
- * Test Write access
- *---------------------*/
-
- /* Write */
- ret = H5Dwrite(dataset, data_type, mem_space, file_space, dxpl_write, buffer);
- if(ret < 0) H5Eprint2(H5E_DEFAULT, stdout);
- VRFY((ret >= 0), "H5Dwrite() dataset multichunk write succeeded");
-
-
- /* Get the cause of broken collective I/O */
- ret = H5Pget_mpio_no_collective_cause (dxpl_write, &no_collective_cause_local_write, &no_collective_cause_global_write);
- VRFY((ret >= 0), "retriving no collective cause succeeded" );
-
-
- /*---------------------
- * Test Read access
- *---------------------*/
-
- /* Make a copy of the dxpl to test the read operation */
- dxpl_read = H5Pcopy(dxpl_write);
- VRFY((dxpl_read >= 0), "H5Pcopy succeeded");
-
- /* Read */
- ret = H5Dread(dataset, data_type, mem_space, file_space, dxpl_read, buffer);
-
- if(ret < 0) H5Eprint2(H5E_DEFAULT, stdout);
- VRFY((ret >= 0), "H5Dread() dataset multichunk read succeeded");
-
- /* Get the cause of broken collective I/O */
- ret = H5Pget_mpio_no_collective_cause (dxpl_read, &no_collective_cause_local_read, &no_collective_cause_global_read);
- VRFY((ret >= 0), "retriving no collective cause succeeded" );
-
- /* Check write vs read */
- VRFY((no_collective_cause_local_read == no_collective_cause_local_write),
- "reading and writing are the same for local cause of Broken Collective I/O");
- VRFY((no_collective_cause_global_read == no_collective_cause_global_write),
- "reading and writing are the same for global cause of Broken Collective I/O");
-
- /* Test values */
- HDmemset (message, 0, sizeof (message));
- HDsprintf(message, "Local cause of Broken Collective I/O has the correct value for %s.\n",test_name);
- VRFY((no_collective_cause_local_write == no_collective_cause_local_expected), message);
- HDmemset (message, 0, sizeof (message));
- HDsprintf(message, "Global cause of Broken Collective I/O has the correct value for %s.\n",test_name);
- VRFY((no_collective_cause_global_write == no_collective_cause_global_expected), message);
-
- /* Release some resources */
- if (sid)
- H5Sclose(sid);
- if (fapl)
- H5Pclose(fapl);
- if (dcpl)
- H5Pclose(dcpl);
- if (dxpl_write)
- H5Pclose(dxpl_write);
- if (dxpl_read)
- H5Pclose(dxpl_read);
- if (dataset)
- H5Dclose(dataset);
- if (mem_space)
- H5Sclose(mem_space);
- if (file_space)
- H5Sclose(file_space);
- if (fid)
- H5Fclose(fid);
- HDfree(buffer);
-
- /* clean up external file */
- if (selection_mode & TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL)
- HDremove(FILE_EXTERNAL);
-
- return;
-}
-
-
-#if 0
-/*
- * Function: test_no_collective_cause_mode_filter
- *
- * Purpose:
- * Test specific for using filter as a caus of broken collective I/O and
- * checks that the H5Pget_mpio_no_collective_cause properties in the DXPL
- * have the correct values.
- *
- * NOTE:
- * This is a temporary function.
- * test_no_collective_cause_mode(TEST_FILTERS) will replace this when
- * H5Dcreate and H5write support for mpio and filter feature.
- *
- * Input:
- * TEST_FILTERS_READ:
- * Test for using filter (checksum) as the cause of breaking collective I/O.
- *
- * Programmer: Jonathan Kim
- * Date: Aug, 2012
- */
-static void
-test_no_collective_cause_mode_filter(int selection_mode)
-{
- uint32_t no_collective_cause_local_read = 0;
- uint32_t no_collective_cause_local_expected = 0;
- uint32_t no_collective_cause_global_read = 0;
- uint32_t no_collective_cause_global_expected = 0;
-
- const char * filename;
- const char * test_name;
- hbool_t is_chunked=1;
- int mpi_size = -1;
- int mpi_rank = -1;
- int length;
- int * buffer;
- int i;
- MPI_Comm mpi_comm = MPI_COMM_NULL;
- MPI_Info mpi_info = MPI_INFO_NULL;
- hid_t fid = -1;
- hid_t sid = -1;
- hid_t dataset = -1;
- hid_t data_type = H5T_NATIVE_INT;
- hid_t fapl_write = -1;
- hid_t fapl_read = -1;
- hid_t dcpl = -1;
- hid_t dxpl = -1;
- hsize_t dims[MAX_RANK];
- hid_t mem_space = -1;
- hid_t file_space = -1;
- hsize_t chunk_dims[MAX_RANK];
- herr_t ret;
-#ifdef LATER /* fletcher32 */
- H5Z_filter_t filter_info;
-#endif /* LATER */
- char message[256];
-
- /* Set up MPI parameters */
- MPI_Comm_size(test_comm, &mpi_size);
- MPI_Comm_rank(test_comm, &mpi_rank);
-
- MPI_Barrier(test_comm);
-
- HDassert(mpi_size >= 1);
-
- mpi_comm = test_comm;
- mpi_info = MPI_INFO_NULL;
-
- /* Create the dataset creation plist */
- dcpl = H5Pcreate(H5P_DATASET_CREATE);
- VRFY((dcpl >= 0), "dataset creation plist created successfully");
-
- if (selection_mode == TEST_FILTERS_READ ) {
-#ifdef LATER /* fletcher32 */
- ret = H5Zfilter_avail(H5Z_FILTER_FLETCHER32);
- VRFY ((ret >=0 ), "Fletcher32 filter is available.\n");
-
- ret = H5Zget_filter_info (H5Z_FILTER_FLETCHER32, (unsigned int *) &filter_info);
- VRFY ( ( (filter_info & H5Z_FILTER_CONFIG_ENCODE_ENABLED) || (filter_info & H5Z_FILTER_CONFIG_DECODE_ENABLED) ) , "Fletcher32 filter encoding and decoding available.\n");
-
- ret = H5Pset_fletcher32(dcpl);
- VRFY((ret >= 0),"set filter (flecher32) succeeded");
-#endif /* LATER */
- }
- else {
- VRFY(0, "Unexpected mode, only test for TEST_FILTERS_READ.");
- }
-
- /* Create the basic Space */
- dims[0] = dim0;
- dims[1] = dim1;
- sid = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
-
- filename = (const char *)GetTestParameters();
- HDassert(filename != NULL);
-
- /* Setup the file access template */
- fapl_write = create_faccess_plist(mpi_comm, mpi_info, FACC_DEFAULT);
- VRFY((fapl_write >= 0), "create_faccess_plist() succeeded");
-
- fid = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl_write);
- VRFY((fid >= 0), "H5Fcreate succeeded");
-
- /* If we are not testing contiguous datasets */
- if(is_chunked) {
- /* Set up chunk information. */
- chunk_dims[0] = dims[0]/mpi_size;
- chunk_dims[1] = dims[1];
- ret = H5Pset_chunk(dcpl, 2, chunk_dims);
- VRFY((ret >= 0),"chunk creation property list succeeded");
- }
-
-
- /* Create the dataset */
- dataset = H5Dcreate2(fid, DSET_NOCOLCAUSE, data_type, sid, H5P_DEFAULT, dcpl, H5P_DEFAULT);
- VRFY((dataset >= 0), "H5Dcreate2() dataset succeeded");
-
-#ifdef LATER /* fletcher32 */
- /* Set expected cause */
- test_name = "Broken Collective I/O - Filter is required";
- no_collective_cause_local_expected = H5D_MPIO_FILTERS;
- no_collective_cause_global_expected = H5D_MPIO_FILTERS;
-#endif /* LATER */
-
- /* Get the file dataspace */
- file_space = H5Dget_space(dataset);
- VRFY((file_space >= 0), "H5Dget_space succeeded");
-
- /* Create the memory dataspace */
- mem_space = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((mem_space >= 0), "mem_space created");
-
- /* Get the number of elements in the selection */
- length = dim0 * dim1;
-
- /* Allocate and initialize the buffer */
- buffer = (int *)HDmalloc(sizeof(int) * length);
- VRFY((buffer != NULL), "HDmalloc of buffer succeeded");
- for(i = 0; i < length; i++)
- buffer[i] = i;
-
- /* Set up the dxpl for the write */
- dxpl = H5Pcreate(H5P_DATASET_XFER);
- VRFY((dxpl >= 0), "H5Pcreate(H5P_DATASET_XFER) succeeded");
-
- if (selection_mode == TEST_FILTERS_READ) {
- /* To test read in collective I/O mode , write in independent mode
- * because write fails with mpio + filter */
- ret = H5Pset_dxpl_mpio(dxpl, H5FD_MPIO_INDEPENDENT);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- }
- else {
- /* To test write in collective I/O mode. */
- ret = H5Pset_dxpl_mpio(dxpl, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
- }
-
-
- /* Write */
- ret = H5Dwrite(dataset, data_type, mem_space, file_space, dxpl, buffer);
-
- if(ret < 0) H5Eprint2(H5E_DEFAULT, stdout);
- VRFY((ret >= 0), "H5Dwrite() dataset multichunk write succeeded");
-
-
- /* Make a copy of the dxpl to test the read operation */
- dxpl = H5Pcopy(dxpl);
- VRFY((dxpl >= 0), "H5Pcopy succeeded");
-
- if (dataset)
- H5Dclose(dataset);
- if (fapl_write)
- H5Pclose(fapl_write);
- if (fid)
- H5Fclose(fid);
-
-
- /*---------------------
- * Test Read access
- *---------------------*/
-
- /* Setup the file access template */
- fapl_read = create_faccess_plist(mpi_comm, mpi_info, facc_type);
- VRFY((fapl_read >= 0), "create_faccess_plist() succeeded");
-
- fid = H5Fopen (filename, H5F_ACC_RDONLY, fapl_read);
- dataset = H5Dopen2 (fid, DSET_NOCOLCAUSE, H5P_DEFAULT);
-
- /* Set collective I/O properties in the dxpl. */
- ret = H5Pset_dxpl_mpio(dxpl, H5FD_MPIO_COLLECTIVE);
- VRFY((ret >= 0), "H5Pset_dxpl_mpio succeeded");
-
- /* Read */
- ret = H5Dread(dataset, data_type, mem_space, file_space, dxpl, buffer);
-
- if(ret < 0) H5Eprint2(H5E_DEFAULT, stdout);
- VRFY((ret >= 0), "H5Dread() dataset multichunk read succeeded");
-
- /* Get the cause of broken collective I/O */
- ret = H5Pget_mpio_no_collective_cause (dxpl, &no_collective_cause_local_read, &no_collective_cause_global_read);
- VRFY((ret >= 0), "retriving no collective cause succeeded" );
-
- /* Test values */
- HDmemset (message, 0, sizeof (message));
- HDsprintf(message, "Local cause of Broken Collective I/O has the correct value for %s.\n",test_name);
- VRFY((no_collective_cause_local_read == (uint32_t)no_collective_cause_local_expected), message);
- HDmemset (message, 0, sizeof (message));
- HDsprintf(message, "Global cause of Broken Collective I/O has the correct value for %s.\n",test_name);
- VRFY((no_collective_cause_global_read == (uint32_t)no_collective_cause_global_expected), message);
-
- /* Release some resources */
- if (sid)
- H5Sclose(sid);
- if (fapl_read)
- H5Pclose(fapl_read);
- if (dcpl)
- H5Pclose(dcpl);
- if (dxpl)
- H5Pclose(dxpl);
- if (dataset)
- H5Dclose(dataset);
- if (mem_space)
- H5Sclose(mem_space);
- if (file_space)
- H5Sclose(file_space);
- if (fid)
- H5Fclose(fid);
- HDfree(buffer);
- return;
-}
-#endif
-
-/* Function: no_collective_cause_tests
- *
- * Purpose: Tests cases for broken collective IO.
- *
- * Programmer: Jonathan Kim
- * Date: Aug, 2012
- */
-void
-no_collective_cause_tests(void)
-{
- /*
- * Test individual cause
- */
- test_no_collective_cause_mode (TEST_COLLECTIVE);
- test_no_collective_cause_mode (TEST_SET_INDEPENDENT);
- test_no_collective_cause_mode (TEST_DATATYPE_CONVERSION);
- test_no_collective_cause_mode (TEST_DATA_TRANSFORMS);
- test_no_collective_cause_mode (TEST_NOT_SIMPLE_OR_SCALAR_DATASPACES);
- test_no_collective_cause_mode (TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_COMPACT);
- test_no_collective_cause_mode (TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL);
-#ifdef LATER /* fletcher32 */
- /* TODO: use this instead of below TEST_FILTERS_READ when H5Dcreate and
- * H5Dwrite is ready for mpio + filter feature.
- */
- /* test_no_collective_cause_mode (TEST_FILTERS); */
- test_no_collective_cause_mode_filter (TEST_FILTERS_READ);
-#endif /* LATER */
-
- /*
- * Test combined causes
- */
- test_no_collective_cause_mode (TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL | TEST_DATATYPE_CONVERSION);
- test_no_collective_cause_mode (TEST_DATATYPE_CONVERSION | TEST_DATA_TRANSFORMS);
- test_no_collective_cause_mode (TEST_NOT_CONTIGUOUS_OR_CHUNKED_DATASET_EXTERNAL | TEST_DATATYPE_CONVERSION | TEST_DATA_TRANSFORMS);
-
- return;
-}
-
-/*
- * Test consistency semantics of atomic mode
- */
-
-/*
- * Example of using the parallel HDF5 library to create a dataset,
- * where process 0 writes and the other processes read at the same
- * time. If atomic mode is set correctly, the other processes should
- * read the old values in the dataset or the new ones.
- */
-
-void
-dataset_atomicity(void)
-{
- hid_t fid; /* HDF5 file ID */
- hid_t acc_tpl; /* File access templates */
- hid_t sid; /* Dataspace ID */
- hid_t dataset1; /* Dataset IDs */
- hsize_t dims[MAX_RANK]; /* dataset dim sizes */
- int *write_buf = NULL; /* data buffer */
- int *read_buf = NULL; /* data buffer */
- int buf_size;
- hid_t dataset2;
- hid_t file_dataspace; /* File dataspace ID */
- hid_t mem_dataspace; /* Memory dataspace ID */
- hsize_t start[MAX_RANK];
- hsize_t stride[MAX_RANK];
- hsize_t count[MAX_RANK];
- hsize_t block[MAX_RANK];
- const char *filename;
- herr_t ret; /* Generic return value */
- int mpi_size, mpi_rank;
- int i, j, k;
- hbool_t atomicity = FALSE;
- MPI_Comm comm = test_comm;
- MPI_Info info = MPI_INFO_NULL;
-
- dim0 = 64; dim1 = 32;
- filename = GetTestParameters();
- if (facc_type != FACC_MPIO) {
- HDprintf("Atomicity tests will not work without the MPIO VFD\n");
- return;
- }
- if(VERBOSE_MED)
- HDprintf("atomic writes to file %s\n", filename);
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- buf_size = dim0 * dim1;
- /* allocate memory for data buffer */
- write_buf = (int *)HDcalloc(buf_size, sizeof(int));
- VRFY((write_buf != NULL), "write_buf HDcalloc succeeded");
- /* allocate memory for data buffer */
- read_buf = (int *)HDcalloc(buf_size, sizeof(int));
- VRFY((read_buf != NULL), "read_buf HDcalloc succeeded");
-
- /* 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), "H5Pclose succeeded");
-
- /* setup dimensionality object */
- dims[0] = dim0;
- dims[1] = dim1;
- sid = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((sid >= 0), "H5Screate_simple succeeded");
-
- /* create datasets */
- dataset1 = H5Dcreate2(fid, DATASETNAME5, H5T_NATIVE_INT, sid,
- H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dcreate2 succeeded");
-
- dataset2 = H5Dcreate2(fid, DATASETNAME6, H5T_NATIVE_INT, sid,
- H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dcreate2 succeeded");
-
- /* initialize datasets to 0s */
- if (0 == mpi_rank) {
- ret = H5Dwrite(dataset1, H5T_NATIVE_INT, H5S_ALL, H5S_ALL,
- H5P_DEFAULT, write_buf);
- VRFY((ret >= 0), "H5Dwrite dataset1 succeeded");
-
- ret = H5Dwrite(dataset2, H5T_NATIVE_INT, H5S_ALL, H5S_ALL,
- H5P_DEFAULT, write_buf);
- VRFY((ret >= 0), "H5Dwrite dataset2 succeeded");
- }
-
- ret = H5Dclose(dataset1);
- VRFY((ret >= 0), "H5Dclose succeeded");
- ret = H5Dclose(dataset2);
- VRFY((ret >= 0), "H5Dclose succeeded");
- ret = H5Sclose(sid);
- VRFY((ret >= 0), "H5Sclose succeeded");
- ret = H5Fclose(fid);
- VRFY((ret >= 0), "H5Fclose succeeded");
-
- MPI_Barrier (comm);
-
- /* make sure setting atomicity fails on a serial file ID */
- /* file locking allows only one file open (serial) for writing */
- if(MAINPROCESS){
- fid=H5Fopen(filename,H5F_ACC_RDWR,H5P_DEFAULT);
- VRFY((fid >= 0), "H5Fopen succeeed");
- }
-
- /* should fail */
- ret = H5Fset_mpi_atomicity(fid , TRUE);
- VRFY((ret == FAIL), "H5Fset_mpi_atomicity failed");
-
- if(MAINPROCESS){
- ret = H5Fclose(fid);
- VRFY((ret >= 0), "H5Fclose succeeded");
- }
-
- MPI_Barrier (comm);
-
- /* 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_RDWR,acc_tpl);
- VRFY((fid >= 0), "H5Fopen succeeded");
-
- /* Release file-access template */
- ret = H5Pclose(acc_tpl);
- VRFY((ret >= 0), "H5Pclose succeeded");
-
- ret = H5Fset_mpi_atomicity(fid , TRUE);
- VRFY((ret >= 0), "H5Fset_mpi_atomicity succeeded");
-
- /* open dataset1 (contiguous case) */
- dataset1 = H5Dopen2(fid, DATASETNAME5, H5P_DEFAULT);
- VRFY((dataset1 >= 0), "H5Dopen2 succeeded");
-
- if (0 == mpi_rank) {
- for (i=0 ; i<buf_size ; i++) {
- write_buf[i] = 5;
- }
- }
- else {
- for (i=0 ; i<buf_size ; i++) {
- read_buf[i] = 8;
- }
- }
-
- /* check that the atomicity flag is set */
- ret = H5Fget_mpi_atomicity(fid , &atomicity);
- VRFY((ret >= 0), "atomcity get failed");
- VRFY((atomicity == TRUE), "atomcity set failed");
-
- MPI_Barrier (comm);
-
- /* Process 0 writes contiguously to the entire dataset */
- if (0 == mpi_rank) {
- ret = H5Dwrite(dataset1, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, write_buf);
- VRFY((ret >= 0), "H5Dwrite dataset1 succeeded");
- }
- /* The other processes read the entire dataset */
- else {
- ret = H5Dread(dataset1, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, read_buf);
- VRFY((ret >= 0), "H5Dwrite() dataset multichunk write succeeded");
- }
-
- if(VERBOSE_MED) {
- i=0;j=0;k=0;
- for (i=0 ; i<dim0 ; i++) {
- HDprintf ("\n");
- for (j=0 ; j<dim1 ; j++)
- HDprintf ("%d ", read_buf[k++]);
- }
- }
-
- /* The processes that read the dataset must either read all values
- as 0 (read happened before process 0 wrote to dataset 1), or 5
- (read happened after process 0 wrote to dataset 1) */
- if (0 != mpi_rank) {
- int compare = read_buf[0];
-
- VRFY((compare == 0 || compare == 5),
- "Atomicity Test Failed Process %d: Value read should be 0 or 5\n");
- for (i=1; i<buf_size; i++) {
- if (read_buf[i] != compare) {
- HDprintf("Atomicity Test Failed Process %d: read_buf[%d] is %d, should be %d\n", mpi_rank, i, read_buf[i], compare);
- nerrors ++;
- }
- }
- }
-
- ret = H5Dclose(dataset1);
- VRFY((ret >= 0), "H5D close succeeded");
-
- /* release data buffers */
- if(write_buf) HDfree(write_buf);
- if(read_buf) HDfree(read_buf);
-
- /* open dataset2 (non-contiguous case) */
- dataset2 = H5Dopen2(fid, DATASETNAME6, H5P_DEFAULT);
- VRFY((dataset2 >= 0), "H5Dopen2 succeeded");
-
- /* allocate memory for data buffer */
- write_buf = (int *)HDcalloc(buf_size, sizeof(int));
- VRFY((write_buf != NULL), "write_buf HDcalloc succeeded");
- /* allocate memory for data buffer */
- read_buf = (int *)HDcalloc(buf_size, sizeof(int));
- VRFY((read_buf != NULL), "read_buf HDcalloc succeeded");
-
- for (i=0 ; i<buf_size ; i++) {
- write_buf[i] = 5;
- }
- for (i=0 ; i<buf_size ; i++) {
- read_buf[i] = 8;
- }
-
- atomicity = FALSE;
- /* check that the atomicity flag is set */
- ret = H5Fget_mpi_atomicity(fid , &atomicity);
- VRFY((ret >= 0), "atomcity get failed");
- VRFY((atomicity == TRUE), "atomcity set failed");
-
-
- block[0] = dim0/mpi_size - 1;
- block[1] = dim1/mpi_size - 1;
- stride[0] = block[0] + 1;
- stride[1] = block[1] + 1;
- count[0] = mpi_size;
- count[1] = mpi_size;
- start[0] = 0;
- start[1] = 0;
-
- /* create a file dataspace */
- 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");
-
- /* create a memory dataspace */
- mem_dataspace = H5Screate_simple (MAX_RANK, dims, NULL);
- VRFY((mem_dataspace >= 0), "");
-
- ret = H5Sselect_hyperslab(mem_dataspace, H5S_SELECT_SET, start, stride, count, block);
- VRFY((ret >= 0), "H5Sset_hyperslab succeeded");
-
- MPI_Barrier (comm);
-
- /* Process 0 writes to the dataset */
- if (0 == mpi_rank) {
- ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, write_buf);
- VRFY((ret >= 0), "H5Dwrite dataset2 succeeded");
- }
- /* All processes wait for the write to finish. This works because
- atomicity is set to true */
- MPI_Barrier (comm);
- /* The other processes read the entire dataset */
- if (0 != mpi_rank) {
- ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace,
- H5P_DEFAULT, read_buf);
- VRFY((ret >= 0), "H5Dread dataset2 succeeded");
- }
-
- if(VERBOSE_MED) {
- if (mpi_rank == 1) {
- i=0;j=0;k=0;
- for (i=0 ; i<dim0 ; i++) {
- HDprintf ("\n");
- for (j=0 ; j<dim1 ; j++)
- HDprintf ("%d ", read_buf[k++]);
- }
- HDprintf ("\n");
- }
- }
-
- /* The processes that read the dataset must either read all values
- as 5 (read happened after process 0 wrote to dataset 1) */
- if (0 != mpi_rank) {
- int compare;
- i=0;j=0;k=0;
-
- compare = 5;
-
- for (i=0 ; i<dim0 ; i++) {
- if ((hsize_t)i >= mpi_rank*(block[0]+1)) {
- break;
- }
- if ((i+1)%(block[0]+1)==0) {
- k += dim1;
- continue;
- }
- for (j=0 ; j<dim1 ; j++) {
- if ((hsize_t)j >= mpi_rank*(block[1]+1)) {
- k += dim1 - mpi_rank*(block[1]+1);
- break;
- }
- if ((j+1)%(block[1]+1)==0) {
- k++;
- continue;
- }
- else if (compare != read_buf[k]) {
- HDprintf("Atomicity Test Failed Process %d: read_buf[%d] is %d, should be %d\n", mpi_rank, k, read_buf[k], compare);
- nerrors++;
- }
- k ++;
- }
- }
- }
-
- ret = H5Dclose(dataset2);
- VRFY((ret >= 0), "H5Dclose succeeded");
- ret = H5Sclose(file_dataspace);
- VRFY((ret >= 0), "H5Sclose succeeded");
- ret = H5Sclose(mem_dataspace);
- VRFY((ret >= 0), "H5Sclose succeeded");
-
- /* release data buffers */
- if(write_buf) HDfree(write_buf);
- if(read_buf) HDfree(read_buf);
-
- ret = H5Fclose(fid);
- VRFY((ret >= 0), "H5Fclose succeeded");
-
-}
-
-/* Function: dense_attr_test
- *
- * Purpose: Test cases for writing dense attributes in parallel
- *
- * Programmer: Quincey Koziol
- * Date: April, 2013
- */
-void
-test_dense_attr(void)
-{
- int mpi_size, mpi_rank;
- hid_t fpid, fid;
- hid_t gid, gpid;
- hid_t atFileSpace, atid;
- hsize_t atDims[1] = {10000};
- herr_t status;
- const char *filename;
-
- /* get filename */
- filename = (const char *)GetTestParameters();
- HDassert( filename != NULL );
-
- /* set up MPI parameters */
- MPI_Comm_size(test_comm,&mpi_size);
- MPI_Comm_rank(test_comm,&mpi_rank);
-
- fpid = H5Pcreate(H5P_FILE_ACCESS);
- VRFY((fpid > 0), "H5Pcreate succeeded");
- status = H5Pset_libver_bounds(fpid, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST);
- VRFY((status >= 0), "H5Pset_libver_bounds succeeded");
- status = H5Pset_fapl_mpio(fpid, test_comm, MPI_INFO_NULL);
- VRFY((status >= 0), "H5Pset_fapl_mpio succeeded");
- fid = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fpid);
- VRFY((fid > 0), "H5Fcreate succeeded");
- status = H5Pclose(fpid);
- VRFY((status >= 0), "H5Pclose succeeded");
-
- gpid = H5Pcreate(H5P_GROUP_CREATE);
- VRFY((gpid > 0), "H5Pcreate succeeded");
- status = H5Pset_attr_phase_change(gpid, 0, 0);
- VRFY((status >= 0), "H5Pset_attr_phase_change succeeded");
- gid = H5Gcreate2(fid, "foo", H5P_DEFAULT, gpid, H5P_DEFAULT);
- VRFY((gid > 0), "H5Gcreate2 succeeded");
- status = H5Pclose(gpid);
- VRFY((status >= 0), "H5Pclose succeeded");
-
- atFileSpace = H5Screate_simple(1, atDims, NULL);
- VRFY((atFileSpace > 0), "H5Screate_simple succeeded");
- atid = H5Acreate2(gid, "bar", H5T_STD_U64LE, atFileSpace, H5P_DEFAULT, H5P_DEFAULT);
- VRFY((atid > 0), "H5Acreate succeeded");
- status = H5Sclose(atFileSpace);
- VRFY((status >= 0), "H5Sclose succeeded");
-
- status = H5Aclose(atid);
- VRFY((status >= 0), "H5Aclose succeeded");
-
- status = H5Gclose(gid);
- VRFY((status >= 0), "H5Gclose succeeded");
- status = H5Fclose(fid);
- VRFY((status >= 0), "H5Fclose succeeded");
-
- return;
-}
-
-
-int
-main(int argc, char **argv)
-{
- int express_test;
- int mpi_size, mpi_rank; /* mpi variables */
- hsize_t oldsize, newsize = 1048576;
-
-#ifndef H5_HAVE_WIN32_API
- /* Un-buffer the stdout and stderr */
- HDsetbuf(stderr, NULL);
- HDsetbuf(stdout, NULL);
-#endif
-
-
- MPI_Init(&argc, &argv);
- MPI_Comm_size(test_comm, &mpi_size);
- MPI_Comm_rank(test_comm, &mpi_rank);
-
- dim0 = BIG_X_FACTOR;
- dim1 = BIG_Y_FACTOR;
- dim2 = BIG_Z_FACTOR;
-
- if (MAINPROCESS){
- HDprintf("===================================\n");
- HDprintf("2 GByte IO TESTS START\n");
- HDprintf("2 MPI ranks will run the tests...\n");
- HDprintf("===================================\n");
- h5_show_hostname();
- }
-
- if (H5dont_atexit() < 0){
- HDprintf("Failed to turn off atexit processing. Continue.\n");
- };
- H5open();
- /* Set the internal transition size to allow use of derived datatypes
- * without having to actually read or write large datasets (>2GB).
- */
- oldsize = H5_mpi_set_bigio_count(newsize);
-
- if (mpi_size > 2) {
- int rank_color = 0;
- if (mpi_rank >= 2) rank_color = 1;
- if (MPI_Comm_split(test_comm, rank_color, mpi_rank, &test_comm) != MPI_SUCCESS) {
- HDprintf("MPI returned an error. Exiting\n");
- }
- }
-
- /* Initialize testing framework */
- if (mpi_rank < 2) {
- TestInit(argv[0], usage, parse_options);
-
- /* Parse command line arguments */
- TestParseCmdLine(argc, argv);
-
- AddTest("idsetw", dataset_writeInd, NULL,
- "dataset independent write", PARATESTFILE);
-
- AddTest("idsetr", dataset_readInd, NULL,
- "dataset independent read", PARATESTFILE);
-
- AddTest("cdsetw", dataset_writeAll, NULL,
- "dataset collective write", PARATESTFILE);
-
- AddTest("cdsetr", dataset_readAll, NULL,
- "dataset collective read", PARATESTFILE);
-
- AddTest("eidsetw2", extend_writeInd2, NULL,
- "extendible dataset independent write #2", PARATESTFILE);
-
- AddTest("selnone", none_selection_chunk, NULL,
- "chunked dataset with none-selection", PARATESTFILE);
-
-#ifdef H5_HAVE_FILTER_DEFLATE
- AddTest("cmpdsetr", compress_readAll, NULL,
- "compressed dataset collective read", PARATESTFILE);
-#endif /* H5_HAVE_FILTER_DEFLATE */
-
- /* Display testing information */
- if (MAINPROCESS)
- TestInfo(argv[0]);
-
- /* setup file access property list */
- fapl = H5Pcreate (H5P_FILE_ACCESS);
- H5Pset_fapl_mpio(fapl, test_comm, MPI_INFO_NULL);
-
- /* Perform requested testing */
- PerformTests();
- }
-
- MPI_Barrier(MPI_COMM_WORLD);
-
- /* Restore the default bigio setting */
- H5_mpi_set_bigio_count(oldsize);
-
- express_test = GetTestExpress();
- if ((express_test == 0) && (mpi_rank < 2)) {
- MpioTest2G(test_comm);
- }
-
- MPI_Barrier(MPI_COMM_WORLD);
-
- if (mpi_rank == 0)
- HDremove(FILENAME[0]);
-
- H5close();
- if (test_comm != MPI_COMM_WORLD) {
- MPI_Comm_free(&test_comm);
- }
- MPI_Finalize();
- return 0;
-}