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508 lines
21 KiB
C
508 lines
21 KiB
C
/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
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* Copyright by The HDF Group. *
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* All rights reserved. *
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* *
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* This file is part of HDF5. The full HDF5 copyright notice, including *
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* terms governing use, modification, and redistribution, is contained in *
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* the COPYING file, which can be found at the root of the source code *
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* distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases. *
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* If you do not have access to either file, you may request a copy from *
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* help@hdfgroup.org. *
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* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
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/*
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* A test suite to test HDF5's collective metadata read capabilities, as enabled
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* by making a call to H5Pset_all_coll_metadata_ops().
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*/
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#include "testphdf5.h"
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#include <stdio.h>
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#include <stdlib.h>
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#include <string.h>
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/*
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* Define the non-participating process as the "last"
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* rank to avoid any weirdness potentially caused by
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* an if (mpi_rank == 0) check.
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*/
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#define PARTIAL_NO_SELECTION_NO_SEL_PROCESS (mpi_rank == mpi_size - 1)
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#define PARTIAL_NO_SELECTION_DATASET_NAME "partial_no_selection_dset"
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#define PARTIAL_NO_SELECTION_DATASET_NDIMS 2
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#define PARTIAL_NO_SELECTION_Y_DIM_SCALE 5
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#define PARTIAL_NO_SELECTION_X_DIM_SCALE 5
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#define MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS 2
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#define LINK_CHUNK_IO_SORT_CHUNK_ISSUE_NO_SEL_PROCESS (mpi_rank == mpi_size - 1)
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#define LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DATASET_NAME "linked_chunk_io_sort_chunk_issue"
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#define LINK_CHUNK_IO_SORT_CHUNK_ISSUE_Y_DIM_SCALE 20000
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#define LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE 1
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#define LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS 1
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/*
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* A test for issue HDFFV-10501. A parallel hang was reported which occurred
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* in linked-chunk I/O when collective metadata reads are enabled and some ranks
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* do not have any selection in a dataset's dataspace, while others do. The ranks
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* which have no selection during the read/write operation called H5D__chunk_addrmap()
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* to retrieve the lowest chunk address, since we require that the read/write be done
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* in strictly non-decreasing order of chunk address. For version 1 and 2 B-trees,
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* this caused the non-participating ranks to issue a collective MPI_Bcast() call
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* which the other ranks did not issue, thus causing a hang.
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*
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* However, since these ranks are not actually reading/writing anything, this call
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* can simply be removed and the address used for the read/write can be set to an
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* arbitrary number (0 was chosen).
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*/
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void test_partial_no_selection_coll_md_read(void)
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{
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const char *filename;
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hsize_t *dataset_dims = NULL;
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hsize_t max_dataset_dims[PARTIAL_NO_SELECTION_DATASET_NDIMS];
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hsize_t sel_dims[1];
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hsize_t chunk_dims[PARTIAL_NO_SELECTION_DATASET_NDIMS] = { PARTIAL_NO_SELECTION_Y_DIM_SCALE, PARTIAL_NO_SELECTION_X_DIM_SCALE };
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hsize_t start[PARTIAL_NO_SELECTION_DATASET_NDIMS];
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hsize_t stride[PARTIAL_NO_SELECTION_DATASET_NDIMS];
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hsize_t count[PARTIAL_NO_SELECTION_DATASET_NDIMS];
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hsize_t block[PARTIAL_NO_SELECTION_DATASET_NDIMS];
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hid_t file_id = H5I_INVALID_HID;
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hid_t fapl_id = H5I_INVALID_HID;
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hid_t dset_id = H5I_INVALID_HID;
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hid_t dcpl_id = H5I_INVALID_HID;
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hid_t dxpl_id = H5I_INVALID_HID;
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hid_t fspace_id = H5I_INVALID_HID;
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hid_t mspace_id = H5I_INVALID_HID;
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int mpi_rank, mpi_size;
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void *data = NULL;
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void *read_buf = NULL;
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MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
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MPI_Comm_size(MPI_COMM_WORLD, &mpi_size);
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filename = GetTestParameters();
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fapl_id = create_faccess_plist(MPI_COMM_WORLD, MPI_INFO_NULL, facc_type);
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VRFY((fapl_id >= 0), "create_faccess_plist succeeded");
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/*
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* Even though the testphdf5 framework currently sets collective metadata reads
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* on the FAPL, we call it here just to be sure this is futureproof, since
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* demonstrating this issue relies upon it.
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*/
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VRFY((H5Pset_all_coll_metadata_ops(fapl_id, true) >= 0), "Set collective metadata reads succeeded");
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file_id = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl_id);
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VRFY((file_id >= 0), "H5Fcreate succeeded");
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dataset_dims = HDmalloc(PARTIAL_NO_SELECTION_DATASET_NDIMS * sizeof(*dataset_dims));
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VRFY((dataset_dims != NULL), "malloc succeeded");
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dataset_dims[0] = PARTIAL_NO_SELECTION_Y_DIM_SCALE * mpi_size;
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dataset_dims[1] = PARTIAL_NO_SELECTION_X_DIM_SCALE * mpi_size;
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max_dataset_dims[0] = H5S_UNLIMITED;
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max_dataset_dims[1] = H5S_UNLIMITED;
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fspace_id = H5Screate_simple(PARTIAL_NO_SELECTION_DATASET_NDIMS, dataset_dims, max_dataset_dims);
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VRFY((fspace_id >= 0), "H5Screate_simple succeeded");
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/*
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* Set up chunking on the dataset in order to reproduce the problem.
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*/
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dcpl_id = H5Pcreate(H5P_DATASET_CREATE);
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VRFY((dcpl_id >= 0), "H5Pcreate succeeded");
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VRFY((H5Pset_chunk(dcpl_id, PARTIAL_NO_SELECTION_DATASET_NDIMS, chunk_dims) >= 0), "H5Pset_chunk succeeded");
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dset_id = H5Dcreate2(file_id, PARTIAL_NO_SELECTION_DATASET_NAME, H5T_NATIVE_INT, fspace_id, H5P_DEFAULT, dcpl_id, H5P_DEFAULT);
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VRFY((dset_id >= 0), "H5Dcreate2 succeeded");
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/*
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* Setup hyperslab selection to split the dataset among the ranks.
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*
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* The ranks will write rows across the dataset.
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*/
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start[0] = PARTIAL_NO_SELECTION_Y_DIM_SCALE * mpi_rank;
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start[1] = 0;
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stride[0] = PARTIAL_NO_SELECTION_Y_DIM_SCALE;
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stride[1] = PARTIAL_NO_SELECTION_X_DIM_SCALE;
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count[0] = 1;
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count[1] = mpi_size;
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block[0] = PARTIAL_NO_SELECTION_Y_DIM_SCALE;
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block[1] = PARTIAL_NO_SELECTION_X_DIM_SCALE;
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VRFY((H5Sselect_hyperslab(fspace_id, H5S_SELECT_SET, start, stride, count, block) >= 0), "H5Sselect_hyperslab succeeded");
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sel_dims[0] = count[1] * (PARTIAL_NO_SELECTION_Y_DIM_SCALE * PARTIAL_NO_SELECTION_X_DIM_SCALE);
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mspace_id = H5Screate_simple(1, sel_dims, NULL);
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VRFY((mspace_id >= 0), "H5Screate_simple succeeded");
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data = HDcalloc(1, count[1] * (PARTIAL_NO_SELECTION_Y_DIM_SCALE * PARTIAL_NO_SELECTION_X_DIM_SCALE) * sizeof(int));
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VRFY((data != NULL), "calloc succeeded");
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dxpl_id = H5Pcreate(H5P_DATASET_XFER);
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VRFY((dxpl_id >= 0), "H5Pcreate succeeded");
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/*
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* Enable collective access for the data transfer.
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*/
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VRFY((H5Pset_dxpl_mpio(dxpl_id, H5FD_MPIO_COLLECTIVE) >= 0), "H5Pset_dxpl_mpio succeeded");
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VRFY((H5Dwrite(dset_id, H5T_NATIVE_INT, mspace_id, fspace_id, dxpl_id, data) >= 0), "H5Dwrite succeeded");
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VRFY((H5Fflush(file_id, H5F_SCOPE_GLOBAL) >= 0), "H5Fflush succeeded");
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/*
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* Ensure that linked-chunk I/O is performed since this is
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* the particular code path where the issue lies and we don't
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* want the library doing multi-chunk I/O behind our backs.
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*/
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VRFY((H5Pset_dxpl_mpio_chunk_opt(dxpl_id, H5FD_MPIO_CHUNK_ONE_IO) >= 0), "H5Pset_dxpl_mpio_chunk_opt succeeded");
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read_buf = HDmalloc(count[1] * (PARTIAL_NO_SELECTION_Y_DIM_SCALE * PARTIAL_NO_SELECTION_X_DIM_SCALE) * sizeof(int));
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VRFY((read_buf != NULL), "malloc succeeded");
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/*
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* Make sure to call H5Sselect_none() on the non-participating process.
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*/
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if (PARTIAL_NO_SELECTION_NO_SEL_PROCESS) {
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VRFY((H5Sselect_none(fspace_id) >= 0), "H5Sselect_none succeeded");
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VRFY((H5Sselect_none(mspace_id) >= 0), "H5Sselect_none succeeded");
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}
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/*
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* Finally have each rank read their section of data back from the dataset.
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*/
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VRFY((H5Dread(dset_id, H5T_NATIVE_INT, mspace_id, fspace_id, dxpl_id, read_buf) >= 0), "H5Dread succeeded");
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/*
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* Check data integrity just to be sure.
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*/
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if (!PARTIAL_NO_SELECTION_NO_SEL_PROCESS) {
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VRFY((!HDmemcmp(data, read_buf, count[1] * (PARTIAL_NO_SELECTION_Y_DIM_SCALE * PARTIAL_NO_SELECTION_X_DIM_SCALE) * sizeof(int))), "memcmp succeeded");
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}
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if (dataset_dims) {
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HDfree(dataset_dims);
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dataset_dims = NULL;
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}
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if (data) {
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HDfree(data);
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data = NULL;
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}
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if (read_buf) {
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HDfree(read_buf);
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read_buf = NULL;
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}
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VRFY((H5Sclose(fspace_id) >= 0), "H5Sclose succeeded");
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VRFY((H5Sclose(mspace_id) >= 0), "H5Sclose succeeded");
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VRFY((H5Pclose(dcpl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Pclose(dxpl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Dclose(dset_id) >= 0), "H5Dclose succeeded");
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VRFY((H5Pclose(fapl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Fclose(file_id) >= 0), "H5Fclose succeeded");
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}
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/*
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* A test for HDFFV-10562 which attempts to verify that using multi-chunk
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* I/O with collective metadata reads enabled doesn't causes issues due to
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* collective metadata reads being made only by process 0 in H5D__chunk_addrmap().
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*
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* Failure in this test may either cause a hang, or, due to how the MPI calls
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* pertaining to this issue might mistakenly match up, may cause an MPI error
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* message similar to:
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*
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* #008: H5Dmpio.c line 2546 in H5D__obtain_mpio_mode(): MPI_BCast failed
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* major: Internal error (too specific to document in detail)
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* minor: Some MPI function failed
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* #009: H5Dmpio.c line 2546 in H5D__obtain_mpio_mode(): Message truncated, error stack:
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*PMPI_Bcast(1600)..................: MPI_Bcast(buf=0x1df98e0, count=18, MPI_BYTE, root=0, comm=0x84000006) failed
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*MPIR_Bcast_impl(1452).............:
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*MPIR_Bcast(1476)..................:
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*MPIR_Bcast_intra(1249)............:
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*MPIR_SMP_Bcast(1088)..............:
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*MPIR_Bcast_binomial(239)..........:
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*MPIDI_CH3U_Receive_data_found(131): Message from rank 0 and tag 2 truncated; 2616 bytes received but buffer size is 18
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* major: Internal error (too specific to document in detail)
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* minor: MPI Error String
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*
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*/
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void test_multi_chunk_io_addrmap_issue(void)
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{
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const char *filename;
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hsize_t start[MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS];
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hsize_t stride[MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS];
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hsize_t count[MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS];
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hsize_t block[MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS];
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hsize_t dims[MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS] = {10, 5};
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hsize_t chunk_dims[MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS] = {5, 5};
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hsize_t max_dims[MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS] = {H5S_UNLIMITED, H5S_UNLIMITED};
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hid_t file_id = H5I_INVALID_HID;
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hid_t fapl_id = H5I_INVALID_HID;
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hid_t dset_id = H5I_INVALID_HID;
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hid_t dcpl_id = H5I_INVALID_HID;
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hid_t dxpl_id = H5I_INVALID_HID;
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hid_t space_id = H5I_INVALID_HID;
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void *read_buf = NULL;
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int mpi_rank;
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int data[5][5] = { {0, 1, 2, 3, 4},
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{0, 1, 2, 3, 4},
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{0, 1, 2, 3, 4},
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{0, 1, 2, 3, 4},
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{0, 1, 2, 3, 4} };
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MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
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filename = GetTestParameters();
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fapl_id = create_faccess_plist(MPI_COMM_WORLD, MPI_INFO_NULL, facc_type);
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VRFY((fapl_id >= 0), "create_faccess_plist succeeded");
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/*
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* Even though the testphdf5 framework currently sets collective metadata reads
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* on the FAPL, we call it here just to be sure this is futureproof, since
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* demonstrating this issue relies upon it.
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*/
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VRFY((H5Pset_all_coll_metadata_ops(fapl_id, true) >= 0), "Set collective metadata reads succeeded");
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file_id = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl_id);
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VRFY((file_id >= 0), "H5Fcreate succeeded");
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space_id = H5Screate_simple(MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS, dims, max_dims);
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VRFY((space_id >= 0), "H5Screate_simple succeeded");
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dcpl_id = H5Pcreate(H5P_DATASET_CREATE);
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VRFY((dcpl_id >= 0), "H5Pcreate succeeded");
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VRFY((H5Pset_chunk(dcpl_id, MULTI_CHUNK_IO_ADDRMAP_ISSUE_DIMS, chunk_dims) >= 0), "H5Pset_chunk succeeded");
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dset_id = H5Dcreate2(file_id, "dset", H5T_NATIVE_INT, space_id, H5P_DEFAULT, dcpl_id, H5P_DEFAULT);
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VRFY((dset_id >= 0), "H5Dcreate2 succeeded");
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dxpl_id = H5Pcreate(H5P_DATASET_XFER);
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VRFY((dxpl_id >= 0), "H5Pcreate succeeded");
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VRFY((H5Pset_dxpl_mpio(dxpl_id, H5FD_MPIO_COLLECTIVE) >= 0), "H5Pset_dxpl_mpio succeeded");
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VRFY((H5Pset_dxpl_mpio_chunk_opt(dxpl_id, H5FD_MPIO_CHUNK_MULTI_IO) >= 0), "H5Pset_dxpl_mpio_chunk_opt succeeded");
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start[1] = 0;
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stride[0] = stride[1] = 1;
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count[0] = count[1] = 5;
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block[0] = block[1] = 1;
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if (mpi_rank == 0)
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start[0] = 0;
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else
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start[0] = 5;
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VRFY((H5Sselect_hyperslab(space_id, H5S_SELECT_SET, start, stride, count, block) >= 0), "H5Sselect_hyperslab succeeded");
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if (mpi_rank != 0)
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VRFY((H5Sselect_none(space_id) >= 0), "H5Sselect_none succeeded");
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VRFY((H5Dwrite(dset_id, H5T_NATIVE_INT, H5S_ALL, space_id, dxpl_id, data) >= 0), "H5Dwrite succeeded");
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VRFY((H5Fflush(file_id, H5F_SCOPE_GLOBAL) >= 0), "H5Fflush succeeded");
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read_buf = HDmalloc(50 * sizeof(int));
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VRFY((read_buf != NULL), "malloc succeeded");
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VRFY((H5Dread(dset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, dxpl_id, read_buf) >= 0), "H5Dread succeeded");
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if (read_buf) {
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HDfree(read_buf);
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read_buf = NULL;
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}
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VRFY((H5Sclose(space_id) >= 0), "H5Sclose succeeded");
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VRFY((H5Pclose(dcpl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Pclose(dxpl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Dclose(dset_id) >= 0), "H5Dclose succeeded");
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VRFY((H5Pclose(fapl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Fclose(file_id) >= 0), "H5Fclose succeeded");
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}
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/*
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* A test for HDFFV-10562 which attempts to verify that using linked-chunk
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* I/O with collective metadata reads enabled doesn't cause issues due to
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* collective metadata reads being made only by process 0 in H5D__sort_chunk().
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*
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* NOTE: Due to the way that the threshold value which pertains to this test
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* is currently calculated within HDF5, there are several conditions that this
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* test must maintain. Refer to the function H5D__sort_chunk in H5Dmpio.c for
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* a better idea of why.
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*
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* Condition 1: We need to make sure that the test always selects every single
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* chunk in the dataset. It is fine if the selection is split up among multiple
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* ranks, but their combined selection must cover the whole dataset.
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*
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* Condition 2: The number of chunks in the dataset divided by the number of MPI
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* ranks must exceed or equal 10000. In other words, each MPI rank must be
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* responsible for 10000 or more unique chunks.
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*
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* Condition 3: This test will currently only be reliably reproducable for 2 or 3
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* MPI ranks. The threshold value calculated reduces to a constant 100 / mpi_size,
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* and is compared against a default value of 30%.
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*
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* Failure in this test may either cause a hang, or, due to how the MPI calls
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* pertaining to this issue might mistakenly match up, may cause an MPI error
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* message similar to:
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*
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* #008: H5Dmpio.c line 2338 in H5D__sort_chunk(): MPI_BCast failed
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* major: Internal error (too specific to document in detail)
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* minor: Some MPI function failed
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* #009: H5Dmpio.c line 2338 in H5D__sort_chunk(): Other MPI error, error stack:
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*PMPI_Bcast(1600)........: MPI_Bcast(buf=0x7eae610, count=320000, MPI_BYTE, root=0, comm=0x84000006) failed
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*MPIR_Bcast_impl(1452)...:
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*MPIR_Bcast(1476)........:
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*MPIR_Bcast_intra(1249)..:
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*MPIR_SMP_Bcast(1088)....:
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*MPIR_Bcast_binomial(250): message sizes do not match across processes in the collective routine: Received 2096 but expected 320000
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* major: Internal error (too specific to document in detail)
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* minor: MPI Error String
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*/
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void test_link_chunk_io_sort_chunk_issue(void)
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{
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const char *filename;
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hsize_t *dataset_dims = NULL;
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hsize_t max_dataset_dims[LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS];
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hsize_t sel_dims[1];
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hsize_t chunk_dims[LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS] = { LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS };
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hsize_t start[LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS];
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hsize_t stride[LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS];
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hsize_t count[LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS];
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hsize_t block[LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS];
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hid_t file_id = H5I_INVALID_HID;
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hid_t fapl_id = H5I_INVALID_HID;
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hid_t dset_id = H5I_INVALID_HID;
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hid_t dcpl_id = H5I_INVALID_HID;
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hid_t dxpl_id = H5I_INVALID_HID;
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hid_t fspace_id = H5I_INVALID_HID;
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hid_t mspace_id = H5I_INVALID_HID;
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int mpi_rank, mpi_size;
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void *data = NULL;
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void *read_buf = NULL;
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MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
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MPI_Comm_size(MPI_COMM_WORLD, &mpi_size);
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filename = GetTestParameters();
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fapl_id = create_faccess_plist(MPI_COMM_WORLD, MPI_INFO_NULL, facc_type);
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VRFY((fapl_id >= 0), "create_faccess_plist succeeded");
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/*
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* Even though the testphdf5 framework currently sets collective metadata reads
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* on the FAPL, we call it here just to be sure this is futureproof, since
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* demonstrating this issue relies upon it.
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*/
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VRFY((H5Pset_all_coll_metadata_ops(fapl_id, true) >= 0), "Set collective metadata reads succeeded");
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file_id = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, fapl_id);
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VRFY((file_id >= 0), "H5Fcreate succeeded");
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dataset_dims = HDmalloc(LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS * sizeof(*dataset_dims));
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VRFY((dataset_dims != NULL), "malloc succeeded");
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dataset_dims[0] = LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE * mpi_size * LINK_CHUNK_IO_SORT_CHUNK_ISSUE_Y_DIM_SCALE;
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max_dataset_dims[0] = H5S_UNLIMITED;
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fspace_id = H5Screate_simple(LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS, dataset_dims, max_dataset_dims);
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VRFY((fspace_id >= 0), "H5Screate_simple succeeded");
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/*
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* Set up chunking on the dataset in order to reproduce the problem.
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*/
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dcpl_id = H5Pcreate(H5P_DATASET_CREATE);
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VRFY((dcpl_id >= 0), "H5Pcreate succeeded");
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VRFY((H5Pset_chunk(dcpl_id, LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DIMS, chunk_dims) >= 0), "H5Pset_chunk succeeded");
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dset_id = H5Dcreate2(file_id, LINK_CHUNK_IO_SORT_CHUNK_ISSUE_DATASET_NAME, H5T_NATIVE_INT, fspace_id, H5P_DEFAULT, dcpl_id, H5P_DEFAULT);
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VRFY((dset_id >= 0), "H5Dcreate2 succeeded");
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/*
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* Setup hyperslab selection to split the dataset among the ranks.
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*
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* The ranks will write rows across the dataset.
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*/
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stride[0] = LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE;
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count[0] = (dataset_dims[0] / LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE) / mpi_size;
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start[0] = count[0] * mpi_rank;
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block[0] = LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE;
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VRFY((H5Sselect_hyperslab(fspace_id, H5S_SELECT_SET, start, stride, count, block) >= 0), "H5Sselect_hyperslab succeeded");
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sel_dims[0] = count[0] * (LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE);
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mspace_id = H5Screate_simple(1, sel_dims, NULL);
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VRFY((mspace_id >= 0), "H5Screate_simple succeeded");
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data = HDcalloc(1, count[0] * (LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE) * sizeof(int));
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VRFY((data != NULL), "calloc succeeded");
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dxpl_id = H5Pcreate(H5P_DATASET_XFER);
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VRFY((dxpl_id >= 0), "H5Pcreate succeeded");
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/*
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* Enable collective access for the data transfer.
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*/
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VRFY((H5Pset_dxpl_mpio(dxpl_id, H5FD_MPIO_COLLECTIVE) >= 0), "H5Pset_dxpl_mpio succeeded");
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VRFY((H5Dwrite(dset_id, H5T_NATIVE_INT, mspace_id, fspace_id, dxpl_id, data) >= 0), "H5Dwrite succeeded");
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VRFY((H5Fflush(file_id, H5F_SCOPE_GLOBAL) >= 0), "H5Fflush succeeded");
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/*
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* Ensure that linked-chunk I/O is performed since this is
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* the particular code path where the issue lies and we don't
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* want the library doing multi-chunk I/O behind our backs.
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*/
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VRFY((H5Pset_dxpl_mpio_chunk_opt(dxpl_id, H5FD_MPIO_CHUNK_ONE_IO) >= 0), "H5Pset_dxpl_mpio_chunk_opt succeeded");
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read_buf = HDmalloc(count[0] * (LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE) * sizeof(int));
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VRFY((read_buf != NULL), "malloc succeeded");
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VRFY((H5Sselect_hyperslab(fspace_id, H5S_SELECT_SET, start, stride, count, block) >= 0), "H5Sselect_hyperslab succeeded");
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sel_dims[0] = count[0] * (LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE);
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VRFY((H5Sclose(mspace_id) >= 0), "H5Sclose succeeded");
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mspace_id = H5Screate_simple(1, sel_dims, NULL);
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VRFY((mspace_id >= 0), "H5Screate_simple succeeded");
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read_buf = HDrealloc(read_buf, count[0] * (LINK_CHUNK_IO_SORT_CHUNK_ISSUE_CHUNK_SIZE) * sizeof(int));
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VRFY((read_buf != NULL), "realloc succeeded");
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/*
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* Finally have each rank read their section of data back from the dataset.
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*/
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VRFY((H5Dread(dset_id, H5T_NATIVE_INT, mspace_id, fspace_id, dxpl_id, read_buf) >= 0), "H5Dread succeeded");
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if (dataset_dims) {
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HDfree(dataset_dims);
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dataset_dims = NULL;
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}
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if (data) {
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HDfree(data);
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data = NULL;
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}
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if (read_buf) {
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HDfree(read_buf);
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read_buf = NULL;
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}
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VRFY((H5Sclose(fspace_id) >= 0), "H5Sclose succeeded");
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VRFY((H5Sclose(mspace_id) >= 0), "H5Sclose succeeded");
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VRFY((H5Pclose(dcpl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Pclose(dxpl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Dclose(dset_id) >= 0), "H5Dclose succeeded");
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VRFY((H5Pclose(fapl_id) >= 0), "H5Pclose succeeded");
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VRFY((H5Fclose(file_id) >= 0), "H5Fclose succeeded");
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}
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