diff options
| -rw-r--r-- | src/H5Dmpio.c | 41 | ||||
| -rw-r--r-- | testpar/t_filters_parallel.c | 879 | ||||
| -rw-r--r-- | testpar/t_filters_parallel.h | 50 |
3 files changed, 954 insertions, 16 deletions
diff --git a/src/H5Dmpio.c b/src/H5Dmpio.c index 107b751..5e33384 100644 --- a/src/H5Dmpio.c +++ b/src/H5Dmpio.c @@ -2981,6 +2981,7 @@ H5D__filtered_collective_chunk_entry_io(H5D_filtered_collective_io_info_t *chunk { H5D_chunk_info_t *chunk_info = NULL; H5S_sel_iter_t *mem_iter = NULL; /* Memory iterator for H5D__scatter_mem/H5D__gather_mem */ + H5S_sel_iter_t *file_iter = NULL; unsigned char *mod_data = NULL; /* Chunk modification data sent by a process to a chunk's owner */ H5Z_EDC_t err_detect; /* Error detection info */ H5Z_cb_t filter_cb; /* I/O filter callback function */ @@ -2989,11 +2990,13 @@ H5D__filtered_collective_chunk_entry_io(H5D_filtered_collective_io_info_t *chunk hssize_t extent_npoints; hsize_t true_chunk_size; hbool_t mem_iter_init = FALSE; + hbool_t file_iter_init = FALSE; size_t buf_size; size_t i; H5S_t *dataspace = NULL; /* Other process' dataspace for the chunk */ - void *tmp_gath_buf = NULL; /* Temporary gather buffer for owner of the chunk to gather into from - application write buffer before scattering out to the chunk data buffer */ + void *tmp_gath_buf = NULL; /* Temporary gather buffer to gather into from application buffer + before scattering out to the chunk data buffer (when writing data), + or vice versa (when reading data) */ int mpi_code; herr_t ret_value = SUCCEED; @@ -3073,9 +3076,6 @@ H5D__filtered_collective_chunk_entry_io(H5D_filtered_collective_io_info_t *chunk HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to initialize memory selection information") mem_iter_init = TRUE; - if ((iter_nelmts = H5S_GET_SELECT_NPOINTS(chunk_info->mspace)) < 0) - HGOTO_ERROR(H5E_DATASET, H5E_CANTCOUNT, FAIL, "dataspace is invalid") - /* If this is a read operation, scatter the read chunk data to the user's buffer. * * If this is a write operation, update the chunk data buffer with the modifications @@ -3084,11 +3084,34 @@ H5D__filtered_collective_chunk_entry_io(H5D_filtered_collective_io_info_t *chunk */ switch (io_info->op_type) { case H5D_IO_OP_READ: - if (H5D__scatter_mem(chunk_entry->buf, chunk_info->mspace, mem_iter, (size_t)iter_nelmts, io_info->u.rbuf) < 0) - HGOTO_ERROR(H5E_DATASET, H5E_READERROR, FAIL, "couldn't scatter to read buffer") + if (NULL == (file_iter = (H5S_sel_iter_t *) H5MM_malloc(sizeof(H5S_sel_iter_t)))) + HGOTO_ERROR(H5E_DATASET, H5E_CANTALLOC, FAIL, "couldn't allocate file iterator") + + if (H5S_select_iter_init(file_iter, chunk_info->fspace, type_info->src_type_size) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTINIT, FAIL, "unable to initialize memory selection information") + file_iter_init = TRUE; + + if ((iter_nelmts = H5S_GET_SELECT_NPOINTS(chunk_info->fspace)) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTCOUNT, FAIL, "dataspace is invalid") + + if (NULL == (tmp_gath_buf = H5MM_malloc((hsize_t) iter_nelmts * type_info->src_type_size))) + HGOTO_ERROR(H5E_DATASET, H5E_CANTALLOC, FAIL, "couldn't allocate temporary gather buffer") + + if (!H5D__gather_mem(chunk_entry->buf, chunk_info->fspace, file_iter, iter_nelmts, tmp_gath_buf)) + HGOTO_ERROR(H5E_IO, H5E_READERROR, FAIL, "couldn't gather from chunk buffer") + + if ((iter_nelmts = H5S_GET_SELECT_NPOINTS(chunk_info->mspace)) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTCOUNT, FAIL, "dataspace is invalid") + + if (H5D__scatter_mem(tmp_gath_buf, chunk_info->mspace, mem_iter, (size_t)iter_nelmts, io_info->u.rbuf) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_READERROR, FAIL, "couldn't scatter to read buffer") + break; case H5D_IO_OP_WRITE: + if ((iter_nelmts = H5S_GET_SELECT_NPOINTS(chunk_info->mspace)) < 0) + HGOTO_ERROR(H5E_DATASET, H5E_CANTCOUNT, FAIL, "dataspace is invalid") + if (NULL == (tmp_gath_buf = H5MM_malloc((hsize_t) iter_nelmts * type_info->src_type_size))) HGOTO_ERROR(H5E_DATASET, H5E_CANTALLOC, FAIL, "couldn't allocate temporary gather buffer") @@ -3185,6 +3208,10 @@ done: HDONE_ERROR(H5E_DATASET, H5E_CANTFREE, FAIL, "couldn't release selection iterator") if (mem_iter) H5MM_free(mem_iter); + if (file_iter_init && H5S_SELECT_ITER_RELEASE(file_iter) < 0) + HDONE_ERROR(H5E_DATASET, H5E_CANTFREE, FAIL, "couldn't release selection iterator") + if (file_iter) + H5MM_free(file_iter); if (dataspace) if (H5S_close(dataspace) < 0) HDONE_ERROR(H5E_DATASPACE, H5E_CANTFREE, FAIL, "can't close dataspace") diff --git a/testpar/t_filters_parallel.c b/testpar/t_filters_parallel.c index 886b544..2c639ae 100644 --- a/testpar/t_filters_parallel.c +++ b/testpar/t_filters_parallel.c @@ -1887,7 +1887,6 @@ test_write_cmpd_filtered_dataset_no_conversion_unshared(void) * Programmer: Jordan Henderson * 02/10/2017 */ -/* JTH: This test currently cannot be data-verified due to the floating-point data involved */ static void test_write_cmpd_filtered_dataset_no_conversion_shared(void) { @@ -4464,30 +4463,906 @@ test_read_3d_filtered_dataset_overlap(void) * buffer that is checked for consistency. * * Programmer: Jordan Henderson - * 05/16/2018 + * 05/17/2018 */ static void test_read_cmpd_filtered_dataset_no_conversion_unshared(void) { + COMPOUND_C_DATATYPE *read_buf = NULL; + COMPOUND_C_DATATYPE *correct_buf = NULL; + COMPOUND_C_DATATYPE *global_buf = NULL; + hsize_t dataset_dims[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t chunk_dims[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t sel_dims[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t start[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t stride[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t count[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t block[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t flat_dims[1]; + size_t i, read_buf_size, correct_buf_size; + hid_t file_id = -1, dset_id = -1, plist_id = -1, memtype = -1; + hid_t filespace = -1, memspace = -1; + int *recvcounts = NULL; + int *displs = NULL; + + dataset_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_NROWS; + dataset_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_NCOLS; + + /* Setup the buffer for writing and for comparison */ + correct_buf_size = dataset_dims[0] * dataset_dims[1] * sizeof(*correct_buf); + + correct_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != correct_buf), "HDcalloc succeeded"); + + for (i = 0; i < correct_buf_size / sizeof(*correct_buf); i++) { + correct_buf[i].field1 = (short) ( + (i % dataset_dims[1]) + + (i / dataset_dims[1]) + ); + + correct_buf[i].field2 = (int) ( + (i % dataset_dims[1]) + + (i / dataset_dims[1]) + ); + + correct_buf[i].field3 = (long) ( + (i % dataset_dims[1]) + + (i / dataset_dims[1]) + ); + } + + /* Create the compound type for memory. */ + memtype = H5Tcreate(H5T_COMPOUND, sizeof(COMPOUND_C_DATATYPE)); + VRFY((memtype >= 0), "Datatype creation succeeded"); + + VRFY((H5Tinsert(memtype, "ShortData", HOFFSET(COMPOUND_C_DATATYPE, field1), H5T_NATIVE_SHORT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "IntData", HOFFSET(COMPOUND_C_DATATYPE, field2), H5T_NATIVE_INT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "LongData", HOFFSET(COMPOUND_C_DATATYPE, field3), H5T_NATIVE_LONG) >= 0), + "Datatype insertion succeeded"); + + if (MAINPROCESS) { + puts("Testing read from unshared filtered chunks in Compound Datatype dataset without Datatype conversion"); + + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDWR, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + /* Create the dataspace for the dataset */ + filespace = H5Screate_simple(READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS, dataset_dims, NULL); + VRFY((filespace >= 0), "File dataspace creation succeeded"); + + /* Create chunked dataset */ + chunk_dims[0] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NROWS; + chunk_dims[1] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NCOLS; + + plist_id = H5Pcreate(H5P_DATASET_CREATE); + VRFY((plist_id >= 0), "DCPL creation succeeded"); + + VRFY((H5Pset_chunk(plist_id, READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS, chunk_dims) >= 0), + "Chunk size set"); + + /* Add test filter to the pipeline */ + VRFY((SET_FILTER(plist_id) >= 0), "Filter set"); + + dset_id = H5Dcreate2(file_id, READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_NAME, memtype, filespace, + H5P_DEFAULT, plist_id, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset creation succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "DCPL close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + + VRFY((H5Dwrite(dset_id, memtype, H5S_ALL, H5S_ALL, H5P_DEFAULT, correct_buf) >= 0), + "Dataset write succeeded"); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + } + + /* Set up file access property list with parallel I/O access */ + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_fapl_mpio(plist_id, comm, info) >= 0), + "Set FAPL MPIO succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDONLY, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + dset_id = H5Dopen2(file_id, "/" READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_NAME, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset open succeeded"); + + sel_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NROWS; + sel_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_ENTRIES_PER_PROC; + + /* Setup one-dimensional memory dataspace for reading the dataset data into a contiguous buffer */ + flat_dims[0] = sel_dims[0] * sel_dims[1]; + + memspace = H5Screate_simple(1, flat_dims, NULL); + VRFY((memspace >= 0), "Memory dataspace creation succeeded"); + + /* Select hyperslab in the file */ + filespace = H5Dget_space(dset_id); + VRFY((filespace >= 0), "File dataspace retrieval succeeded"); + + /* + * Each process defines the dataset selection in the file and + * reads it to the selection in memory + */ + count[0] = 1; + count[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_ENTRIES_PER_PROC; + stride[0] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NROWS; + stride[1] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NCOLS; + block[0] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NROWS; + block[1] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NCOLS; + start[0] = 0; + start[1] = ((hsize_t) mpi_rank * READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NCOLS); + + if (VERBOSE_MED) { + printf("Process %d is reading with count[ %llu, %llu ], stride[ %llu, %llu ], start[ %llu, %llu ], block size[ %llu, %llu ]\n", + mpi_rank, count[0], count[1], stride[0], stride[1], start[0], start[1], block[0], block[1]); + fflush(stdout); + } + + VRFY((H5Sselect_hyperslab(filespace, H5S_SELECT_SET, start, stride, count, block) >= 0), + "Hyperslab selection succeeded"); + + /* Create property list for collective dataset read */ + plist_id = H5Pcreate(H5P_DATASET_XFER); + VRFY((plist_id >= 0), "DXPL creation succeeded"); + + VRFY((H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE) >= 0), + "Set DXPL MPIO succeeded"); + + read_buf_size = flat_dims[0] * sizeof(*read_buf); + + read_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, read_buf_size); + VRFY((NULL != read_buf), "HDcalloc succeeded"); + + VRFY((H5Dread(dset_id, memtype, memspace, filespace, plist_id, read_buf) >= 0), + "Dataset read succeeded"); + + global_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != global_buf), "HDcalloc succeeded"); + + /* Collect each piece of data from all ranks into a global buffer on all ranks */ + recvcounts = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*recvcounts)); + VRFY((NULL != recvcounts), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + recvcounts[i] = (int) (flat_dims[0] * sizeof(*read_buf)); + + displs = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*displs)); + VRFY((NULL != displs), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + displs[i] = (int) (i * flat_dims[0] * sizeof(*read_buf)); + + VRFY((MPI_SUCCESS == MPI_Allgatherv(read_buf, (int) (flat_dims[0] * sizeof(COMPOUND_C_DATATYPE)), MPI_BYTE, global_buf, recvcounts, displs, MPI_BYTE, comm)), + "MPI_Allgatherv succeeded"); + + VRFY((0 == memcmp(global_buf, correct_buf, correct_buf_size)), + "Data verification succeeded"); + + if (displs) HDfree(displs); + if (recvcounts) HDfree(recvcounts); + if (global_buf) HDfree(global_buf); + if (read_buf) HDfree(read_buf); + if (correct_buf) HDfree(correct_buf); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + VRFY((H5Sclose(memspace) >= 0), "Memory dataspace close succeeded"); + VRFY((H5Tclose(memtype) >= 0), "Memory datatype close succeeded"); + VRFY((H5Pclose(plist_id) >= 0), "DXPL close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + + return; } +/* + * Tests parallel read of filtered data from shared + * chunks using a compound datatype which doesn't + * require a datatype conversion. + * + * The MAINPROCESS rank will first write out all of the + * data to the dataset. Then, each rank reads a part of + * each chunk of the dataset and contributes its piece + * to a global buffer that is checked for consistency. + * + * Programmer: Jordan Henderson + * 05/17/2018 + */ static void test_read_cmpd_filtered_dataset_no_conversion_shared(void) { + COMPOUND_C_DATATYPE *read_buf = NULL; + COMPOUND_C_DATATYPE *correct_buf = NULL; + COMPOUND_C_DATATYPE *global_buf = NULL; + hsize_t dataset_dims[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t chunk_dims[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t sel_dims[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t start[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t stride[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t count[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t block[READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t flat_dims[1]; + size_t i, read_buf_size, correct_buf_size; + hid_t file_id, dset_id, plist_id, memtype; + hid_t filespace, memspace; + int *recvcounts = NULL; + int *displs = NULL; + + dataset_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_NROWS; + dataset_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_NCOLS; + /* Setup the buffer for writing and for comparison */ + correct_buf_size = dataset_dims[0] * dataset_dims[1] * sizeof(*correct_buf); + + correct_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != correct_buf), "HDcalloc succeeded"); + + for (i = 0; i < correct_buf_size / sizeof(*correct_buf); i++) { + correct_buf[i].field1 = (short) ( + (dataset_dims[1] * (i / ((hsize_t) mpi_size * dataset_dims[1]))) + + (i % dataset_dims[1]) + + (((i % ((hsize_t) mpi_size * dataset_dims[1])) / dataset_dims[1]) % dataset_dims[1]) + ); + + correct_buf[i].field2 = (int) ( + (dataset_dims[1] * (i / ((hsize_t) mpi_size * dataset_dims[1]))) + + (i % dataset_dims[1]) + + (((i % ((hsize_t) mpi_size * dataset_dims[1])) / dataset_dims[1]) % dataset_dims[1]) + ); + + correct_buf[i].field3 = (long) ( + (dataset_dims[1] * (i / ((hsize_t) mpi_size * dataset_dims[1]))) + + (i % dataset_dims[1]) + + (((i % ((hsize_t) mpi_size * dataset_dims[1])) / dataset_dims[1]) % dataset_dims[1]) + ); + } + + /* Create the compound type for memory. */ + memtype = H5Tcreate(H5T_COMPOUND, sizeof(COMPOUND_C_DATATYPE)); + VRFY((memtype >= 0), "Datatype creation succeeded"); + + VRFY((H5Tinsert(memtype, "ShortData", HOFFSET(COMPOUND_C_DATATYPE, field1), H5T_NATIVE_SHORT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "IntData", HOFFSET(COMPOUND_C_DATATYPE, field2), H5T_NATIVE_INT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "LongData", HOFFSET(COMPOUND_C_DATATYPE, field3), H5T_NATIVE_LONG) >= 0), + "Datatype insertion succeeded"); + + if (MAINPROCESS) { + puts("Testing read from shared filtered chunks in Compound Datatype dataset without Datatype conversion"); + + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDWR, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + /* Create the dataspace for the dataset */ + filespace = H5Screate_simple(READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS, dataset_dims, NULL); + VRFY((filespace >= 0), "File dataspace creation succeeded"); + + /* Create chunked dataset */ + chunk_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NROWS; + chunk_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NCOLS; + + plist_id = H5Pcreate(H5P_DATASET_CREATE); + VRFY((plist_id >= 0), "DCPL creation succeeded"); + + VRFY((H5Pset_chunk(plist_id, READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS, chunk_dims) >= 0), + "Chunk size set"); + + /* Add test filter to the pipeline */ + VRFY((SET_FILTER(plist_id) >= 0), "Filter set"); + + dset_id = H5Dcreate2(file_id, READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_NAME, memtype, filespace, + H5P_DEFAULT, plist_id, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset creation succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "DCPL close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + + VRFY((H5Dwrite(dset_id, memtype, H5S_ALL, H5S_ALL, H5P_DEFAULT, correct_buf) >= 0), + "Dataset write succeeded"); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + } + + /* Set up file access property list with parallel I/O access */ + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_fapl_mpio(plist_id, comm, info) >= 0), + "Set FAPL MPIO succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDONLY, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + dset_id = H5Dopen2(file_id, "/" READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_NAME, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset open succeeded"); + + sel_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NROWS / (hsize_t) mpi_size; + sel_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_ENTRIES_PER_PROC; + + /* Setup one-dimensional memory dataspace for reading the dataset data into a contiguous buffer */ + flat_dims[0] = sel_dims[0] * sel_dims[1]; + + memspace = H5Screate_simple(1, flat_dims, NULL); + VRFY((memspace >= 0), "Memory dataspace creation succeeded"); + + /* Select hyperslab in the file */ + filespace = H5Dget_space(dset_id); + VRFY((filespace >= 0), "File dataspace retrieval succeeded"); + + /* + * Each process defines the dataset selection in the file and + * reads it to the selection in memory + */ + count[0] = 1; + count[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_ENTRIES_PER_PROC; + stride[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NROWS; + stride[1] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NCOLS; + block[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NROWS / (hsize_t) mpi_size; + block[1] = READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NCOLS; + start[0] = (hsize_t) mpi_rank; + start[1] = 0; + + if (VERBOSE_MED) { + printf("Process %d is reading with count[ %llu, %llu ], stride[ %llu, %llu ], start[ %llu, %llu ], block size[ %llu, %llu ]\n", + mpi_rank, count[0], count[1], stride[0], stride[1], start[0], start[1], block[0], block[1]); + fflush(stdout); + } + + VRFY((H5Sselect_hyperslab(filespace, H5S_SELECT_SET, start, stride, count, block) >= 0), + "Hyperslab selection succeeded"); + + /* Create property list for collective dataset read */ + plist_id = H5Pcreate(H5P_DATASET_XFER); + VRFY((plist_id >= 0), "DXPL creation succeeded"); + + VRFY((H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE) >= 0), + "Set DXPL MPIO succeeded"); + + read_buf_size = flat_dims[0] * sizeof(*read_buf); + + read_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, read_buf_size); + VRFY((NULL != read_buf), "HDcalloc succeeded"); + + VRFY((H5Dread(dset_id, memtype, memspace, filespace, plist_id, read_buf) >= 0), + "Dataset read succeeded"); + + global_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != global_buf), "HDcalloc succeeded"); + + /* Collect each piece of data from all ranks into a global buffer on all ranks */ + recvcounts = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*recvcounts)); + VRFY((NULL != recvcounts), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + recvcounts[i] = (int) (flat_dims[0] * sizeof(*read_buf)); + + displs = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*displs)); + VRFY((NULL != displs), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + displs[i] = (int) (i * flat_dims[0] * sizeof(*read_buf)); + + VRFY((MPI_SUCCESS == MPI_Allgatherv(read_buf, (int) (flat_dims[0] * sizeof(COMPOUND_C_DATATYPE)), MPI_BYTE, global_buf, recvcounts, displs, MPI_BYTE, comm)), + "MPI_Allgatherv succeeded"); + + VRFY((0 == memcmp(global_buf, correct_buf, correct_buf_size)), + "Data verification succeeded"); + + if (displs) HDfree(displs); + if (recvcounts) HDfree(recvcounts); + if (global_buf) HDfree(global_buf); + if (read_buf) HDfree(read_buf); + if (correct_buf) HDfree(correct_buf); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + VRFY((H5Sclose(memspace) >= 0), "Memory dataspace close succeeded"); + VRFY((H5Tclose(memtype) >= 0), "Memory datatype close succeeded"); + VRFY((H5Pclose(plist_id) >= 0), "DXPL close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + + return; } +/* + * Tests parallel read of filtered data from unshared + * chunks using a compound datatype which requires a + * datatype conversion. + * + * The MAINPROCESS rank will first write out all of the + * data to the dataset. Then, each rank reads a part of + * the dataset and contributes its piece to a global + * buffer that is checked for consistency. + * + * Programmer: Jordan Henderson + * 05/17/2018 + */ static void test_read_cmpd_filtered_dataset_type_conversion_unshared(void) { + COMPOUND_C_DATATYPE *read_buf = NULL; + COMPOUND_C_DATATYPE *correct_buf = NULL; + COMPOUND_C_DATATYPE *global_buf = NULL; + hsize_t dataset_dims[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t chunk_dims[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t sel_dims[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t start[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t stride[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t count[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t block[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS]; + hsize_t flat_dims[1]; + size_t i, read_buf_size, correct_buf_size; + hid_t file_id = -1, dset_id = -1, plist_id = -1, filetype = -1, memtype = -1; + hid_t filespace = -1, memspace = -1; + int *recvcounts = NULL; + int *displs = NULL; + + dataset_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_NROWS; + dataset_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_NCOLS; + + /* Setup the buffer for writing and for comparison */ + correct_buf_size = dataset_dims[0] * dataset_dims[1] * sizeof(*correct_buf); + + correct_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != correct_buf), "HDcalloc succeeded"); + + for (i = 0; i < correct_buf_size / sizeof(*correct_buf); i++) { + correct_buf[i].field1 = (short) ( + (i % dataset_dims[1]) + + (i / dataset_dims[1]) + ); + + correct_buf[i].field2 = (int) ( + (i % dataset_dims[1]) + + (i / dataset_dims[1]) + ); + + correct_buf[i].field3 = (long) ( + (i % dataset_dims[1]) + + (i / dataset_dims[1]) + ); + } + + /* Create the compound type for memory. */ + memtype = H5Tcreate(H5T_COMPOUND, sizeof(COMPOUND_C_DATATYPE)); + VRFY((memtype >= 0), "Datatype creation succeeded"); + + VRFY((H5Tinsert(memtype, "ShortData", HOFFSET(COMPOUND_C_DATATYPE, field1), H5T_NATIVE_SHORT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "IntData", HOFFSET(COMPOUND_C_DATATYPE, field2), H5T_NATIVE_INT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "LongData", HOFFSET(COMPOUND_C_DATATYPE, field3), H5T_NATIVE_LONG) >= 0), + "Datatype insertion succeeded"); + + /* Create the compound type for file. */ + filetype = H5Tcreate(H5T_COMPOUND, 32); + VRFY((filetype >= 0), "Datatype creation succeeded"); + + VRFY((H5Tinsert(filetype, "ShortData", 0, H5T_STD_I64BE) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(filetype, "IntData", 8, H5T_STD_I64BE) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(filetype, "LongData", 16, H5T_STD_I64BE) >= 0), + "Datatype insertion succeeded"); + + if (MAINPROCESS) { + puts("Testing read from unshared filtered chunks in Compound Datatype dataset with Datatype conversion"); + + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDWR, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + /* Create the dataspace for the dataset */ + filespace = H5Screate_simple(READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS, dataset_dims, NULL); + VRFY((filespace >= 0), "File dataspace creation succeeded"); + + /* Create chunked dataset */ + chunk_dims[0] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NROWS; + chunk_dims[1] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NCOLS; + + plist_id = H5Pcreate(H5P_DATASET_CREATE); + VRFY((plist_id >= 0), "DCPL creation succeeded"); + + VRFY((H5Pset_chunk(plist_id, READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS, chunk_dims) >= 0), + "Chunk size set"); + + /* Add test filter to the pipeline */ + VRFY((SET_FILTER(plist_id) >= 0), "Filter set"); + + dset_id = H5Dcreate2(file_id, READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_NAME, filetype, filespace, + H5P_DEFAULT, plist_id, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset creation succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "DCPL close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + + VRFY((H5Dwrite(dset_id, memtype, H5S_ALL, H5S_ALL, H5P_DEFAULT, correct_buf) >= 0), + "Dataset write succeeded"); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + } + + /* Set up file access property list with parallel I/O access */ + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_fapl_mpio(plist_id, comm, info) >= 0), + "Set FAPL MPIO succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDONLY, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + dset_id = H5Dopen2(file_id, "/" READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_NAME, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset open succeeded"); + + sel_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NROWS; + sel_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_ENTRIES_PER_PROC; + + /* Setup one-dimensional memory dataspace for reading the dataset data into a contiguous buffer */ + flat_dims[0] = sel_dims[0] * sel_dims[1]; + + memspace = H5Screate_simple(1, flat_dims, NULL); + VRFY((memspace >= 0), "Memory dataspace creation succeeded"); + + /* Select hyperslab in the file */ + filespace = H5Dget_space(dset_id); + VRFY((filespace >= 0), "File dataspace retrieval succeeded"); + + /* + * Each process defines the dataset selection in the file and + * reads it to the selection in memory + */ + count[0] = 1; + count[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_ENTRIES_PER_PROC; + stride[0] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NROWS; + stride[1] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NCOLS; + block[0] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NROWS; + block[1] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NCOLS; + start[0] = 0; + start[1] = ((hsize_t) mpi_rank * READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NCOLS); + + if (VERBOSE_MED) { + printf("Process %d is reading with count[ %llu, %llu ], stride[ %llu, %llu ], start[ %llu, %llu ], block size[ %llu, %llu ]\n", + mpi_rank, count[0], count[1], stride[0], stride[1], start[0], start[1], block[0], block[1]); + fflush(stdout); + } + + VRFY((H5Sselect_hyperslab(filespace, H5S_SELECT_SET, start, stride, count, block) >= 0), + "Hyperslab selection succeeded"); + + /* Create property list for collective dataset read */ + plist_id = H5Pcreate(H5P_DATASET_XFER); + VRFY((plist_id >= 0), "DXPL creation succeeded"); + + VRFY((H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE) >= 0), + "Set DXPL MPIO succeeded"); + + read_buf_size = flat_dims[0] * sizeof(*read_buf); + + read_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, read_buf_size); + VRFY((NULL != read_buf), "HDcalloc succeeded"); + VRFY((H5Dread(dset_id, memtype, memspace, filespace, plist_id, read_buf) >= 0), + "Dataset read succeeded"); + + global_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != global_buf), "HDcalloc succeeded"); + + /* Collect each piece of data from all ranks into a global buffer on all ranks */ + recvcounts = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*recvcounts)); + VRFY((NULL != recvcounts), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + recvcounts[i] = (int) (flat_dims[0] * sizeof(*read_buf)); + + displs = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*displs)); + VRFY((NULL != displs), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + displs[i] = (int) (i * flat_dims[0] * sizeof(*read_buf)); + + VRFY((MPI_SUCCESS == MPI_Allgatherv(read_buf, (int) (flat_dims[0] * sizeof(COMPOUND_C_DATATYPE)), MPI_BYTE, global_buf, recvcounts, displs, MPI_BYTE, comm)), + "MPI_Allgatherv succeeded"); + + VRFY((0 == memcmp(global_buf, correct_buf, correct_buf_size)), + "Data verification succeeded"); + + if (displs) HDfree(displs); + if (recvcounts) HDfree(recvcounts); + if (global_buf) HDfree(global_buf); + if (read_buf) HDfree(read_buf); + if (correct_buf) HDfree(correct_buf); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + VRFY((H5Sclose(memspace) >= 0), "Memory dataspace close succeeded"); + VRFY((H5Tclose(filetype) >= 0), "File datatype close succeeded"); + VRFY((H5Tclose(memtype) >= 0), "Memory datatype close succeeded"); + VRFY((H5Pclose(plist_id) >= 0), "DXPL close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + + return; } +/* + * Tests parallel read of filtered data from shared + * chunks using a compound datatype which requires + * a datatype conversion. + * + * The MAINPROCESS rank will first write out all of the + * data to the dataset. Then, each rank reads a part of + * each chunk of the dataset and contributes its pieces + * to a global buffer that is checked for consistency. + * + * Programmer: Jordan Henderson + * 05/17/2018 + */ static void test_read_cmpd_filtered_dataset_type_conversion_shared(void) { + COMPOUND_C_DATATYPE *read_buf = NULL; + COMPOUND_C_DATATYPE *correct_buf = NULL; + COMPOUND_C_DATATYPE *global_buf = NULL; + hsize_t dataset_dims[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t chunk_dims[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t sel_dims[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t start[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t stride[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t count[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t block[READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS]; + hsize_t flat_dims[1]; + size_t i, read_buf_size, correct_buf_size; + hid_t file_id, dset_id, plist_id, filetype, memtype; + hid_t filespace, memspace; + int *recvcounts = NULL; + int *displs = NULL; + + dataset_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_NROWS; + dataset_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_NCOLS; + + /* Setup the buffer for writing and for comparison */ + correct_buf_size = dataset_dims[0] * dataset_dims[1] * sizeof(*correct_buf); + + correct_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != correct_buf), "HDcalloc succeeded"); + + for (i = 0; i < correct_buf_size / sizeof(*correct_buf); i++) { + correct_buf[i].field1 = (short) ( + (dataset_dims[1] * (i / ((hsize_t) mpi_size * dataset_dims[1]))) + + (i % dataset_dims[1]) + + (((i % ((hsize_t) mpi_size * dataset_dims[1])) / dataset_dims[1]) % dataset_dims[1]) + ); + + correct_buf[i].field2 = (int) ( + (dataset_dims[1] * (i / ((hsize_t) mpi_size * dataset_dims[1]))) + + (i % dataset_dims[1]) + + (((i % ((hsize_t) mpi_size * dataset_dims[1])) / dataset_dims[1]) % dataset_dims[1]) + ); + + correct_buf[i].field3 = (long) ( + (dataset_dims[1] * (i / ((hsize_t) mpi_size * dataset_dims[1]))) + + (i % dataset_dims[1]) + + (((i % ((hsize_t) mpi_size * dataset_dims[1])) / dataset_dims[1]) % dataset_dims[1]) + ); + } + + /* Create the compound type for memory. */ + memtype = H5Tcreate(H5T_COMPOUND, sizeof(COMPOUND_C_DATATYPE)); + VRFY((memtype >= 0), "Datatype creation succeeded"); + + VRFY((H5Tinsert(memtype, "ShortData", HOFFSET(COMPOUND_C_DATATYPE, field1), H5T_NATIVE_SHORT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "IntData", HOFFSET(COMPOUND_C_DATATYPE, field2), H5T_NATIVE_INT) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(memtype, "LongData", HOFFSET(COMPOUND_C_DATATYPE, field3), H5T_NATIVE_LONG) >= 0), + "Datatype insertion succeeded"); + + /* Create the compound type for file. */ + filetype = H5Tcreate(H5T_COMPOUND, 32); + VRFY((filetype >= 0), "Datatype creation succeeded"); + + VRFY((H5Tinsert(filetype, "ShortData", 0, H5T_STD_I64BE) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(filetype, "IntData", 8, H5T_STD_I64BE) >= 0), + "Datatype insertion succeeded"); + VRFY((H5Tinsert(filetype, "LongData", 16, H5T_STD_I64BE) >= 0), + "Datatype insertion succeeded"); + + if (MAINPROCESS) { + puts("Testing read from shared filtered chunks in Compound Datatype dataset with Datatype conversion"); + + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDWR, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + /* Create the dataspace for the dataset */ + filespace = H5Screate_simple(READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS, dataset_dims, NULL); + VRFY((filespace >= 0), "File dataspace creation succeeded"); + + /* Create chunked dataset */ + chunk_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NROWS; + chunk_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NCOLS; + + plist_id = H5Pcreate(H5P_DATASET_CREATE); + VRFY((plist_id >= 0), "DCPL creation succeeded"); + + VRFY((H5Pset_chunk(plist_id, READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS, chunk_dims) >= 0), + "Chunk size set"); + + /* Add test filter to the pipeline */ + VRFY((SET_FILTER(plist_id) >= 0), "Filter set"); + + dset_id = H5Dcreate2(file_id, READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_NAME, filetype, filespace, + H5P_DEFAULT, plist_id, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset creation succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "DCPL close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + + VRFY((H5Dwrite(dset_id, memtype, H5S_ALL, H5S_ALL, H5P_DEFAULT, correct_buf) >= 0), + "Dataset write succeeded"); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + } + + /* Set up file access property list with parallel I/O access */ + plist_id = H5Pcreate(H5P_FILE_ACCESS); + VRFY((plist_id >= 0), "FAPL creation succeeded"); + + VRFY((H5Pset_fapl_mpio(plist_id, comm, info) >= 0), + "Set FAPL MPIO succeeded"); + + VRFY((H5Pset_libver_bounds(plist_id, H5F_LIBVER_LATEST, H5F_LIBVER_LATEST) >= 0), + "Set libver bounds succeeded"); + + file_id = H5Fopen(filenames[0], H5F_ACC_RDONLY, plist_id); + VRFY((file_id >= 0), "Test file open succeeded"); + + VRFY((H5Pclose(plist_id) >= 0), "FAPL close succeeded"); + + dset_id = H5Dopen2(file_id, "/" READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_NAME, H5P_DEFAULT); + VRFY((dset_id >= 0), "Dataset open succeeded"); + + sel_dims[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NROWS / (hsize_t) mpi_size; + sel_dims[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_ENTRIES_PER_PROC; + + /* Setup one-dimensional memory dataspace for reading the dataset data into a contiguous buffer */ + flat_dims[0] = sel_dims[0] * sel_dims[1]; + + memspace = H5Screate_simple(1, flat_dims, NULL); + VRFY((memspace >= 0), "Memory dataspace creation succeeded"); + + /* Select hyperslab in the file */ + filespace = H5Dget_space(dset_id); + VRFY((filespace >= 0), "File dataspace retrieval succeeded"); + + /* + * Each process defines the dataset selection in the file and + * reads it to the selection in memory + */ + count[0] = 1; + count[1] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_ENTRIES_PER_PROC; + stride[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NROWS; + stride[1] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NCOLS; + block[0] = (hsize_t) READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NROWS / (hsize_t) mpi_size; + block[1] = READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NCOLS; + start[0] = (hsize_t) mpi_rank; + start[1] = 0; + + if (VERBOSE_MED) { + printf("Process %d is reading with count[ %llu, %llu ], stride[ %llu, %llu ], start[ %llu, %llu ], block size[ %llu, %llu ]\n", + mpi_rank, count[0], count[1], stride[0], stride[1], start[0], start[1], block[0], block[1]); + fflush(stdout); + } + + VRFY((H5Sselect_hyperslab(filespace, H5S_SELECT_SET, start, stride, count, block) >= 0), + "Hyperslab selection succeeded"); + /* Create property list for collective dataset read */ + plist_id = H5Pcreate(H5P_DATASET_XFER); + VRFY((plist_id >= 0), "DXPL creation succeeded"); + + VRFY((H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE) >= 0), + "Set DXPL MPIO succeeded"); + + read_buf_size = flat_dims[0] * sizeof(*read_buf); + + read_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, read_buf_size); + VRFY((NULL != read_buf), "HDcalloc succeeded"); + + VRFY((H5Dread(dset_id, memtype, memspace, filespace, plist_id, read_buf) >= 0), + "Dataset read succeeded"); + + global_buf = (COMPOUND_C_DATATYPE *) HDcalloc(1, correct_buf_size); + VRFY((NULL != global_buf), "HDcalloc succeeded"); + + /* Collect each piece of data from all ranks into a global buffer on all ranks */ + recvcounts = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*recvcounts)); + VRFY((NULL != recvcounts), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + recvcounts[i] = (int) (flat_dims[0] * sizeof(*read_buf)); + + displs = (int *) HDcalloc(1, (size_t) mpi_size * sizeof(*displs)); + VRFY((NULL != displs), "HDcalloc succeeded"); + + for (i = 0; i < (size_t) mpi_size; i++) + displs[i] = (int) (i * flat_dims[0] * sizeof(*read_buf)); + + VRFY((MPI_SUCCESS == MPI_Allgatherv(read_buf, (int) (flat_dims[0] * sizeof(COMPOUND_C_DATATYPE)), MPI_BYTE, global_buf, recvcounts, displs, MPI_BYTE, comm)), + "MPI_Allgatherv succeeded"); + + VRFY((0 == memcmp(global_buf, correct_buf, correct_buf_size)), + "Data verification succeeded"); + + if (displs) HDfree(displs); + if (recvcounts) HDfree(recvcounts); + if (global_buf) HDfree(global_buf); + if (read_buf) HDfree(read_buf); + if (correct_buf) HDfree(correct_buf); + + VRFY((H5Dclose(dset_id) >= 0), "Dataset close succeeded"); + VRFY((H5Sclose(filespace) >= 0), "File dataspace close succeeded"); + VRFY((H5Sclose(memspace) >= 0), "Memory dataspace close succeeded"); + VRFY((H5Tclose(memtype) >= 0), "Memory datatype close succeeded"); + VRFY((H5Pclose(plist_id) >= 0), "DXPL close succeeded"); + VRFY((H5Fclose(file_id) >= 0), "File close succeeded"); + + return; } /* diff --git a/testpar/t_filters_parallel.h b/testpar/t_filters_parallel.h index df989e5..4844abd 100644 --- a/testpar/t_filters_parallel.h +++ b/testpar/t_filters_parallel.h @@ -66,6 +66,13 @@ size_t cd_nelmts = FILTER_NUM_CDVALUES; #define DIM0_SCALE_FACTOR 4 #define DIM1_SCALE_FACTOR 2 +/* Struct type for the compound datatype filtered dataset tests */ +typedef struct { + short field1; + int field2; + long field3; +} COMPOUND_C_DATATYPE; + /* Defines for the one-chunk filtered dataset write test */ #define WRITE_ONE_CHUNK_FILTERED_DATASET_NAME "one_chunk_filtered_dataset_write" #define WRITE_ONE_CHUNK_FILTERED_DATASET_DIMS 2 @@ -150,13 +157,6 @@ size_t cd_nelmts = FILTER_NUM_CDVALUES; #define WRITE_SHARED_FILTERED_CHUNKS_3D_NCOLS (WRITE_SHARED_FILTERED_CHUNKS_3D_CH_NCOLS * DIM1_SCALE_FACTOR) #define WRITE_SHARED_FILTERED_CHUNKS_3D_DEPTH (mpi_size) -/* Struct type for the compound datatype filtered dataset tests */ -typedef struct { - short field1; - int field2; - long field3; -} COMPOUND_C_DATATYPE; - /* Defines for the compound datatype filtered dataset no conversion write test with unshared chunks */ #define WRITE_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_NAME "compound_unshared_filtered_chunks_no_conversion_write" #define WRITE_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS 2 @@ -277,6 +277,42 @@ typedef struct { #define READ_SHARED_FILTERED_CHUNKS_3D_NCOLS (READ_SHARED_FILTERED_CHUNKS_3D_CH_NCOLS * DIM1_SCALE_FACTOR) #define READ_SHARED_FILTERED_CHUNKS_3D_DEPTH (mpi_size) +/* Defines for the compound datatype filtered dataset no conversion read test with unshared chunks */ +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_NAME "compound_unshared_filtered_chunks_no_conversion_read" +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_DATASET_DIMS 2 +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_NROWS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_NCOLS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NROWS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_CH_NCOLS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_ENTRIES_PER_PROC (READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_UNSHARED_NCOLS / mpi_size) + +/* Defines for the compound datatype filtered dataset no conversion read test with shared chunks */ +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_NAME "compound_shared_filtered_chunks_no_conversion_read" +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_DATASET_DIMS 2 +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_NROWS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_NCOLS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NROWS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_CH_NCOLS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_ENTRIES_PER_PROC READ_COMPOUND_FILTERED_CHUNKS_NO_CONVERSION_SHARED_NCOLS + +/* Defines for the compound datatype filtered dataset type conversion read test with unshared chunks */ +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_NAME "compound_unshared_filtered_chunks_type_conversion_read" +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_DATASET_DIMS 2 +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_NROWS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_NCOLS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NROWS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_CH_NCOLS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_ENTRIES_PER_PROC (READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_UNSHARED_NCOLS / mpi_size) + +/* Defines for the compound datatype filtered dataset type conversion read test with shared chunks */ +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_NAME "compound_shared_filtered_chunks_type_conversion_read" +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_DATASET_DIMS 2 +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_NROWS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_NCOLS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NROWS mpi_size +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_CH_NCOLS 1 +#define READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_ENTRIES_PER_PROC READ_COMPOUND_FILTERED_CHUNKS_TYPE_CONVERSION_SHARED_NCOLS + /* Defines for the write file serially/read in parallel test */ #define WRITE_SERIAL_READ_PARALLEL_DATASET_NAME "write_serial_read_parallel" #define WRITE_SERIAL_READ_PARALLEL_DATASET_DIMS 3 |