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| author | Allen Byrne <byrn@hdfgroup.org> | 2020-10-01 14:04:36 (GMT) |
|---|---|---|
| committer | Allen Byrne <byrn@hdfgroup.org> | 2020-10-01 14:04:36 (GMT) |
| commit | f1ba03cea5b82699a984c80bd2deac14fdc8df18 (patch) | |
| tree | ebe777c3e0b83f4c4cec9212731da9ebe0a0cfd3 /examples | |
| parent | 10343c197906415388f2a4c8d292e21d25cf7381 (diff) | |
| download | hdf5-f1ba03cea5b82699a984c80bd2deac14fdc8df18.zip hdf5-f1ba03cea5b82699a984c80bd2deac14fdc8df18.tar.gz hdf5-f1ba03cea5b82699a984c80bd2deac14fdc8df18.tar.bz2 | |
Source formatted
Diffstat (limited to 'examples')
38 files changed, 3104 insertions, 3292 deletions
diff --git a/examples/h5_attribute.c b/examples/h5_attribute.c index 0e275c7..7a619f9 100644 --- a/examples/h5_attribute.c +++ b/examples/h5_attribute.c @@ -29,193 +29,192 @@ #define H5FILE_NAME "Attributes.h5" -#define RANK 1 /* Rank and size of the dataset */ -#define SIZE 7 +#define RANK 1 /* Rank and size of the dataset */ +#define SIZE 7 -#define ARANK 2 /* Rank and dimension sizes of the first dataset attribute */ +#define ARANK 2 /* Rank and dimension sizes of the first dataset attribute */ #define ADIM1 2 #define ADIM2 3 -#define ANAME "Float attribute" /* Name of the array attribute */ +#define ANAME "Float attribute" /* Name of the array attribute */ #define ANAMES "Character attribute" /* Name of the string attribute */ static herr_t attr_info(hid_t loc_id, const char *name, const H5A_info_t *ainfo, void *opdata); - /* Operator function */ +/* Operator function */ int -main (void) +main(void) { - hid_t file, dataset; /* File and dataset identifiers */ - - hid_t fid; /* Dataspace identifier */ - hid_t attr1, attr2, attr3; /* Attribute identifiers */ - hid_t attr; - hid_t aid1, aid2, aid3; /* Attribute dataspace identifiers */ - hid_t atype, atype_mem; /* Attribute type */ - H5T_class_t type_class; - - hsize_t fdim[] = {SIZE}; - hsize_t adim[] = {ADIM1, ADIM2}; /* Dimensions of the first attribute */ - - float matrix[ADIM1][ADIM2]; /* Attribute data */ - - herr_t ret; /* Return value */ - H5O_info2_t oinfo; /* Object info */ - unsigned i, j; /* Counters */ - char string_out[80]; /* Buffer to read string attribute back */ - int point_out; /* Buffer to read scalar attribute back */ - - /* - * Data initialization. - */ - int vector[] = {1, 2, 3, 4, 5, 6, 7}; /* Dataset data */ - int point = 1; /* Value of the scalar attribute */ - char string[] = "ABCD"; /* Value of the string attribute */ - - - for (i=0; i < ADIM1; i++) { /* Values of the array attribute */ - for (j=0; j < ADIM2; j++) - matrix[i][j] = -1.; - } - - /* - * Create a file. - */ - file = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Create the dataspace for the dataset in the file. - */ - fid = H5Screate(H5S_SIMPLE); - ret = H5Sset_extent_simple(fid, RANK, fdim, NULL); - - /* - * Create the dataset in the file. - */ - dataset = H5Dcreate2(file, "Dataset", H5T_NATIVE_INT, fid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Write data to the dataset. - */ - ret = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL , H5S_ALL, H5P_DEFAULT, vector); - - /* - * Create dataspace for the first attribute. - */ - aid1 = H5Screate(H5S_SIMPLE); - ret = H5Sset_extent_simple(aid1, ARANK, adim, NULL); - - /* - * Create array attribute. - */ - attr1 = H5Acreate2(dataset, ANAME, H5T_NATIVE_FLOAT, aid1, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Write array attribute. - */ - ret = H5Awrite(attr1, H5T_NATIVE_FLOAT, matrix); - - /* - * Create scalar attribute. - */ - aid2 = H5Screate(H5S_SCALAR); - attr2 = H5Acreate2(dataset, "Integer attribute", H5T_NATIVE_INT, aid2, - H5P_DEFAULT, H5P_DEFAULT); - - /* - * Write scalar attribute. - */ - ret = H5Awrite(attr2, H5T_NATIVE_INT, &point); - - /* - * Create string attribute. - */ - aid3 = H5Screate(H5S_SCALAR); - atype = H5Tcopy(H5T_C_S1); - H5Tset_size(atype, 5); - H5Tset_strpad(atype,H5T_STR_NULLTERM); - attr3 = H5Acreate2(dataset, ANAMES, atype, aid3, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Write string attribute. - */ - ret = H5Awrite(attr3, atype, string); - - /* - * Close attribute and file dataspaces, and datatype. - */ - ret = H5Sclose(aid1); - ret = H5Sclose(aid2); - ret = H5Sclose(aid3); - ret = H5Sclose(fid); - ret = H5Tclose(atype); - - /* - * Close the attributes. - */ - ret = H5Aclose(attr1); - ret = H5Aclose(attr2); - ret = H5Aclose(attr3); - - /* - * Close the dataset. - */ - ret = H5Dclose(dataset); - - /* - * Close the file. - */ - ret = H5Fclose(file); - - /* - * Reopen the file. - */ - file = H5Fopen(H5FILE_NAME, H5F_ACC_RDONLY, H5P_DEFAULT); - - /* - * Open the dataset. - */ - dataset = H5Dopen2(file, "Dataset", H5P_DEFAULT); - - /* - * Attach to the scalar attribute using attribute name, then read and - * display its value. - */ - attr = H5Aopen(dataset, "Integer attribute", H5P_DEFAULT); - ret = H5Aread(attr, H5T_NATIVE_INT, &point_out); - printf("The value of the attribute \"Integer attribute\" is %d \n", point_out); - ret = H5Aclose(attr); - - /* - * Find string attribute by iterating through all attributes - */ - ret = H5Oget_info3(dataset, &oinfo, H5O_INFO_NUM_ATTRS); - for(i = 0; i < (unsigned)oinfo.num_attrs; i++) { - attr = H5Aopen_by_idx(dataset, ".", H5_INDEX_CRT_ORDER, H5_ITER_INC, (hsize_t)i, H5P_DEFAULT, H5P_DEFAULT); - atype = H5Aget_type(attr); - type_class = H5Tget_class(atype); - if (type_class == H5T_STRING) { - atype_mem = H5Tget_native_type(atype, H5T_DIR_ASCEND); - ret = H5Aread(attr, atype_mem, string_out); - printf("Found string attribute; its index is %d , value = %s \n", i, string_out); - ret = H5Tclose(atype_mem); - } - ret = H5Aclose(attr); - ret = H5Tclose(atype); + hid_t file, dataset; /* File and dataset identifiers */ + + hid_t fid; /* Dataspace identifier */ + hid_t attr1, attr2, attr3; /* Attribute identifiers */ + hid_t attr; + hid_t aid1, aid2, aid3; /* Attribute dataspace identifiers */ + hid_t atype, atype_mem; /* Attribute type */ + H5T_class_t type_class; + + hsize_t fdim[] = {SIZE}; + hsize_t adim[] = {ADIM1, ADIM2}; /* Dimensions of the first attribute */ + + float matrix[ADIM1][ADIM2]; /* Attribute data */ + + herr_t ret; /* Return value */ + H5O_info2_t oinfo; /* Object info */ + unsigned i, j; /* Counters */ + char string_out[80]; /* Buffer to read string attribute back */ + int point_out; /* Buffer to read scalar attribute back */ + + /* + * Data initialization. + */ + int vector[] = {1, 2, 3, 4, 5, 6, 7}; /* Dataset data */ + int point = 1; /* Value of the scalar attribute */ + char string[] = "ABCD"; /* Value of the string attribute */ + + for (i = 0; i < ADIM1; i++) { /* Values of the array attribute */ + for (j = 0; j < ADIM2; j++) + matrix[i][j] = -1.; + } + + /* + * Create a file. + */ + file = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Create the dataspace for the dataset in the file. + */ + fid = H5Screate(H5S_SIMPLE); + ret = H5Sset_extent_simple(fid, RANK, fdim, NULL); + + /* + * Create the dataset in the file. + */ + dataset = H5Dcreate2(file, "Dataset", H5T_NATIVE_INT, fid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Write data to the dataset. + */ + ret = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, vector); + + /* + * Create dataspace for the first attribute. + */ + aid1 = H5Screate(H5S_SIMPLE); + ret = H5Sset_extent_simple(aid1, ARANK, adim, NULL); + + /* + * Create array attribute. + */ + attr1 = H5Acreate2(dataset, ANAME, H5T_NATIVE_FLOAT, aid1, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Write array attribute. + */ + ret = H5Awrite(attr1, H5T_NATIVE_FLOAT, matrix); + + /* + * Create scalar attribute. + */ + aid2 = H5Screate(H5S_SCALAR); + attr2 = H5Acreate2(dataset, "Integer attribute", H5T_NATIVE_INT, aid2, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Write scalar attribute. + */ + ret = H5Awrite(attr2, H5T_NATIVE_INT, &point); + + /* + * Create string attribute. + */ + aid3 = H5Screate(H5S_SCALAR); + atype = H5Tcopy(H5T_C_S1); + H5Tset_size(atype, 5); + H5Tset_strpad(atype, H5T_STR_NULLTERM); + attr3 = H5Acreate2(dataset, ANAMES, atype, aid3, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Write string attribute. + */ + ret = H5Awrite(attr3, atype, string); + + /* + * Close attribute and file dataspaces, and datatype. + */ + ret = H5Sclose(aid1); + ret = H5Sclose(aid2); + ret = H5Sclose(aid3); + ret = H5Sclose(fid); + ret = H5Tclose(atype); + + /* + * Close the attributes. + */ + ret = H5Aclose(attr1); + ret = H5Aclose(attr2); + ret = H5Aclose(attr3); + + /* + * Close the dataset. + */ + ret = H5Dclose(dataset); + + /* + * Close the file. + */ + ret = H5Fclose(file); + + /* + * Reopen the file. + */ + file = H5Fopen(H5FILE_NAME, H5F_ACC_RDONLY, H5P_DEFAULT); + + /* + * Open the dataset. + */ + dataset = H5Dopen2(file, "Dataset", H5P_DEFAULT); + + /* + * Attach to the scalar attribute using attribute name, then read and + * display its value. + */ + attr = H5Aopen(dataset, "Integer attribute", H5P_DEFAULT); + ret = H5Aread(attr, H5T_NATIVE_INT, &point_out); + printf("The value of the attribute \"Integer attribute\" is %d \n", point_out); + ret = H5Aclose(attr); + + /* + * Find string attribute by iterating through all attributes + */ + ret = H5Oget_info3(dataset, &oinfo, H5O_INFO_NUM_ATTRS); + for (i = 0; i < (unsigned)oinfo.num_attrs; i++) { + attr = H5Aopen_by_idx(dataset, ".", H5_INDEX_CRT_ORDER, H5_ITER_INC, (hsize_t)i, H5P_DEFAULT, + H5P_DEFAULT); + atype = H5Aget_type(attr); + type_class = H5Tget_class(atype); + if (type_class == H5T_STRING) { + atype_mem = H5Tget_native_type(atype, H5T_DIR_ASCEND); + ret = H5Aread(attr, atype_mem, string_out); + printf("Found string attribute; its index is %d , value = %s \n", i, string_out); + ret = H5Tclose(atype_mem); + } + ret = H5Aclose(attr); + ret = H5Tclose(atype); } - /* - * Get attribute info using iteration function. - */ + /* + * Get attribute info using iteration function. + */ ret = H5Aiterate2(dataset, H5_INDEX_NAME, H5_ITER_INC, NULL, attr_info, NULL); - /* - * Close the dataset and the file. - */ - H5Dclose(dataset); - H5Fclose(file); + /* + * Close the dataset and the file. + */ + H5Dclose(dataset); + H5Fclose(file); - return 0; + return 0; } /* @@ -224,13 +223,13 @@ main (void) static herr_t attr_info(hid_t loc_id, const char *name, const H5A_info_t *ainfo, void *opdata) { - hid_t attr, atype, aspace; /* Attribute, datatype and dataspace identifiers */ - int rank; + hid_t attr, atype, aspace; /* Attribute, datatype and dataspace identifiers */ + int rank; hsize_t sdim[64]; - herr_t ret; - int i; - size_t npoints; /* Number of elements in the array attribute. */ - float *float_array; /* Pointer to the array attribute. */ + herr_t ret; + int i; + size_t npoints; /* Number of elements in the array attribute. */ + float * float_array; /* Pointer to the array attribute. */ /* avoid warnings */ opdata = opdata; @@ -250,17 +249,17 @@ attr_info(hid_t loc_id, const char *name, const H5A_info_t *ainfo, void *opdata) */ atype = H5Aget_type(attr); aspace = H5Aget_space(attr); - rank = H5Sget_simple_extent_ndims(aspace); - ret = H5Sget_simple_extent_dims(aspace, sdim, NULL); + rank = H5Sget_simple_extent_ndims(aspace); + ret = H5Sget_simple_extent_dims(aspace, sdim, NULL); /* * Display rank and dimension sizes for the array attribute. */ - if(rank > 0) { + if (rank > 0) { printf("Rank : %d \n", rank); printf("Dimension sizes : "); - for (i=0; i< rank; i++) + for (i = 0; i < rank; i++) printf("%d ", (int)sdim[i]); printf("\n"); } @@ -271,11 +270,11 @@ attr_info(hid_t loc_id, const char *name, const H5A_info_t *ainfo, void *opdata) if (H5T_FLOAT == H5Tget_class(atype)) { printf("Type : FLOAT \n"); - npoints = H5Sget_simple_extent_npoints(aspace); - float_array = (float *)malloc(sizeof(float)*(int)npoints); - ret = H5Aread(attr, atype, float_array); + npoints = H5Sget_simple_extent_npoints(aspace); + float_array = (float *)malloc(sizeof(float) * (int)npoints); + ret = H5Aread(attr, atype, float_array); printf("Values : "); - for( i = 0; i < (int)npoints; i++) + for (i = 0; i < (int)npoints; i++) printf("%f ", float_array[i]); printf("\n"); free(float_array); @@ -290,4 +289,3 @@ attr_info(hid_t loc_id, const char *name, const H5A_info_t *ainfo, void *opdata) return 0; } - diff --git a/examples/h5_chunk_read.c b/examples/h5_chunk_read.c index c3455f4..01e8c5d 100644 --- a/examples/h5_chunk_read.c +++ b/examples/h5_chunk_read.c @@ -18,68 +18,66 @@ #include "hdf5.h" -#define H5FILE_NAME "SDSextendible.h5" +#define H5FILE_NAME "SDSextendible.h5" #define DATASETNAME "ExtendibleArray" -#define RANK 2 -#define RANKC 1 -#define NX 10 -#define NY 5 +#define RANK 2 +#define RANKC 1 +#define NX 10 +#define NY 5 int -main (void) +main(void) { - hid_t file; /* handles */ - hid_t dataset; - hid_t filespace; - hid_t memspace; - hid_t cparms; - hsize_t dims[2]; /* dataset and chunk dimensions*/ - hsize_t chunk_dims[2]; - hsize_t col_dims[1]; - hsize_t count[2]; - hsize_t offset[2]; - - herr_t status, status_n; - - int data_out[NX][NY]; /* buffer for dataset to be read */ - int chunk_out[2][5]; /* buffer for chunk to be read */ - int column[10]; /* buffer for column to be read */ - int rank, rank_chunk; - int i, j; - - + hid_t file; /* handles */ + hid_t dataset; + hid_t filespace; + hid_t memspace; + hid_t cparms; + hsize_t dims[2]; /* dataset and chunk dimensions*/ + hsize_t chunk_dims[2]; + hsize_t col_dims[1]; + hsize_t count[2]; + hsize_t offset[2]; + + herr_t status, status_n; + + int data_out[NX][NY]; /* buffer for dataset to be read */ + int chunk_out[2][5]; /* buffer for chunk to be read */ + int column[10]; /* buffer for column to be read */ + int rank, rank_chunk; + int i, j; /* * Open the file and the dataset. */ - file = H5Fopen(H5FILE_NAME, H5F_ACC_RDONLY, H5P_DEFAULT); + file = H5Fopen(H5FILE_NAME, H5F_ACC_RDONLY, H5P_DEFAULT); dataset = H5Dopen2(file, DATASETNAME, H5P_DEFAULT); /* * Get dataset rank and dimension. */ - filespace = H5Dget_space(dataset); /* Get filespace handle first. */ + filespace = H5Dget_space(dataset); /* Get filespace handle first. */ rank = H5Sget_simple_extent_ndims(filespace); status_n = H5Sget_simple_extent_dims(filespace, dims, NULL); - printf("dataset rank %d, dimensions %lu x %lu\n", - rank, (unsigned long)(dims[0]), (unsigned long)(dims[1])); + printf("dataset rank %d, dimensions %lu x %lu\n", rank, (unsigned long)(dims[0]), + (unsigned long)(dims[1])); /* * Define the memory space to read dataset. */ - memspace = H5Screate_simple(RANK,dims,NULL); + memspace = H5Screate_simple(RANK, dims, NULL); /* * Read dataset back and display. */ - status = H5Dread(dataset, H5T_NATIVE_INT, memspace, filespace, - H5P_DEFAULT, data_out); + status = H5Dread(dataset, H5T_NATIVE_INT, memspace, filespace, H5P_DEFAULT, data_out); printf("\n"); printf("Dataset: \n"); for (j = 0; j < dims[0]; j++) { - for (i = 0; i < dims[1]; i++) printf("%d ", data_out[j][i]); - printf("\n"); + for (i = 0; i < dims[1]; i++) + printf("%d ", data_out[j][i]); + printf("\n"); } /* @@ -110,7 +108,7 @@ main (void) * and read it into column array. */ col_dims[0] = 10; - memspace = H5Screate_simple(RANKC, col_dims, NULL); + memspace = H5Screate_simple(RANKC, col_dims, NULL); /* * Define the column (hyperslab) to read. @@ -119,14 +117,12 @@ main (void) offset[1] = 2; count[0] = 10; count[1] = 1; - status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, - count, NULL); - status = H5Dread(dataset, H5T_NATIVE_INT, memspace, filespace, - H5P_DEFAULT, column); + status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, count, NULL); + status = H5Dread(dataset, H5T_NATIVE_INT, memspace, filespace, H5P_DEFAULT, column); printf("\n"); printf("Third column: \n"); for (i = 0; i < 10; i++) { - printf("%d \n", column[i]); + printf("%d \n", column[i]); } /* @@ -153,19 +149,19 @@ main (void) */ cparms = H5Dget_create_plist(dataset); /* Get properties handle first. */ - if (H5D_CHUNKED == H5Pget_layout(cparms)) { + if (H5D_CHUNKED == H5Pget_layout(cparms)) { - /* - * Get chunking information: rank and dimensions - */ - rank_chunk = H5Pget_chunk(cparms, 2, chunk_dims); - printf("chunk rank %d, dimensions %lu x %lu\n", rank_chunk, - (unsigned long)(chunk_dims[0]), (unsigned long)(chunk_dims[1])); + /* + * Get chunking information: rank and dimensions + */ + rank_chunk = H5Pget_chunk(cparms, 2, chunk_dims); + printf("chunk rank %d, dimensions %lu x %lu\n", rank_chunk, (unsigned long)(chunk_dims[0]), + (unsigned long)(chunk_dims[1])); /* * Define the memory space to read a chunk. */ - memspace = H5Screate_simple(rank_chunk,chunk_dims,NULL); + memspace = H5Screate_simple(rank_chunk, chunk_dims, NULL); /* * Define chunk in the file (hyperslab) to read. @@ -174,18 +170,17 @@ main (void) offset[1] = 0; count[0] = chunk_dims[0]; count[1] = chunk_dims[1]; - status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, - count, NULL); + status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, count, NULL); /* * Read chunk back and display. */ - status = H5Dread(dataset, H5T_NATIVE_INT, memspace, filespace, - H5P_DEFAULT, chunk_out); + status = H5Dread(dataset, H5T_NATIVE_INT, memspace, filespace, H5P_DEFAULT, chunk_out); printf("\n"); printf("Chunk: \n"); for (j = 0; j < chunk_dims[0]; j++) { - for (i = 0; i < chunk_dims[1]; i++) printf("%d ", chunk_out[j][i]); + for (i = 0; i < chunk_dims[1]; i++) + printf("%d ", chunk_out[j][i]); printf("\n"); } /* diff --git a/examples/h5_cmprss.c b/examples/h5_cmprss.c index 5feadd3..7557cf5 100644 --- a/examples/h5_cmprss.c +++ b/examples/h5_cmprss.c @@ -18,27 +18,29 @@ #include "hdf5.h" -#define FILE "cmprss.h5" -#define RANK 2 -#define DIM0 100 -#define DIM1 20 +#define FILE "cmprss.h5" +#define RANK 2 +#define DIM0 100 +#define DIM1 20 -int main () { +int +main() +{ - hid_t file_id, dataset_id, dataspace_id; /* identifiers */ - hid_t plist_id; + hid_t file_id, dataset_id, dataspace_id; /* identifiers */ + hid_t plist_id; - size_t nelmts; - unsigned flags, filter_info; + size_t nelmts; + unsigned flags, filter_info; H5Z_filter_t filter_type; - herr_t status; - hsize_t dims[2]; - hsize_t cdims[2]; + herr_t status; + hsize_t dims[2]; + hsize_t cdims[2]; - int i,j, numfilt; - int buf[DIM0][DIM1]; - int rbuf [DIM0][DIM1]; + int i, j, numfilt; + int buf[DIM0][DIM1]; + int rbuf[DIM0][DIM1]; /* Uncomment these variables to use SZIP compression unsigned szip_options_mask; @@ -46,25 +48,24 @@ int main () { */ /* Create a file. */ - file_id = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - + file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create dataset "Compressed Data" in the group using absolute name. */ - dims[0] = DIM0; - dims[1] = DIM1; - dataspace_id = H5Screate_simple (RANK, dims, NULL); + dims[0] = DIM0; + dims[1] = DIM1; + dataspace_id = H5Screate_simple(RANK, dims, NULL); - plist_id = H5Pcreate (H5P_DATASET_CREATE); + plist_id = H5Pcreate(H5P_DATASET_CREATE); /* Dataset must be chunked for compression */ cdims[0] = 20; cdims[1] = 20; - status = H5Pset_chunk (plist_id, 2, cdims); + status = H5Pset_chunk(plist_id, 2, cdims); /* Set ZLIB / DEFLATE Compression using compression level 6. * To use SZIP Compression comment out these lines. - */ - status = H5Pset_deflate (plist_id, 6); + */ + status = H5Pset_deflate(plist_id, 6); /* Uncomment these lines to set SZIP Compression szip_options_mask = H5_SZIP_NN_OPTION_MASK; @@ -72,51 +73,49 @@ int main () { status = H5Pset_szip (plist_id, szip_options_mask, szip_pixels_per_block); */ - dataset_id = H5Dcreate2 (file_id, "Compressed_Data", H5T_STD_I32BE, - dataspace_id, H5P_DEFAULT, plist_id, H5P_DEFAULT); + dataset_id = H5Dcreate2(file_id, "Compressed_Data", H5T_STD_I32BE, dataspace_id, H5P_DEFAULT, plist_id, + H5P_DEFAULT); - for (i = 0; i< DIM0; i++) - for (j=0; j<DIM1; j++) - buf[i][j] = i+j; + for (i = 0; i < DIM0; i++) + for (j = 0; j < DIM1; j++) + buf[i][j] = i + j; - status = H5Dwrite (dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf); + status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, buf); - status = H5Sclose (dataspace_id); - status = H5Dclose (dataset_id); - status = H5Pclose (plist_id); - status = H5Fclose (file_id); + status = H5Sclose(dataspace_id); + status = H5Dclose(dataset_id); + status = H5Pclose(plist_id); + status = H5Fclose(file_id); /* Now reopen the file and dataset in the file. */ - file_id = H5Fopen (FILE, H5F_ACC_RDWR, H5P_DEFAULT); - dataset_id = H5Dopen2 (file_id, "Compressed_Data", H5P_DEFAULT); + file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); + dataset_id = H5Dopen2(file_id, "Compressed_Data", H5P_DEFAULT); /* Retrieve filter information. */ - plist_id = H5Dget_create_plist (dataset_id); - - numfilt = H5Pget_nfilters (plist_id); - printf ("Number of filters associated with dataset: %i\n", numfilt); - - for (i=0; i<numfilt; i++) { - nelmts = 0; - filter_type = H5Pget_filter2 (plist_id, 0, &flags, &nelmts, NULL, 0, NULL, - &filter_info); - printf ("Filter Type: "); - switch (filter_type) { - case H5Z_FILTER_DEFLATE: - printf ("H5Z_FILTER_DEFLATE\n"); - break; - case H5Z_FILTER_SZIP: - printf ("H5Z_FILTER_SZIP\n"); - break; - default: - printf ("Other filter type included.\n"); - } + plist_id = H5Dget_create_plist(dataset_id); + + numfilt = H5Pget_nfilters(plist_id); + printf("Number of filters associated with dataset: %i\n", numfilt); + + for (i = 0; i < numfilt; i++) { + nelmts = 0; + filter_type = H5Pget_filter2(plist_id, 0, &flags, &nelmts, NULL, 0, NULL, &filter_info); + printf("Filter Type: "); + switch (filter_type) { + case H5Z_FILTER_DEFLATE: + printf("H5Z_FILTER_DEFLATE\n"); + break; + case H5Z_FILTER_SZIP: + printf("H5Z_FILTER_SZIP\n"); + break; + default: + printf("Other filter type included.\n"); + } } - status = H5Dread (dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, - H5P_DEFAULT, rbuf); + status = H5Dread(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, rbuf); - status = H5Dclose (dataset_id); - status = H5Pclose (plist_id); - status = H5Fclose (file_id); + status = H5Dclose(dataset_id); + status = H5Pclose(plist_id); + status = H5Fclose(file_id); } diff --git a/examples/h5_compound.c b/examples/h5_compound.c index b3b3a4a..6b4888e 100644 --- a/examples/h5_compound.c +++ b/examples/h5_compound.c @@ -19,10 +19,10 @@ #include "hdf5.h" -#define H5FILE_NAME "SDScompound.h5" -#define DATASETNAME "ArrayOfStructures" -#define LENGTH 10 -#define RANK 1 +#define H5FILE_NAME "SDScompound.h5" +#define DATASETNAME "ArrayOfStructures" +#define LENGTH 10 +#define RANK 1 int main(void) @@ -30,38 +30,37 @@ main(void) /* First structure and dataset*/ typedef struct s1_t { - int a; - float b; - double c; + int a; + float b; + double c; } s1_t; - s1_t s1[LENGTH]; - hid_t s1_tid; /* File datatype identifier */ + s1_t s1[LENGTH]; + hid_t s1_tid; /* File datatype identifier */ /* Second structure (subset of s1_t) and dataset*/ typedef struct s2_t { - double c; - int a; + double c; + int a; } s2_t; - s2_t s2[LENGTH]; - hid_t s2_tid; /* Memory datatype handle */ + s2_t s2[LENGTH]; + hid_t s2_tid; /* Memory datatype handle */ /* Third "structure" ( will be used to read float field of s1) */ - hid_t s3_tid; /* Memory datatype handle */ - float s3[LENGTH]; - - int i; - hid_t file, dataset, space; /* Handles */ - herr_t status; - hsize_t dim[] = {LENGTH}; /* Dataspace dimensions */ + hid_t s3_tid; /* Memory datatype handle */ + float s3[LENGTH]; + int i; + hid_t file, dataset, space; /* Handles */ + herr_t status; + hsize_t dim[] = {LENGTH}; /* Dataspace dimensions */ /* * Initialize the data */ - for (i = 0; i< LENGTH; i++) { + for (i = 0; i < LENGTH; i++) { s1[i].a = i; - s1[i].b = i*i; - s1[i].c = 1./(i+1); + s1[i].b = i * i; + s1[i].c = 1. / (i + 1); } /* @@ -77,7 +76,7 @@ main(void) /* * Create the memory data type. */ - s1_tid = H5Tcreate (H5T_COMPOUND, sizeof(s1_t)); + s1_tid = H5Tcreate(H5T_COMPOUND, sizeof(s1_t)); H5Tinsert(s1_tid, "a_name", HOFFSET(s1_t, a), H5T_NATIVE_INT); H5Tinsert(s1_tid, "c_name", HOFFSET(s1_t, c), H5T_NATIVE_DOUBLE); H5Tinsert(s1_tid, "b_name", HOFFSET(s1_t, b), H5T_NATIVE_FLOAT); @@ -126,12 +125,14 @@ main(void) */ printf("\n"); printf("Field c : \n"); - for( i = 0; i < LENGTH; i++) printf("%.4f ", s2[i].c); + for (i = 0; i < LENGTH; i++) + printf("%.4f ", s2[i].c); printf("\n"); printf("\n"); printf("Field a : \n"); - for( i = 0; i < LENGTH; i++) printf("%d ", s2[i].a); + for (i = 0; i < LENGTH; i++) + printf("%d ", s2[i].a); printf("\n"); /* @@ -151,7 +152,8 @@ main(void) */ printf("\n"); printf("Field b : \n"); - for( i = 0; i < LENGTH; i++) printf("%.4f ", s3[i]); + for (i = 0; i < LENGTH; i++) + printf("%.4f ", s3[i]); printf("\n"); /* diff --git a/examples/h5_crtatt.c b/examples/h5_crtatt.c index aa997e7..dbce4bb 100644 --- a/examples/h5_crtatt.c +++ b/examples/h5_crtatt.c @@ -19,43 +19,44 @@ #include "hdf5.h" #define FILE "dset.h5" -int main() { +int +main() +{ - hid_t file_id, dataset_id, attribute_id, dataspace_id; /* identifiers */ - hsize_t dims; - int attr_data[2]; - herr_t status; + hid_t file_id, dataset_id, attribute_id, dataspace_id; /* identifiers */ + hsize_t dims; + int attr_data[2]; + herr_t status; - /* Initialize the attribute data. */ - attr_data[0] = 100; - attr_data[1] = 200; + /* Initialize the attribute data. */ + attr_data[0] = 100; + attr_data[1] = 200; - /* Open an existing file. */ - file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); + /* Open an existing file. */ + file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); - /* Open an existing dataset. */ - dataset_id = H5Dopen2(file_id, "/dset", H5P_DEFAULT); + /* Open an existing dataset. */ + dataset_id = H5Dopen2(file_id, "/dset", H5P_DEFAULT); - /* Create the data space for the attribute. */ - dims = 2; - dataspace_id = H5Screate_simple(1, &dims, NULL); + /* Create the data space for the attribute. */ + dims = 2; + dataspace_id = H5Screate_simple(1, &dims, NULL); - /* Create a dataset attribute. */ - attribute_id = H5Acreate2 (dataset_id, "Units", H5T_STD_I32BE, dataspace_id, - H5P_DEFAULT, H5P_DEFAULT); + /* Create a dataset attribute. */ + attribute_id = H5Acreate2(dataset_id, "Units", H5T_STD_I32BE, dataspace_id, H5P_DEFAULT, H5P_DEFAULT); - /* Write the attribute data. */ - status = H5Awrite(attribute_id, H5T_NATIVE_INT, attr_data); + /* Write the attribute data. */ + status = H5Awrite(attribute_id, H5T_NATIVE_INT, attr_data); - /* Close the attribute. */ - status = H5Aclose(attribute_id); + /* Close the attribute. */ + status = H5Aclose(attribute_id); - /* Close the dataspace. */ - status = H5Sclose(dataspace_id); + /* Close the dataspace. */ + status = H5Sclose(dataspace_id); - /* Close to the dataset. */ - status = H5Dclose(dataset_id); + /* Close to the dataset. */ + status = H5Dclose(dataset_id); - /* Close the file. */ - status = H5Fclose(file_id); + /* Close the file. */ + status = H5Fclose(file_id); } diff --git a/examples/h5_crtdat.c b/examples/h5_crtdat.c index 9fcb186..d1c9e9c 100644 --- a/examples/h5_crtdat.c +++ b/examples/h5_crtdat.c @@ -19,31 +19,32 @@ #include "hdf5.h" #define FILE "dset.h5" -int main() { +int +main() +{ - hid_t file_id, dataset_id, dataspace_id; /* identifiers */ - hsize_t dims[2]; - herr_t status; + hid_t file_id, dataset_id, dataspace_id; /* identifiers */ + hsize_t dims[2]; + herr_t status; - /* Create a new file using default properties. */ - file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + /* Create a new file using default properties. */ + file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - /* Create the data space for the dataset. */ - dims[0] = 4; - dims[1] = 6; - dataspace_id = H5Screate_simple(2, dims, NULL); + /* Create the data space for the dataset. */ + dims[0] = 4; + dims[1] = 6; + dataspace_id = H5Screate_simple(2, dims, NULL); - /* Create the dataset. */ - dataset_id = H5Dcreate2(file_id, "/dset", H5T_STD_I32BE, dataspace_id, - H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + /* Create the dataset. */ + dataset_id = + H5Dcreate2(file_id, "/dset", H5T_STD_I32BE, dataspace_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - /* End access to the dataset and release resources used by it. */ - status = H5Dclose(dataset_id); + /* End access to the dataset and release resources used by it. */ + status = H5Dclose(dataset_id); - /* Terminate access to the data space. */ - status = H5Sclose(dataspace_id); + /* Terminate access to the data space. */ + status = H5Sclose(dataspace_id); - /* Close the file. */ - status = H5Fclose(file_id); + /* Close the file. */ + status = H5Fclose(file_id); } - diff --git a/examples/h5_crtgrp.c b/examples/h5_crtgrp.c index 1b110c2..065f595 100644 --- a/examples/h5_crtgrp.c +++ b/examples/h5_crtgrp.c @@ -19,20 +19,22 @@ #include "hdf5.h" #define FILE "group.h5" -int main() { +int +main() +{ - hid_t file_id, group_id; /* identifiers */ - herr_t status; + hid_t file_id, group_id; /* identifiers */ + herr_t status; - /* Create a new file using default properties. */ - file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + /* Create a new file using default properties. */ + file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - /* Create a group named "/MyGroup" in the file. */ - group_id = H5Gcreate2(file_id, "/MyGroup", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + /* Create a group named "/MyGroup" in the file. */ + group_id = H5Gcreate2(file_id, "/MyGroup", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - /* Close the group. */ - status = H5Gclose(group_id); + /* Close the group. */ + status = H5Gclose(group_id); - /* Terminate access to the file. */ - status = H5Fclose(file_id); + /* Terminate access to the file. */ + status = H5Fclose(file_id); } diff --git a/examples/h5_crtgrpar.c b/examples/h5_crtgrpar.c index 21a37c5..edc9f7b 100644 --- a/examples/h5_crtgrpar.c +++ b/examples/h5_crtgrpar.c @@ -19,28 +19,30 @@ #include "hdf5.h" #define FILE "groups.h5" -int main() { +int +main() +{ - hid_t file_id, group1_id, group2_id, group3_id; /* identifiers */ - herr_t status; + hid_t file_id, group1_id, group2_id, group3_id; /* identifiers */ + herr_t status; - /* Create a new file using default properties. */ - file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + /* Create a new file using default properties. */ + file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - /* Create group "MyGroup" in the root group using absolute name. */ - group1_id = H5Gcreate2(file_id, "/MyGroup", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + /* Create group "MyGroup" in the root group using absolute name. */ + group1_id = H5Gcreate2(file_id, "/MyGroup", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - /* Create group "Group_A" in group "MyGroup" using absolute name. */ - group2_id = H5Gcreate2(file_id, "/MyGroup/Group_A", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + /* Create group "Group_A" in group "MyGroup" using absolute name. */ + group2_id = H5Gcreate2(file_id, "/MyGroup/Group_A", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - /* Create group "Group_B" in group "MyGroup" using relative name. */ - group3_id = H5Gcreate2(group1_id, "Group_B", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + /* Create group "Group_B" in group "MyGroup" using relative name. */ + group3_id = H5Gcreate2(group1_id, "Group_B", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - /* Close groups. */ - status = H5Gclose(group1_id); - status = H5Gclose(group2_id); - status = H5Gclose(group3_id); + /* Close groups. */ + status = H5Gclose(group1_id); + status = H5Gclose(group2_id); + status = H5Gclose(group3_id); - /* Close the file. */ - status = H5Fclose(file_id); + /* Close the file. */ + status = H5Fclose(file_id); } diff --git a/examples/h5_crtgrpd.c b/examples/h5_crtgrpd.c index d0d535b..05de517 100644 --- a/examples/h5_crtgrpd.c +++ b/examples/h5_crtgrpd.c @@ -19,71 +19,70 @@ #include "hdf5.h" #define FILE "groups.h5" -int main() { +int +main() +{ - hid_t file_id, group_id, dataset_id, dataspace_id; /* identifiers */ - hsize_t dims[2]; - herr_t status; - int i, j, dset1_data[3][3], dset2_data[2][10]; + hid_t file_id, group_id, dataset_id, dataspace_id; /* identifiers */ + hsize_t dims[2]; + herr_t status; + int i, j, dset1_data[3][3], dset2_data[2][10]; - /* Initialize the first dataset. */ - for (i = 0; i < 3; i++) - for (j = 0; j < 3; j++) - dset1_data[i][j] = j + 1; + /* Initialize the first dataset. */ + for (i = 0; i < 3; i++) + for (j = 0; j < 3; j++) + dset1_data[i][j] = j + 1; - /* Initialize the second dataset. */ - for (i = 0; i < 2; i++) - for (j = 0; j < 10; j++) - dset2_data[i][j] = j + 1; + /* Initialize the second dataset. */ + for (i = 0; i < 2; i++) + for (j = 0; j < 10; j++) + dset2_data[i][j] = j + 1; - /* Open an existing file. */ - file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); + /* Open an existing file. */ + file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); - /* Create the data space for the first dataset. */ - dims[0] = 3; - dims[1] = 3; - dataspace_id = H5Screate_simple(2, dims, NULL); + /* Create the data space for the first dataset. */ + dims[0] = 3; + dims[1] = 3; + dataspace_id = H5Screate_simple(2, dims, NULL); - /* Create a dataset in group "MyGroup". */ - dataset_id = H5Dcreate2(file_id, "/MyGroup/dset1", H5T_STD_I32BE, dataspace_id, - H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + /* Create a dataset in group "MyGroup". */ + dataset_id = H5Dcreate2(file_id, "/MyGroup/dset1", H5T_STD_I32BE, dataspace_id, H5P_DEFAULT, H5P_DEFAULT, + H5P_DEFAULT); - /* Write the first dataset. */ - status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - dset1_data); + /* Write the first dataset. */ + status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset1_data); - /* Close the data space for the first dataset. */ - status = H5Sclose(dataspace_id); + /* Close the data space for the first dataset. */ + status = H5Sclose(dataspace_id); - /* Close the first dataset. */ - status = H5Dclose(dataset_id); + /* Close the first dataset. */ + status = H5Dclose(dataset_id); - /* Open an existing group of the specified file. */ - group_id = H5Gopen2(file_id, "/MyGroup/Group_A", H5P_DEFAULT); + /* Open an existing group of the specified file. */ + group_id = H5Gopen2(file_id, "/MyGroup/Group_A", H5P_DEFAULT); - /* Create the data space for the second dataset. */ - dims[0] = 2; - dims[1] = 10; - dataspace_id = H5Screate_simple(2, dims, NULL); + /* Create the data space for the second dataset. */ + dims[0] = 2; + dims[1] = 10; + dataspace_id = H5Screate_simple(2, dims, NULL); - /* Create the second dataset in group "Group_A". */ - dataset_id = H5Dcreate2(group_id, "dset2", H5T_STD_I32BE, dataspace_id, - H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + /* Create the second dataset in group "Group_A". */ + dataset_id = + H5Dcreate2(group_id, "dset2", H5T_STD_I32BE, dataspace_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - /* Write the second dataset. */ - status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - dset2_data); + /* Write the second dataset. */ + status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset2_data); - /* Close the data space for the second dataset. */ - status = H5Sclose(dataspace_id); + /* Close the data space for the second dataset. */ + status = H5Sclose(dataspace_id); - /* Close the second dataset */ - status = H5Dclose(dataset_id); + /* Close the second dataset */ + status = H5Dclose(dataset_id); - /* Close the group. */ - status = H5Gclose(group_id); + /* Close the group. */ + status = H5Gclose(group_id); - /* Close the file. */ - status = H5Fclose(file_id); + /* Close the file. */ + status = H5Fclose(file_id); } - diff --git a/examples/h5_debug_trace.c b/examples/h5_debug_trace.c index 5da55ed..0f0ec97 100644 --- a/examples/h5_debug_trace.c +++ b/examples/h5_debug_trace.c @@ -12,7 +12,7 @@ * http://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have * * access to either file, you may request a copy from help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ - + /* This example demonstrates debug trace output. * * Debug/trace/performance output is not tested as a regular part of our @@ -42,33 +42,33 @@ * fast machines, these numbers may be 0.0. Adjust the loop variables in * the program as needed to generate reasonable output. */ - + #include <stdio.h> #include <stdlib.h> - + #include "hdf5.h" - -#define BUF_SIZE 1048576 -#define N_LOOPS 64 - + +#define BUF_SIZE 1048576 +#define N_LOOPS 64 + #define TESTFILE "h5_debug_trace_out.h5" - + int main(int argc, char **argv) { - int i, j; + int i, j; int *data; - - hid_t fid; - hid_t pid; - hid_t did; - hid_t sid; - - hsize_t dims[1] = { BUF_SIZE }; - hsize_t chunk_sizes[1] = { 1024 }; - + + hid_t fid; + hid_t pid; + hid_t did; + hid_t sid; + + hsize_t dims[1] = {BUF_SIZE}; + hsize_t chunk_sizes[1] = {1024}; + herr_t err; - + /*************************************************************************/ /* Warn the user about trace deluge to come */ @@ -82,55 +82,52 @@ main(int argc, char **argv) fflush(stdout); /* This will emit H5Tconvert() performance information */ - - for(i = 0; i < N_LOOPS; i++) { - + + for (i = 0; i < N_LOOPS; i++) { + /* The buffer has to be large enough to hold the conversion output */ data = (int *)malloc(BUF_SIZE * sizeof(double)); - - for(j = 0; j < BUF_SIZE; j++) { + + for (j = 0; j < BUF_SIZE; j++) { data[j] = j; } - - err = H5Tconvert(H5T_NATIVE_INT, H5T_NATIVE_DOUBLE, BUF_SIZE, data, - NULL, H5P_DEFAULT); - - if(err < 0) { + + err = H5Tconvert(H5T_NATIVE_INT, H5T_NATIVE_DOUBLE, BUF_SIZE, data, NULL, H5P_DEFAULT); + + if (err < 0) { fprintf(stderr, "ERROR: Conversion failed\n"); free(data); return err; } - + free(data); - } - - + /* This will emit H5Z performance information */ - + data = (int *)malloc(BUF_SIZE * sizeof(int)); - - for(i = 0; i < BUF_SIZE; i++) { + + for (i = 0; i < BUF_SIZE; i++) { data[i] = i; } - + fid = H5Fcreate(TESTFILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - + pid = H5Pcreate(H5P_DATASET_CREATE); err = H5Pset_chunk(pid, 1, chunk_sizes); err = H5Pset_shuffle(pid); - + sid = H5Screate_simple(1, dims, dims); did = H5Dcreate2(fid, "somedata", H5T_NATIVE_INT, sid, H5P_DEFAULT, pid, H5P_DEFAULT); err = H5Dwrite(did, H5T_NATIVE_INT, sid, sid, H5P_DEFAULT, data); - + H5Sclose(sid); H5Dclose(did); H5Pclose(pid); H5Fclose(fid); - + free(data); - + /* Finished */ fflush(stdout); printf("\n"); @@ -138,7 +135,6 @@ main(int argc, char **argv) printf("\n"); remove(TESTFILE); - + return 0; } - diff --git a/examples/h5_drivers.c b/examples/h5_drivers.c index 43c1fc7..486cf3b 100644 --- a/examples/h5_drivers.c +++ b/examples/h5_drivers.c @@ -22,13 +22,12 @@ #include "stdlib.h" /* global variables */ -int cleanup_g = -1; /* whether to clean. Init to not set. */ +int cleanup_g = -1; /* whether to clean. Init to not set. */ /* prototypes */ void cleanup(const char *); void split_file(void); - /* * Cleanup a file unless $HDF5_NOCLEANUP is set. */ @@ -36,12 +35,11 @@ void cleanup(const char *filename) { if (cleanup_g == -1) - cleanup_g = getenv("HDF5_NOCLEANUP") ? 0 : 1; + cleanup_g = getenv("HDF5_NOCLEANUP") ? 0 : 1; if (cleanup_g) - remove(filename); + remove(filename); } - /* * This shows how to use the split file driver. */ @@ -55,7 +53,7 @@ split_file(void) /* the metadata and rawdata files. */ fapl = H5Pcreate(H5P_FILE_ACCESS); H5Pset_fapl_split(fapl, "-m.h5", H5P_DEFAULT, "-r.h5", H5P_DEFAULT); - fid=H5Fcreate("Station1",H5F_ACC_TRUNC,H5P_DEFAULT,fapl); + fid = H5Fcreate("Station1", H5F_ACC_TRUNC, H5P_DEFAULT, fapl); /* using the file ... */ H5Fclose(fid); H5Pclose(fapl); @@ -68,7 +66,7 @@ split_file(void) /* the metadata and rawdata files. */ fapl = H5Pcreate(H5P_FILE_ACCESS); H5Pset_fapl_split(fapl, "-m.h5", H5P_DEFAULT, "/tmp/%s-r.h5", H5P_DEFAULT); - fid=H5Fcreate("PointA",H5F_ACC_TRUNC,H5P_DEFAULT,fapl); + fid = H5Fcreate("PointA", H5F_ACC_TRUNC, H5P_DEFAULT, fapl); /* using the file ... */ H5Fclose(fid); H5Pclose(fapl); @@ -81,7 +79,7 @@ split_file(void) /* the metadata and rawdata files. */ fapl = H5Pcreate(H5P_FILE_ACCESS); H5Pset_fapl_split(fapl, NULL, H5P_DEFAULT, NULL, H5P_DEFAULT); - fid=H5Fcreate("Measure",H5F_ACC_TRUNC,H5P_DEFAULT,fapl); + fid = H5Fcreate("Measure", H5F_ACC_TRUNC, H5P_DEFAULT, fapl); /* using the file ... */ H5Fclose(fid); H5Pclose(fapl); @@ -90,13 +88,12 @@ split_file(void) cleanup("Measure.raw"); } - /* Main Body */ int -main (void) +main(void) { split_file(); - return(0); + return (0); } diff --git a/examples/h5_dtransform.c b/examples/h5_dtransform.c index 99cc48e..c36a3dd 100644 --- a/examples/h5_dtransform.c +++ b/examples/h5_dtransform.c @@ -33,8 +33,8 @@ #include "hdf5.h" -#define ROWS 12 -#define COLS 18 +#define ROWS 12 +#define COLS 18 /* clang-format off */ const float windchillF[ROWS][COLS] = @@ -53,32 +53,28 @@ const float windchillF[ROWS][COLS] = }; /* clang-format on */ -#define PRINT(array) \ -{ \ - for(i=0; i<ROWS; i++) \ - { \ - for(j=0; j<COLS; j++) \ - printf("%6.2f ", array[i][j]); \ - printf("\n"); \ - } \ -} - - - +#define PRINT(array) \ + { \ + for (i = 0; i < ROWS; i++) { \ + for (j = 0; j < COLS; j++) \ + printf("%6.2f ", array[i][j]); \ + printf("\n"); \ + } \ + } int -main (void) +main(void) { - hid_t file, dataset; /* file and dataset handles */ - hid_t dataspace; /* handles */ - hsize_t dimsf[2]; /* dataset dimensions */ + hid_t file, dataset; /* file and dataset handles */ + hid_t dataspace; /* handles */ + hsize_t dimsf[2]; /* dataset dimensions */ herr_t status; - hid_t dxpl_id_f_to_c, dxpl_id_c_to_f; /* data transform handles */ - const char* f_to_c = "(5/9.0)*(x-32)"; - const char* c_to_f = "(9/5.0)*x + 32"; - char* transform; - float windchillC[ROWS][COLS]; - int i,j, transform_size; + hid_t dxpl_id_f_to_c, dxpl_id_c_to_f; /* data transform handles */ + const char *f_to_c = "(5/9.0)*(x-32)"; + const char *c_to_f = "(9/5.0)*x + 32"; + char * transform; + float windchillC[ROWS][COLS]; + int i, j, transform_size; /* * Create a new file using H5F_ACC_TRUNC access, @@ -91,28 +87,25 @@ main (void) * Describe the size of the array and create the data space for fixed * size dataset. */ - dimsf[0] = ROWS; - dimsf[1] = COLS; + dimsf[0] = ROWS; + dimsf[1] = COLS; dataspace = H5Screate_simple(2, dimsf, NULL); /* * Create a new dataset within the file using defined dataspace and * datatype and default dataset creation properties. */ - dataset = H5Dcreate2(file, "data_no_trans", H5T_NATIVE_FLOAT, dataspace, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dataset = + H5Dcreate2(file, "data_no_trans", H5T_NATIVE_FLOAT, dataspace, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); printf("\nOriginal Data: \n"); PRINT(windchillF); - - - -/**************** PART 1 **************/ + /**************** PART 1 **************/ /* * Write the data to the dataset using default transfer properties (ie, no transform set) */ - status = H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, - H5P_DEFAULT, windchillF); + status = H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, windchillF); /* Create the dataset transfer property list */ dxpl_id_f_to_c = H5Pcreate(H5P_DATASET_XFER); @@ -127,13 +120,11 @@ main (void) printf("\nData with no write transform, but a read transform: \n"); PRINT(windchillC); - -/**************** PART 2 **************/ + /**************** PART 2 **************/ /* * Write the data to the dataset with the f_to_c transform set */ - status = H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, - dxpl_id_f_to_c, windchillF); + status = H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, dxpl_id_f_to_c, windchillF); /* Read out the data with the default transfer list (ie, no transform set) */ H5Dread(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, H5P_DEFAULT, windchillC); @@ -142,8 +133,7 @@ main (void) printf("\nData with write transform, but no read transform: \n"); PRINT(windchillC); -/************** PART 3 ***************/ - + /************** PART 3 ***************/ /* Create the dataset transfer property list */ dxpl_id_c_to_f = H5Pcreate(H5P_DATASET_XFER); @@ -151,12 +141,10 @@ main (void) /* Set the data transform to be used on the read*/ H5Pset_data_transform(dxpl_id_c_to_f, c_to_f); - /* * Write the data to the dataset using the f_to_c transform */ - status = H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, - dxpl_id_f_to_c, windchillF); + status = H5Dwrite(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, dxpl_id_f_to_c, windchillF); /* Read the data with the c_to_f data transform */ H5Dread(dataset, H5T_NATIVE_FLOAT, H5S_ALL, H5S_ALL, dxpl_id_c_to_f, windchillC); @@ -165,10 +153,10 @@ main (void) printf("\nData with both read and write data transform: \n"); PRINT(windchillC); -/************** PART 4 **************/ + /************** PART 4 **************/ transform_size = H5Pget_data_transform(dxpl_id_f_to_c, NULL, 0); - transform = (char*) malloc(transform_size+1); - H5Pget_data_transform(dxpl_id_f_to_c, transform, transform_size+1); + transform = (char *)malloc(transform_size + 1); + H5Pget_data_transform(dxpl_id_f_to_c, transform, transform_size + 1); printf("\nTransform string (from dxpl_id_f_to_c) is: %s\n", transform); diff --git a/examples/h5_elink_unix2win.c b/examples/h5_elink_unix2win.c index c29e7db..44986cb 100644 --- a/examples/h5_elink_unix2win.c +++ b/examples/h5_elink_unix2win.c @@ -27,7 +27,6 @@ #include <stdlib.h> #include <string.h> - /* "Windows to Unix" traversal function for external links * * Translates a filename stored in Unix format to Windows format by replacing @@ -37,45 +36,44 @@ * Note that this may not be necessary on your system; many Windows systems can * understand Unix paths. */ -static hid_t elink_unix2win_trav(const char *link_name, hid_t cur_group, - const void *udata, size_t udata_size, hid_t lapl_id, hid_t dxpl_id) +static hid_t +elink_unix2win_trav(const char *link_name, hid_t cur_group, const void *udata, size_t udata_size, + hid_t lapl_id, hid_t dxpl_id) { - hid_t fid; - const char *file_name; - const char *obj_name; - char *new_fname = NULL; /* Buffer allocated to hold Unix file path */ - ssize_t prefix_len; /* External link prefix length */ - size_t fname_len; - size_t start_pos; /* Initial position in new_fname buffer */ - size_t x; /* Counter variable */ - hid_t ret_value = -1; + hid_t fid; + const char *file_name; + const char *obj_name; + char * new_fname = NULL; /* Buffer allocated to hold Unix file path */ + ssize_t prefix_len; /* External link prefix length */ + size_t fname_len; + size_t start_pos; /* Initial position in new_fname buffer */ + size_t x; /* Counter variable */ + hid_t ret_value = -1; printf("Converting Unix path to Windows path.\n"); - if(H5Lunpack_elink_val(udata, udata_size, NULL, &file_name, &obj_name) < 0) + if (H5Lunpack_elink_val(udata, udata_size, NULL, &file_name, &obj_name) < 0) goto error; fname_len = strlen(file_name); /* See if the external link prefix property is set */ - if((prefix_len = H5Pget_elink_prefix(lapl_id, NULL, 0)) < 0) + if ((prefix_len = H5Pget_elink_prefix(lapl_id, NULL, 0)) < 0) goto error; /* If so, prepend it to the filename. We assume that the prefix * is in the correct format for the current file system. */ - if(prefix_len > 0) - { + if (prefix_len > 0) { /* Allocate a buffer to hold the filename plus prefix */ new_fname = malloc(prefix_len + fname_len + 1); /* Copy the prefix into the buffer */ - if(H5Pget_elink_prefix(lapl_id, new_fname, (size_t)(prefix_len + 1)) < 0) + if (H5Pget_elink_prefix(lapl_id, new_fname, (size_t)(prefix_len + 1)) < 0) goto error; start_pos = prefix_len; } - else - { + else { /* Allocate a buffer to hold just the filename */ new_fname = malloc(fname_len + 1); start_pos = 0; @@ -84,9 +82,8 @@ static hid_t elink_unix2win_trav(const char *link_name, hid_t cur_group, /* We should now copy file_name into new_fname starting at position pos. * We'll convert '/' characters into '\' characters as we go. */ - for(x=0; file_name[x] != '\0'; x++) - { - if(file_name[x] == '/') + for (x = 0; file_name[x] != '\0'; x++) { + if (file_name[x] == '/') new_fname[x + start_pos] = '\\'; else new_fname[x + start_pos] = file_name[x]; @@ -94,38 +91,37 @@ static hid_t elink_unix2win_trav(const char *link_name, hid_t cur_group, new_fname[x + start_pos] = '\0'; /* Now open the file and object within it */ - if((fid = H5Fopen(new_fname, H5F_ACC_RDWR, H5P_DEFAULT)) < 0) + if ((fid = H5Fopen(new_fname, H5F_ACC_RDWR, H5P_DEFAULT)) < 0) goto error; ret_value = H5Oopen(fid, obj_name, lapl_id); /* If this fails, our return value will be negative. */ - if(H5Fclose(fid) < 0) + if (H5Fclose(fid) < 0) goto error; /* Free file name if it's been allocated */ - if(new_fname) + if (new_fname) free(new_fname); return ret_value; error: /* Free file name if it's been allocated */ - if(new_fname) + if (new_fname) free(new_fname); return -1; } const H5L_class_t elink_unix2win_class[1] = {{ - H5L_LINK_CLASS_T_VERS, /* H5L_class_t version */ - H5L_TYPE_EXTERNAL, /* Link type id number */ - "unix2win external link", /* Link class name for debugging */ - NULL, /* Creation callback */ - NULL, /* Move callback */ - NULL, /* Copy callback */ - elink_unix2win_trav, /* The actual traversal function */ - NULL, /* Deletion callback */ - NULL /* Query callback */ + H5L_LINK_CLASS_T_VERS, /* H5L_class_t version */ + H5L_TYPE_EXTERNAL, /* Link type id number */ + "unix2win external link", /* Link class name for debugging */ + NULL, /* Creation callback */ + NULL, /* Move callback */ + NULL, /* Copy callback */ + elink_unix2win_trav, /* The actual traversal function */ + NULL, /* Deletion callback */ + NULL /* Query callback */ }}; - /* The example function. * Creates a file named "unix2win.h5" with an external link pointing to * the file "u2w/u2w_target.h5". @@ -136,55 +132,65 @@ const H5L_class_t elink_unix2win_class[1] = {{ static int unix2win_example(void) { - hid_t fid = (-1); /* File ID */ - hid_t gid = (-1); /* Group ID */ + hid_t fid = (-1); /* File ID */ + hid_t gid = (-1); /* Group ID */ /* Create the target file. */ #ifdef H5_HAVE_WIN32_API - if((fid=H5Fcreate("u2w\\u2w_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT))<0) goto error; + if ((fid = H5Fcreate("u2w\\u2w_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT)) < 0) + goto error; #else - if((fid=H5Fcreate("u2w/u2w_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT))<0) goto error; + if ((fid = H5Fcreate("u2w/u2w_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT)) < 0) + goto error; #endif - if(H5Fclose(fid) < 0) goto error; + if (H5Fclose(fid) < 0) + goto error; /* Create the source file with an external link in Windows format */ - if((fid=H5Fcreate("unix2win.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT))<0) goto error; + if ((fid = H5Fcreate("unix2win.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT)) < 0) + goto error; /* Create the external link */ - if(H5Lcreate_external("u2w/../u2w/u2w_target.h5", "/", fid, "ext_link", H5P_DEFAULT, H5P_DEFAULT) < 0) goto error; + if (H5Lcreate_external("u2w/../u2w/u2w_target.h5", "/", fid, "ext_link", H5P_DEFAULT, H5P_DEFAULT) < 0) + goto error; - /* If we are not on Windows, assume we are on a Unix-y filesystem and - * follow the external link normally. - * If we are on Windows, register the unix2win traversal function so - * that external links can be traversed. - */ + /* If we are not on Windows, assume we are on a Unix-y filesystem and + * follow the external link normally. + * If we are on Windows, register the unix2win traversal function so + * that external links can be traversed. + */ #ifdef H5_HAVE_WIN32_API /* Register the elink_unix2win class defined above to replace default * external links */ - if(H5Lregister(elink_unix2win_class) < 0) goto error; + if (H5Lregister(elink_unix2win_class) < 0) + goto error; #endif /* Now follow the link */ - if((gid = H5Gopen2(fid, "ext_link", H5P_DEFAULT)) < 0) goto error; + if ((gid = H5Gopen2(fid, "ext_link", H5P_DEFAULT)) < 0) + goto error; printf("Successfully followed external link.\n"); /* Close the group and the file */ - if(H5Gclose(gid) <0) goto error; - if(H5Fclose(fid) <0) goto error; + if (H5Gclose(gid) < 0) + goto error; + if (H5Fclose(fid) < 0) + goto error; return 0; - error: +error: printf("Error!\n"); - H5E_BEGIN_TRY { - H5Gclose (gid); - H5Fclose (fid); - } H5E_END_TRY; + H5E_BEGIN_TRY + { + H5Gclose(gid); + H5Fclose(fid); + } + H5E_END_TRY; return -1; } - /* Main function * @@ -193,12 +199,10 @@ unix2win_example(void) int main(void) { - int ret; + int ret; printf("Testing unix2win external links.\n"); ret = unix2win_example(); return ret; } - - diff --git a/examples/h5_extend.c b/examples/h5_extend.c index 6018e65..749a73a 100644 --- a/examples/h5_extend.c +++ b/examples/h5_extend.c @@ -18,127 +18,114 @@ * It is used in the HDF5 Tutorial. */ - #include "hdf5.h" #define FILENAME "extend.h5" #define DATASETNAME "ExtendibleArray" -#define RANK 2 +#define RANK 2 int -main (void) +main(void) { - hid_t file; /* handles */ - hid_t dataspace, dataset; - hid_t filespace, memspace; - hid_t prop; - - hsize_t dims[2] = {3, 3}; /* dataset dimensions at creation time */ - hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED}; - herr_t status; - hsize_t chunk_dims[2] = {2, 5}; - int data[3][3] = { {1, 1, 1}, /* data to write */ - {1, 1, 1}, - {1, 1, 1} }; + hid_t file; /* handles */ + hid_t dataspace, dataset; + hid_t filespace, memspace; + hid_t prop; + + hsize_t dims[2] = {3, 3}; /* dataset dimensions at creation time */ + hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED}; + herr_t status; + hsize_t chunk_dims[2] = {2, 5}; + int data[3][3] = {{1, 1, 1}, /* data to write */ + {1, 1, 1}, + {1, 1, 1}}; /* Variables used in extending and writing to the extended portion of dataset */ - hsize_t size[2]; - hsize_t offset[2]; - hsize_t dimsext[2] = {7, 3}; /* extend dimensions */ - int dataext[7][3] = { {2, 3, 4}, - {2, 3, 4}, - {2, 3, 4}, - {2, 3, 4}, - {2, 3, 4}, - {2, 3, 4}, - {2, 3, 4} }; + hsize_t size[2]; + hsize_t offset[2]; + hsize_t dimsext[2] = {7, 3}; /* extend dimensions */ + int dataext[7][3] = {{2, 3, 4}, {2, 3, 4}, {2, 3, 4}, {2, 3, 4}, {2, 3, 4}, {2, 3, 4}, {2, 3, 4}}; /* Variables used in reading data back */ - hsize_t chunk_dimsr[2]; - hsize_t dimsr[2]; - hsize_t i, j; - int rdata[10][3]; - herr_t status_n; - int rank, rank_chunk; + hsize_t chunk_dimsr[2]; + hsize_t dimsr[2]; + hsize_t i, j; + int rdata[10][3]; + herr_t status_n; + int rank, rank_chunk; /* Create the data space with unlimited dimensions. */ - dataspace = H5Screate_simple (RANK, dims, maxdims); + dataspace = H5Screate_simple(RANK, dims, maxdims); /* Create a new file. If file exists its contents will be overwritten. */ - file = H5Fcreate (FILENAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file = H5Fcreate(FILENAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Modify dataset creation properties, i.e. enable chunking */ - prop = H5Pcreate (H5P_DATASET_CREATE); - status = H5Pset_chunk (prop, RANK, chunk_dims); + prop = H5Pcreate(H5P_DATASET_CREATE); + status = H5Pset_chunk(prop, RANK, chunk_dims); /* Create a new dataset within the file using chunk creation properties. */ - dataset = H5Dcreate2 (file, DATASETNAME, H5T_NATIVE_INT, dataspace, - H5P_DEFAULT, prop, H5P_DEFAULT); + dataset = H5Dcreate2(file, DATASETNAME, H5T_NATIVE_INT, dataspace, H5P_DEFAULT, prop, H5P_DEFAULT); /* Write data to dataset */ - status = H5Dwrite (dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, - H5P_DEFAULT, data); + status = H5Dwrite(dataset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, data); /* Extend the dataset. Dataset becomes 10 x 3 */ - size[0] = dims[0]+ dimsext[0]; + size[0] = dims[0] + dimsext[0]; size[1] = dims[1]; - status = H5Dset_extent (dataset, size); + status = H5Dset_extent(dataset, size); /* Select a hyperslab in extended portion of dataset */ - filespace = H5Dget_space (dataset); + filespace = H5Dget_space(dataset); offset[0] = 3; offset[1] = 0; - status = H5Sselect_hyperslab (filespace, H5S_SELECT_SET, offset, NULL, - dimsext, NULL); + status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, dimsext, NULL); /* Define memory space */ - memspace = H5Screate_simple (RANK, dimsext, NULL); + memspace = H5Screate_simple(RANK, dimsext, NULL); /* Write the data to the extended portion of dataset */ - status = H5Dwrite (dataset, H5T_NATIVE_INT, memspace, filespace, - H5P_DEFAULT, dataext); + status = H5Dwrite(dataset, H5T_NATIVE_INT, memspace, filespace, H5P_DEFAULT, dataext); /* Close resources */ - status = H5Dclose (dataset); - status = H5Pclose (prop); - status = H5Sclose (dataspace); - status = H5Sclose (memspace); - status = H5Sclose (filespace); - status = H5Fclose (file); + status = H5Dclose(dataset); + status = H5Pclose(prop); + status = H5Sclose(dataspace); + status = H5Sclose(memspace); + status = H5Sclose(filespace); + status = H5Fclose(file); /******************************************** * Re-open the file and read the data back. * ********************************************/ - file = H5Fopen (FILENAME, H5F_ACC_RDONLY, H5P_DEFAULT); - dataset = H5Dopen2 (file, DATASETNAME, H5P_DEFAULT); + file = H5Fopen(FILENAME, H5F_ACC_RDONLY, H5P_DEFAULT); + dataset = H5Dopen2(file, DATASETNAME, H5P_DEFAULT); - filespace = H5Dget_space (dataset); - rank = H5Sget_simple_extent_ndims (filespace); - status_n = H5Sget_simple_extent_dims (filespace, dimsr, NULL); + filespace = H5Dget_space(dataset); + rank = H5Sget_simple_extent_ndims(filespace); + status_n = H5Sget_simple_extent_dims(filespace, dimsr, NULL); - prop = H5Dget_create_plist (dataset); + prop = H5Dget_create_plist(dataset); - if (H5D_CHUNKED == H5Pget_layout (prop)) - rank_chunk = H5Pget_chunk (prop, rank, chunk_dimsr); + if (H5D_CHUNKED == H5Pget_layout(prop)) + rank_chunk = H5Pget_chunk(prop, rank, chunk_dimsr); - memspace = H5Screate_simple (rank, dimsr, NULL); - status = H5Dread (dataset, H5T_NATIVE_INT, memspace, filespace, - H5P_DEFAULT, rdata); + memspace = H5Screate_simple(rank, dimsr, NULL); + status = H5Dread(dataset, H5T_NATIVE_INT, memspace, filespace, H5P_DEFAULT, rdata); printf("\n"); printf("Dataset: \n"); - for (j = 0; j < dimsr[0]; j++) - { - for (i = 0; i < dimsr[1]; i++) - printf("%d ", rdata[j][i]); - printf("\n"); + for (j = 0; j < dimsr[0]; j++) { + for (i = 0; i < dimsr[1]; i++) + printf("%d ", rdata[j][i]); + printf("\n"); } - status = H5Pclose (prop); - status = H5Dclose (dataset); - status = H5Sclose (filespace); - status = H5Sclose (memspace); - status = H5Fclose (file); + status = H5Pclose(prop); + status = H5Dclose(dataset); + status = H5Sclose(filespace); + status = H5Sclose(memspace); + status = H5Fclose(file); } diff --git a/examples/h5_extend_write.c b/examples/h5_extend_write.c index 4abda30..ad7ef50 100644 --- a/examples/h5_extend_write.c +++ b/examples/h5_extend_write.c @@ -20,43 +20,42 @@ #include "hdf5.h" -#define H5FILE_NAME "SDSextendible.h5" +#define H5FILE_NAME "SDSextendible.h5" #define DATASETNAME "ExtendibleArray" -#define RANK 2 -#define NX 10 -#define NY 5 +#define RANK 2 +#define NX 10 +#define NY 5 int -main (void) +main(void) { - hid_t file; /* handles */ - hid_t dataspace, dataset; - hid_t filespace; - hid_t cparms; - hsize_t dims[2] = { 3, 3}; /* - * dataset dimensions - * at the creation time - */ - hsize_t dims1[2] = { 3, 3}; /* data1 dimensions */ - hsize_t dims2[2] = { 7, 1}; /* data2 dimensions */ - hsize_t dims3[2] = { 2, 2}; /* data3 dimensions */ + hid_t file; /* handles */ + hid_t dataspace, dataset; + hid_t filespace; + hid_t cparms; + hsize_t dims[2] = {3, 3}; /* + * dataset dimensions + * at the creation time + */ + hsize_t dims1[2] = {3, 3}; /* data1 dimensions */ + hsize_t dims2[2] = {7, 1}; /* data2 dimensions */ + hsize_t dims3[2] = {2, 2}; /* data3 dimensions */ - hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED}; - hsize_t chunk_dims[2] ={2, 5}; - hsize_t size[2]; - hsize_t offset[2]; + hsize_t maxdims[2] = {H5S_UNLIMITED, H5S_UNLIMITED}; + hsize_t chunk_dims[2] = {2, 5}; + hsize_t size[2]; + hsize_t offset[2]; - herr_t status; + herr_t status; - int data1[3][3] = { {1, 1, 1}, /* data to write */ - {1, 1, 1}, - {1, 1, 1} }; + int data1[3][3] = {{1, 1, 1}, /* data to write */ + {1, 1, 1}, + {1, 1, 1}}; - int data2[7] = { 2, 2, 2, 2, 2, 2, 2}; + int data2[7] = {2, 2, 2, 2, 2, 2, 2}; - int data3[2][2] = { {3, 3}, - {3, 3} }; - int fillvalue = 0; + int data3[2][2] = {{3, 3}, {3, 3}}; + int fillvalue = 0; /* * Create the data space with unlimited dimensions. @@ -72,22 +71,21 @@ main (void) * Modify dataset creation properties, i.e. enable chunking. */ cparms = H5Pcreate(H5P_DATASET_CREATE); - status = H5Pset_chunk( cparms, RANK, chunk_dims); - status = H5Pset_fill_value (cparms, H5T_NATIVE_INT, &fillvalue ); + status = H5Pset_chunk(cparms, RANK, chunk_dims); + status = H5Pset_fill_value(cparms, H5T_NATIVE_INT, &fillvalue); /* * Create a new dataset within the file using cparms * creation properties. */ - dataset = H5Dcreate2(file, DATASETNAME, H5T_NATIVE_INT, dataspace, H5P_DEFAULT, - cparms, H5P_DEFAULT); + dataset = H5Dcreate2(file, DATASETNAME, H5T_NATIVE_INT, dataspace, H5P_DEFAULT, cparms, H5P_DEFAULT); /* * Extend the dataset. This call assures that dataset is at least 3 x 3. */ - size[0] = 3; - size[1] = 3; - status = H5Dset_extent(dataset, size); + size[0] = 3; + size[1] = 3; + status = H5Dset_extent(dataset, size); /* * Select a hyperslab. @@ -95,22 +93,20 @@ main (void) filespace = H5Dget_space(dataset); offset[0] = 0; offset[1] = 0; - status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, - dims1, NULL); + status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, dims1, NULL); /* * Write the data to the hyperslab. */ - status = H5Dwrite(dataset, H5T_NATIVE_INT, dataspace, filespace, - H5P_DEFAULT, data1); + status = H5Dwrite(dataset, H5T_NATIVE_INT, dataspace, filespace, H5P_DEFAULT, data1); /* * Extend the dataset. Dataset becomes 10 x 3. */ - dims[0] = dims1[0] + dims2[0]; - size[0] = dims[0]; - size[1] = dims[1]; - status = H5Dset_extent(dataset, size); + dims[0] = dims1[0] + dims2[0]; + size[0] = dims[0]; + size[1] = dims[1]; + status = H5Dset_extent(dataset, size); /* * Select a hyperslab. @@ -118,8 +114,7 @@ main (void) filespace = H5Dget_space(dataset); offset[0] = 3; offset[1] = 0; - status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, - dims2, NULL); + status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, dims2, NULL); /* * Define memory space @@ -129,16 +124,15 @@ main (void) /* * Write the data to the hyperslab. */ - status = H5Dwrite(dataset, H5T_NATIVE_INT, dataspace, filespace, - H5P_DEFAULT, data2); + status = H5Dwrite(dataset, H5T_NATIVE_INT, dataspace, filespace, H5P_DEFAULT, data2); /* * Extend the dataset. Dataset becomes 10 x 5. */ - dims[1] = dims1[1] + dims3[1]; - size[0] = dims[0]; - size[1] = dims[1]; - status = H5Dset_extent(dataset, size); + dims[1] = dims1[1] + dims3[1]; + size[0] = dims[0]; + size[1] = dims[1]; + status = H5Dset_extent(dataset, size); /* * Select a hyperslab @@ -146,8 +140,7 @@ main (void) filespace = H5Dget_space(dataset); offset[0] = 0; offset[1] = 3; - status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, - dims3, NULL); + status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, dims3, NULL); /* * Define memory space. @@ -157,8 +150,7 @@ main (void) /* * Write the data to the hyperslab. */ - status = H5Dwrite(dataset, H5T_NATIVE_INT, dataspace, filespace, - H5P_DEFAULT, data3); + status = H5Dwrite(dataset, H5T_NATIVE_INT, dataspace, filespace, H5P_DEFAULT, data3); /* * Resulting dataset diff --git a/examples/h5_extlink.c b/examples/h5_extlink.c index fea1fa2..15f76fb 100644 --- a/examples/h5_extlink.c +++ b/examples/h5_extlink.c @@ -26,37 +26,36 @@ #define PREFIX_SOURCE_FILE "extlink_prefix_source.h5" -#define SOFT_LINK_FILE "soft_link.h5" -#define SOFT_LINK_NAME "soft_link_to_group" +#define SOFT_LINK_FILE "soft_link.h5" +#define SOFT_LINK_NAME "soft_link_to_group" #define UD_SOFT_LINK_NAME "ud_soft_link" -#define TARGET_GROUP "target_group" +#define TARGET_GROUP "target_group" #define UD_SOFT_CLASS 65 -#define HARD_LINK_FILE "hard_link.h5" -#define HARD_LINK_NAME "hard_link_to_group" +#define HARD_LINK_FILE "hard_link.h5" +#define HARD_LINK_NAME "hard_link_to_group" #define UD_HARD_LINK_NAME "ud_hard_link" #define UD_HARD_CLASS 66 #define PLIST_LINK_PROP "plist_link_prop" -#define UD_PLIST_CLASS 66 +#define UD_PLIST_CLASS 66 - - /* Basic external link example * * Creates two files and uses an external link to access an object in the * second file from the first file. */ -static void extlink_example(void) +static void +extlink_example(void) { hid_t source_file_id, targ_file_id; hid_t group_id, group2_id; /* Create two files, a source and a target */ source_file_id = H5Fcreate(SOURCE_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - targ_file_id = H5Fcreate(TARGET_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + targ_file_id = H5Fcreate(TARGET_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create a group in the target file for the external link to point to. */ group_id = H5Gcreate2(targ_file_id, "target_group", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); @@ -96,7 +95,6 @@ static void extlink_example(void) */ } - /* External link prefix example * * Uses a group access property list to set a "prefix" for the filenames @@ -109,7 +107,8 @@ static void extlink_example(void) * where it is run (so to run this example on Unix, first mkdir red and mkdir * blue). */ -static void extlink_prefix_example(void) +static void +extlink_prefix_example(void) { hid_t source_file_id, red_file_id, blue_file_id; hid_t group_id, group2_id; @@ -119,14 +118,15 @@ static void extlink_prefix_example(void) * the same name, but one will be located in the red directory and one will * be located in the blue directory */ source_file_id = H5Fcreate(PREFIX_SOURCE_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - red_file_id = H5Fcreate("red/prefix_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - blue_file_id = H5Fcreate("blue/prefix_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + red_file_id = H5Fcreate("red/prefix_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + blue_file_id = H5Fcreate("blue/prefix_target.h5", H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* This test needs a red and a blue directory in the filesystem. If they're not present, * trying to create the files above will fail. */ - if(red_file_id < 0 || blue_file_id < 0) - printf("This test requires directories named 'red' and 'blue' to exist. Did you forget to create them?\n"); + if (red_file_id < 0 || blue_file_id < 0) + printf("This test requires directories named 'red' and 'blue' to exist. Did you forget to create " + "them?\n"); /* Create an external link in the source file pointing to the root group of * a file named prefix_target.h5. This file doesn't exist in the current @@ -163,7 +163,7 @@ static void extlink_prefix_example(void) * directory. */ H5Pset_elink_prefix(gapl_id, "blue/"); - group_id = H5Gopen2(source_file_id, "ext_link", gapl_id); + group_id = H5Gopen2(source_file_id, "ext_link", gapl_id); group2_id = H5Gcreate2(group_id, "sky blue", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); /* Close both groups. */ @@ -171,7 +171,7 @@ static void extlink_prefix_example(void) H5Gclose(group_id); /* Each file has had a group created inside it using the same external link. */ - group_id = H5Gopen2(red_file_id, "pink", H5P_DEFAULT); + group_id = H5Gopen2(red_file_id, "pink", H5P_DEFAULT); group2_id = H5Gopen2(blue_file_id, "sky blue", H5P_DEFAULT); /* Clean up our open IDs */ @@ -189,7 +189,6 @@ static void extlink_prefix_example(void) */ } - /* Soft Link example * * Create a new class of user-defined links that behave like HDF5's built-in @@ -207,10 +206,11 @@ static void extlink_prefix_example(void) * We might also have wanted to supply a creation callback that checks * that a path was supplied in the udata. */ -static hid_t UD_soft_traverse(const char *link_name, hid_t cur_group, - const void *udata, size_t udata_size, hid_t lapl_id, hid_t dxpl_id); +static hid_t UD_soft_traverse(const char *link_name, hid_t cur_group, const void *udata, size_t udata_size, + hid_t lapl_id, hid_t dxpl_id); -static void soft_link_example(void) +static void +soft_link_example(void) { hid_t file_id; hid_t group_id; @@ -220,27 +220,26 @@ static void soft_link_example(void) * callback. */ const H5L_class_t UD_soft_class[1] = {{ - H5L_LINK_CLASS_T_VERS, /* Version number for this struct. - * This field is always H5L_LINK_CLASS_T_VERS */ - (H5L_type_t)UD_SOFT_CLASS, /* Link class id number. This can be any - * value between H5L_TYPE_UD_MIN (64) and - * H5L_TYPE_MAX (255). It should be a - * value that isn't already being used by - * another kind of link. We'll use 65. */ - "UD_soft_link", /* Link class name for debugging */ - NULL, /* Creation callback */ - NULL, /* Move callback */ - NULL, /* Copy callback */ - UD_soft_traverse, /* The actual traversal function */ - NULL, /* Deletion callback */ - NULL /* Query callback */ + H5L_LINK_CLASS_T_VERS, /* Version number for this struct. + * This field is always H5L_LINK_CLASS_T_VERS */ + (H5L_type_t)UD_SOFT_CLASS, /* Link class id number. This can be any + * value between H5L_TYPE_UD_MIN (64) and + * H5L_TYPE_MAX (255). It should be a + * value that isn't already being used by + * another kind of link. We'll use 65. */ + "UD_soft_link", /* Link class name for debugging */ + NULL, /* Creation callback */ + NULL, /* Move callback */ + NULL, /* Copy callback */ + UD_soft_traverse, /* The actual traversal function */ + NULL, /* Deletion callback */ + NULL /* Query callback */ }}; - /* First, create a file and an object within the file for the link to * point to. */ - file_id = H5Fcreate(SOFT_LINK_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file_id = H5Fcreate(SOFT_LINK_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); group_id = H5Gcreate2(file_id, TARGET_GROUP, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); H5Gclose(group_id); @@ -275,12 +274,13 @@ static void soft_link_example(void) * The actual traversal function simply needs to open the correct object by * name and return its ID. */ - -static hid_t UD_soft_traverse(const char *link_name, hid_t cur_group, - const void *udata, size_t udata_size, hid_t lapl_id, hid_t dxpl_id) + +static hid_t +UD_soft_traverse(const char *link_name, hid_t cur_group, const void *udata, size_t udata_size, hid_t lapl_id, + hid_t dxpl_id) { - const char *target = (const char *) udata; - hid_t ret_value; + const char *target = (const char *)udata; + hid_t ret_value; /* Pass the udata straight through to HDF5. If it's invalid, let HDF5 * return an error. @@ -289,7 +289,6 @@ static hid_t UD_soft_traverse(const char *link_name, hid_t cur_group, return ret_value; } - /* Hard Link example * * Create a new class of user-defined links that behave like HDF5's built-in @@ -305,17 +304,17 @@ static hid_t UD_soft_traverse(const char *link_name, hid_t cur_group, * To keep the example simple, these links don't have a query callback. * Generally, real link classes should always be query-able. */ -static herr_t UD_hard_create(const char *link_name, hid_t loc_group, - const void *udata, size_t udata_size, hid_t lcpl_id); -static herr_t UD_hard_delete(const char *link_name, hid_t loc_group, - const void *udata, size_t udata_size); -static hid_t UD_hard_traverse(const char *link_name, hid_t cur_group, - const void *udata, size_t udata_size, hid_t lapl_id, hid_t dxpl_id); - -static void hard_link_example(void) +static herr_t UD_hard_create(const char *link_name, hid_t loc_group, const void *udata, size_t udata_size, + hid_t lcpl_id); +static herr_t UD_hard_delete(const char *link_name, hid_t loc_group, const void *udata, size_t udata_size); +static hid_t UD_hard_traverse(const char *link_name, hid_t cur_group, const void *udata, size_t udata_size, + hid_t lapl_id, hid_t dxpl_id); + +static void +hard_link_example(void) { - hid_t file_id; - hid_t group_id; + hid_t file_id; + hid_t group_id; H5L_info2_t li; /* Define the link class that we'll use to register "user-defined hard * links" using the callbacks we defined above. @@ -323,27 +322,26 @@ static void hard_link_example(void) * callback. */ const H5L_class_t UD_hard_class[1] = {{ - H5L_LINK_CLASS_T_VERS, /* Version number for this struct. - * This field is always H5L_LINK_CLASS_T_VERS */ - (H5L_type_t)UD_HARD_CLASS, /* Link class id number. This can be any - * value between H5L_TYPE_UD_MIN (64) and - * H5L_TYPE_MAX (255). It should be a - * value that isn't already being used by - * another kind of link. We'll use 66. */ - "UD_hard_link", /* Link class name for debugging */ - UD_hard_create, /* Creation callback */ - NULL, /* Move callback */ - NULL, /* Copy callback */ - UD_hard_traverse, /* The actual traversal function */ - UD_hard_delete, /* Deletion callback */ - NULL /* Query callback */ + H5L_LINK_CLASS_T_VERS, /* Version number for this struct. + * This field is always H5L_LINK_CLASS_T_VERS */ + (H5L_type_t)UD_HARD_CLASS, /* Link class id number. This can be any + * value between H5L_TYPE_UD_MIN (64) and + * H5L_TYPE_MAX (255). It should be a + * value that isn't already being used by + * another kind of link. We'll use 66. */ + "UD_hard_link", /* Link class name for debugging */ + UD_hard_create, /* Creation callback */ + NULL, /* Move callback */ + NULL, /* Copy callback */ + UD_hard_traverse, /* The actual traversal function */ + UD_hard_delete, /* Deletion callback */ + NULL /* Query callback */ }}; - /* First, create a file and an object within the file for the link to * point to. */ - file_id = H5Fcreate(HARD_LINK_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file_id = H5Fcreate(HARD_LINK_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); group_id = H5Gcreate2(file_id, TARGET_GROUP, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); H5Gclose(group_id); @@ -366,8 +364,8 @@ static void hard_link_example(void) /* Now create a user-defined link. We give it the group's address * as its udata. */ - H5Lcreate_ud(file_id, UD_HARD_LINK_NAME, (H5L_type_t)UD_HARD_CLASS, &(li.u.token), - sizeof(H5O_token_t), H5P_DEFAULT, H5P_DEFAULT); + H5Lcreate_ud(file_id, UD_HARD_LINK_NAME, (H5L_type_t)UD_HARD_CLASS, &(li.u.token), sizeof(H5O_token_t), + H5P_DEFAULT, H5P_DEFAULT); /* The UD hard link has now incremented the group's reference count * like a normal hard link would. This means that we can unlink the @@ -401,42 +399,39 @@ static void hard_link_example(void) * If this function returns a negative value, the call to H5Lcreate_ud() * will also return failure and the link will not be created. */ -static herr_t UD_hard_create(const char *link_name, hid_t loc_group, - const void *udata, size_t udata_size, hid_t lcpl_id) +static herr_t +UD_hard_create(const char *link_name, hid_t loc_group, const void *udata, size_t udata_size, hid_t lcpl_id) { H5O_token_t token; - hid_t target_obj = H5I_INVALID_HID; - herr_t ret_value = 0; + hid_t target_obj = H5I_INVALID_HID; + herr_t ret_value = 0; /* Make sure that the address passed in looks valid */ - if(udata_size != sizeof(H5O_token_t)) - { - ret_value = -1; - goto done; + if (udata_size != sizeof(H5O_token_t)) { + ret_value = -1; + goto done; } - token = *((H5O_token_t *) udata); + token = *((H5O_token_t *)udata); /* Open the object this link points to so that we can increment * its reference count. This also ensures that the token passed * in points to a real object (although this check is not perfect!) */ target_obj = H5Oopen_by_token(loc_group, token); - if(target_obj < 0) - { - ret_value = -1; - goto done; + if (target_obj < 0) { + ret_value = -1; + goto done; } /* Increment the reference count of the target object */ - if(H5Oincr_refcount(target_obj) < 0) - { - ret_value = -1; - goto done; + if (H5Oincr_refcount(target_obj) < 0) { + ret_value = -1; + goto done; } done: /* Close the target object if we opened it */ - if(target_obj >= 0) + if (target_obj >= 0) H5Oclose(target_obj); return ret_value; } @@ -445,42 +440,39 @@ done: * Since the creation function increments the object's reference count, it's * important to decrement it again when the link is deleted. */ -static herr_t UD_hard_delete(const char *link_name, hid_t loc_group, - const void *udata, size_t udata_size) +static herr_t +UD_hard_delete(const char *link_name, hid_t loc_group, const void *udata, size_t udata_size) { H5O_token_t token; - hid_t target_obj = H5I_INVALID_HID; - herr_t ret_value = 0; + hid_t target_obj = H5I_INVALID_HID; + herr_t ret_value = 0; /* Sanity check; we have already verified the udata's size in the creation * callback. */ - if(udata_size != sizeof(H5O_token_t)) - { - ret_value = -1; - goto done; + if (udata_size != sizeof(H5O_token_t)) { + ret_value = -1; + goto done; } - token = *((H5O_token_t *) udata); + token = *((H5O_token_t *)udata); /* Open the object this link points to */ target_obj = H5Oopen_by_token(loc_group, token); - if(target_obj < 0) - { - ret_value = -1; - goto done; + if (target_obj < 0) { + ret_value = -1; + goto done; } /* Decrement the reference count of the target object */ - if(H5Odecr_refcount(target_obj) < 0) - { - ret_value = -1; - goto done; + if (H5Odecr_refcount(target_obj) < 0) { + ret_value = -1; + goto done; } done: /* Close the target object if we opened it */ - if(target_obj >= 0) + if (target_obj >= 0) H5Oclose(target_obj); return ret_value; } @@ -489,19 +481,20 @@ done: * The actual traversal function simply needs to open the correct object and * return its ID. */ -static hid_t UD_hard_traverse(const char *link_name, hid_t cur_group, - const void *udata, size_t udata_size, hid_t lapl_id, hid_t dxpl_id) +static hid_t +UD_hard_traverse(const char *link_name, hid_t cur_group, const void *udata, size_t udata_size, hid_t lapl_id, + hid_t dxpl_id) { H5O_token_t token; - hid_t ret_value = H5I_INVALID_HID; + hid_t ret_value = H5I_INVALID_HID; /* Sanity check; we have already verified the udata's size in the creation * callback. */ - if(udata_size != sizeof(H5O_token_t)) - return H5I_INVALID_HID; + if (udata_size != sizeof(H5O_token_t)) + return H5I_INVALID_HID; - token = *((H5O_token_t *) udata); + token = *((H5O_token_t *)udata); /* Open the object by token. If H5Oopen_by_token fails, ret_value will * be negative to indicate that the traversal function failed. @@ -511,8 +504,6 @@ static hid_t UD_hard_traverse(const char *link_name, hid_t cur_group, return ret_value; } - - /* Plist example * * Create a new class of user-defined links that open objects within a file @@ -526,10 +517,11 @@ static hid_t UD_hard_traverse(const char *link_name, hid_t cur_group, * These are defined after the example below. * These links have no udata, so they don't need a query function. */ -static hid_t UD_plist_traverse(const char *link_name, hid_t cur_group, - const void *udata, size_t udata_size, hid_t lapl_id, hid_t dxpl_id); +static hid_t UD_plist_traverse(const char *link_name, hid_t cur_group, const void *udata, size_t udata_size, + hid_t lapl_id, hid_t dxpl_id); -static void plist_link_example(void) +static void +plist_link_example(void) { hid_t file_id; hid_t group_id, group2_id; @@ -558,11 +550,10 @@ static void plist_link_example(void) NULL /* Query callback */ }}; - /* First, create a file and two objects within the file for the link to * point to. */ - file_id = H5Fcreate(HARD_LINK_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file_id = H5Fcreate(HARD_LINK_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); group_id = H5Gcreate2(file_id, "group_1", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); H5Gclose(group_id); group_id = H5Gcreate2(file_id, "group_1/group_2", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); @@ -570,8 +561,7 @@ static void plist_link_example(void) /* Register "plist links" and create one. It has no udata at all. */ H5Lregister(UD_plist_class); - H5Lcreate_ud(file_id, "plist_link", (H5L_type_t)UD_PLIST_CLASS, NULL, 0, - H5P_DEFAULT, H5P_DEFAULT); + H5Lcreate_ud(file_id, "plist_link", (H5L_type_t)UD_PLIST_CLASS, NULL, 0, H5P_DEFAULT, H5P_DEFAULT); /* Create a group access property list to pass in the target for the * plist link. @@ -617,17 +607,18 @@ static void plist_link_example(void) /* UD_plist_traverse * Open a path passed in through the property list. */ -static hid_t UD_plist_traverse(const char *link_name, hid_t cur_group, - const void *udata, size_t udata_size, hid_t lapl_id, hid_t dxpl_id) +static hid_t +UD_plist_traverse(const char *link_name, hid_t cur_group, const void *udata, size_t udata_size, hid_t lapl_id, + hid_t dxpl_id) { - char * path; - hid_t ret_value = H5I_INVALID_HID; + char *path; + hid_t ret_value = H5I_INVALID_HID; /* If the link property isn't set or can't be found, traversal fails. */ - if(H5Pexist(lapl_id, PLIST_LINK_PROP) < 0) + if (H5Pexist(lapl_id, PLIST_LINK_PROP) < 0) goto error; - if(H5Pget(lapl_id, PLIST_LINK_PROP, &path) < 0) + if (H5Pget(lapl_id, PLIST_LINK_PROP, &path) < 0) goto error; /* Open the object by address. If H5Oopen_by_addr fails, ret_value will @@ -641,13 +632,11 @@ error: return H5I_INVALID_HID; } - - /* Main function * * Invokes the example functions. */ - int +int main(void) { printf("Testing basic external links.\n"); @@ -667,5 +656,3 @@ main(void) return 0; } - - diff --git a/examples/h5_group.c b/examples/h5_group.c index 75bed91..fe6405c 100644 --- a/examples/h5_group.c +++ b/examples/h5_group.c @@ -19,31 +19,29 @@ * in the root group and in the created group. */ - #include "hdf5.h" - -#define H5FILE_NAME "group.h5" -#define RANK 2 +#define H5FILE_NAME "group.h5" +#define RANK 2 static herr_t file_info(hid_t loc_id, const char *name, const H5L_info2_t *linfo, - void *opdata); /* Link iteration operator function */ + void *opdata); /* Link iteration operator function */ static herr_t group_info(hid_t loc_id, const char *name, const H5L_info2_t *linfo, - void *opdata); /* Link iteration operator function */ + void *opdata); /* Link iteration operator function */ int main(void) { - hid_t file; - hid_t grp; - hid_t dataset, dataspace; - hid_t plist; + hid_t file; + hid_t grp; + hid_t dataset, dataspace; + hid_t plist; - herr_t status; - hsize_t dims[2]; - hsize_t cdims[2]; + herr_t status; + hsize_t dims[2]; + hsize_t cdims[2]; - int idx_f, idx_g; + int idx_f, idx_g; /* * Create a file. @@ -61,16 +59,16 @@ main(void) * GZIP compression with the compression effort set to 6. * Note that compression can be used only when dataset is chunked. */ - dims[0] = 1000; - dims[1] = 20; - cdims[0] = 20; - cdims[1] = 20; + dims[0] = 1000; + dims[1] = 20; + cdims[0] = 20; + cdims[1] = 20; dataspace = H5Screate_simple(RANK, dims, NULL); plist = H5Pcreate(H5P_DATASET_CREATE); - H5Pset_chunk(plist, 2, cdims); - H5Pset_deflate( plist, 6); - dataset = H5Dcreate2(file, "/Data/Compressed_Data", H5T_NATIVE_INT, - dataspace, H5P_DEFAULT, plist, H5P_DEFAULT); + H5Pset_chunk(plist, 2, cdims); + H5Pset_deflate(plist, 6); + dataset = + H5Dcreate2(file, "/Data/Compressed_Data", H5T_NATIVE_INT, dataspace, H5P_DEFAULT, plist, H5P_DEFAULT); /* * Close the first dataset . */ @@ -80,11 +78,11 @@ main(void) /* * Create the second dataset. */ - dims[0] = 500; - dims[1] = 20; + dims[0] = 500; + dims[1] = 20; dataspace = H5Screate_simple(RANK, dims, NULL); - dataset = H5Dcreate2(file, "/Data/Float_Data", H5T_NATIVE_FLOAT, - dataspace, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dataset = H5Dcreate2(file, "/Data/Float_Data", H5T_NATIVE_FLOAT, dataspace, H5P_DEFAULT, H5P_DEFAULT, + H5P_DEFAULT); /* *Close the second dataset and file. @@ -105,7 +103,8 @@ main(void) * Access "Compressed_Data" dataset in the group. */ dataset = H5Dopen2(grp, "Compressed_Data", H5P_DEFAULT); - if( dataset < 0) printf(" Dataset 'Compressed-Data' is not found. \n"); + if (dataset < 0) + printf(" Dataset 'Compressed-Data' is not found. \n"); printf("\"/Data/Compressed_Data\" dataset is open \n"); /* @@ -123,7 +122,8 @@ main(void) * hard link "Data_new". */ dataset = H5Dopen2(file, "/Data_new/Compressed_Data", H5P_DEFAULT); - if( dataset < 0) printf(" Dataset is not found. \n"); + if (dataset < 0) + printf(" Dataset is not found. \n"); printf("\"/Data_new/Compressed_Data\" dataset is open \n"); /* @@ -131,7 +131,6 @@ main(void) */ status = H5Dclose(dataset); - /* * Use iterator to see the names of the objects in the root group. */ @@ -141,10 +140,10 @@ main(void) * Unlink name "Data" and use iterator to see the names * of the objects in the file root direvtory. */ - if(H5Ldelete(file, "Data", H5P_DEFAULT) < 0) - printf(" H5Ldelete failed \n"); + if (H5Ldelete(file, "Data", H5P_DEFAULT) < 0) + printf(" H5Ldelete failed \n"); else - printf("\"Data\" is unlinked \n"); + printf("\"Data\" is unlinked \n"); idx_f = H5Literate2(file, H5_INDEX_NAME, H5_ITER_INC, NULL, file_info, NULL); @@ -152,7 +151,8 @@ main(void) * Use iterator to see the names of the objects in the group * /Data_new. */ - idx_g = H5Literate_by_name2(grp, "/Data_new", H5_INDEX_NAME, H5_ITER_INC, NULL, group_info, NULL, H5P_DEFAULT); + idx_g = H5Literate_by_name2(grp, "/Data_new", H5_INDEX_NAME, H5_ITER_INC, NULL, group_info, NULL, + H5P_DEFAULT); /* * Close the file. @@ -173,7 +173,7 @@ file_info(hid_t loc_id, const char *name, const H5L_info2_t *linfo, void *opdata /* avoid compiler warnings */ loc_id = loc_id; opdata = opdata; - linfo = linfo; + linfo = linfo; /* * Display group name. The name is passed to the function by @@ -184,23 +184,22 @@ file_info(hid_t loc_id, const char *name, const H5L_info2_t *linfo, void *opdata return 0; } - /* * Operator function. */ static herr_t group_info(hid_t loc_id, const char *name, const H5L_info2_t *linfo, void *opdata) { - hid_t did; /* dataset identifier */ - hid_t tid; /* datatype identifier */ + hid_t did; /* dataset identifier */ + hid_t tid; /* datatype identifier */ H5T_class_t t_class; - hid_t pid; /* data_property identifier */ - hsize_t chunk_dims_out[2]; - int rank_chunk; + hid_t pid; /* data_property identifier */ + hsize_t chunk_dims_out[2]; + int rank_chunk; /* avoid warnings */ opdata = opdata; - linfo = linfo; + linfo = linfo; /* * Open the datasets using their names. @@ -215,38 +214,37 @@ group_info(hid_t loc_id, const char *name, const H5L_info2_t *linfo, void *opdat /* * Display dataset information. */ - tid = H5Dget_type(did); /* get datatype*/ + tid = H5Dget_type(did); /* get datatype*/ pid = H5Dget_create_plist(did); /* get creation property list */ /* * Check if dataset is chunked. */ - if(H5D_CHUNKED == H5Pget_layout(pid)) { + if (H5D_CHUNKED == H5Pget_layout(pid)) { /* * get chunking information: rank and dimensions. */ rank_chunk = H5Pget_chunk(pid, 2, chunk_dims_out); - printf("chunk rank %d, dimensions %lu x %lu\n", rank_chunk, - (unsigned long)(chunk_dims_out[0]), - (unsigned long)(chunk_dims_out[1])); + printf("chunk rank %d, dimensions %lu x %lu\n", rank_chunk, (unsigned long)(chunk_dims_out[0]), + (unsigned long)(chunk_dims_out[1])); } else { t_class = H5Tget_class(tid); - if(t_class < 0) { + if (t_class < 0) { puts(" Invalid datatype.\n"); } else { - if(t_class == H5T_INTEGER) + if (t_class == H5T_INTEGER) puts(" Datatype is 'H5T_NATIVE_INTEGER'.\n"); - if(t_class == H5T_FLOAT) + if (t_class == H5T_FLOAT) puts(" Datatype is 'H5T_NATIVE_FLOAT'.\n"); - if(t_class == H5T_STRING) + if (t_class == H5T_STRING) puts(" Datatype is 'H5T_NATIVE_STRING'.\n"); - if(t_class == H5T_BITFIELD) + if (t_class == H5T_BITFIELD) puts(" Datatype is 'H5T_NATIVE_BITFIELD'.\n"); - if(t_class == H5T_OPAQUE) + if (t_class == H5T_OPAQUE) puts(" Datatype is 'H5T_NATIVE_OPAQUE'.\n"); - if(t_class == H5T_COMPOUND) + if (t_class == H5T_COMPOUND) puts(" Datatype is 'H5T_NATIVE_COMPOUND'.\n"); } } @@ -256,4 +254,3 @@ group_info(hid_t loc_id, const char *name, const H5L_info2_t *linfo, void *opdat H5Tclose(tid); return 0; } - diff --git a/examples/h5_interm_group.c b/examples/h5_interm_group.c index 6507fd1..a103ea1 100644 --- a/examples/h5_interm_group.c +++ b/examples/h5_interm_group.c @@ -16,27 +16,24 @@ * all intermediate groups. */ - #include "hdf5.h" - -#define H5FILE_NAME "interm_group.h5" -#define TRUE 1 -#define FALSE 0 +#define H5FILE_NAME "interm_group.h5" +#define TRUE 1 +#define FALSE 0 int main(void) { - hid_t file; - hid_t g1_id, g2_id, g3_id; - hid_t grp_crt_plist; + hid_t file; + hid_t g1_id, g2_id, g3_id; + hid_t grp_crt_plist; H5G_info_t g2_info; - char name[3]; - - herr_t status; - int i; + char name[3]; + herr_t status; + int i; /* * Create a file using the default properties. @@ -59,53 +56,44 @@ main(void) /* * Check if group /G1 exists in the file. */ - if(H5Lexists(file, "/G1", H5P_DEFAULT) !=FALSE) - printf("Group /G1 exists in the file\n"); + if (H5Lexists(file, "/G1", H5P_DEFAULT) != FALSE) + printf("Group /G1 exists in the file\n"); /* * Check that group G2/G3 exists in /G1 and if not create it using * intermediate group creation property. */ g1_id = H5Gopen2(file, "/G1", H5P_DEFAULT); -/* Next commented call causes error stack to be printed out; the next one - * works fine; is it a bug or a feature? EIP 04-25-07 -*/ -/* if (H5Lexists(g1_id, "G2/G3", H5P_DEFAULT) !=TRUE) { */ - if (H5Lexists(g1_id, "G2", H5P_DEFAULT) !=TRUE) { - - grp_crt_plist = H5Pcreate(H5P_LINK_CREATE); - - /* Set flag for intermediate group creation */ - status = H5Pset_create_intermediate_group(grp_crt_plist, TRUE); - g3_id = H5Gcreate2(g1_id, "G2/G3", grp_crt_plist, H5P_DEFAULT, H5P_DEFAULT); - H5Gclose(g3_id); + /* Next commented call causes error stack to be printed out; the next one + * works fine; is it a bug or a feature? EIP 04-25-07 + */ + /* if (H5Lexists(g1_id, "G2/G3", H5P_DEFAULT) !=TRUE) { */ + if (H5Lexists(g1_id, "G2", H5P_DEFAULT) != TRUE) { + + grp_crt_plist = H5Pcreate(H5P_LINK_CREATE); + + /* Set flag for intermediate group creation */ + status = H5Pset_create_intermediate_group(grp_crt_plist, TRUE); + g3_id = H5Gcreate2(g1_id, "G2/G3", grp_crt_plist, H5P_DEFAULT, H5P_DEFAULT); + H5Gclose(g3_id); } H5Gclose(g1_id); - /* Now check if group /G1/G2 exists in the file, then open it and print * its members names */ if (H5Lexists(file, "/G1/G2", H5P_DEFAULT)) { - g2_id = H5Gopen2(file, "/G1/G2", H5P_DEFAULT); - status = H5Gget_info(g2_id, &g2_info); - printf("Group /G1/G2 has %d member(s)\n", (int)g2_info.nlinks); + g2_id = H5Gopen2(file, "/G1/G2", H5P_DEFAULT); + status = H5Gget_info(g2_id, &g2_info); + printf("Group /G1/G2 has %d member(s)\n", (int)g2_info.nlinks); - for (i=0; i < (int)g2_info.nlinks; i++) { - H5Lget_name_by_idx(g2_id, ".", H5_INDEX_NAME, H5_ITER_NATIVE, (hsize_t)i, - name, 3, H5P_DEFAULT); - printf("Object's name is %s\n", name); - - } - H5Gclose(g2_id); + for (i = 0; i < (int)g2_info.nlinks; i++) { + H5Lget_name_by_idx(g2_id, ".", H5_INDEX_NAME, H5_ITER_NATIVE, (hsize_t)i, name, 3, H5P_DEFAULT); + printf("Object's name is %s\n", name); + } + H5Gclose(g2_id); } H5Fclose(file); return 0; } - - - - - - diff --git a/examples/h5_mount.c b/examples/h5_mount.c index a2e16c5..c1b63cf 100644 --- a/examples/h5_mount.c +++ b/examples/h5_mount.c @@ -25,107 +25,105 @@ #define FILE2 "mount2.h5" #define RANK 2 -#define NX 4 -#define NY 5 +#define NX 4 +#define NY 5 -int main(void) +int +main(void) { - hid_t fid1, fid2, gid; /* Files and group identifiers */ - hid_t did, tid, sid; /* Dataset and datatype identifiers */ - - herr_t status; - hsize_t dims[] = {NX,NY}; /* Dataset dimensions */ - - int i, j; - int bm[NX][NY], bm_out[NX][NY]; /* Data buffers */ - - /* - * Initialization of buffer matrix "bm" - */ - for(i =0; i < NX; i++) - for(j = 0; j < NY; j++) - bm[i][j] = i + j; - - /* - * Create first file and a group in it. - */ - fid1 = H5Fcreate(FILE1, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - gid = H5Gcreate2(fid1, "/G", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Close group and file - */ - H5Gclose(gid); - H5Fclose(fid1); - - /* - * Create second file and dataset "D" in it. - */ - fid2 = H5Fcreate(FILE2, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - dims[0] = NX; - dims[1] = NY; - sid = H5Screate_simple(RANK, dims, NULL); - did = H5Dcreate2(fid2, "D", H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Write data to the dataset. - */ - status = H5Dwrite(did, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, bm); - - /* - * Close all identifiers. - */ - H5Sclose(sid); - H5Dclose(did); - H5Fclose(fid2); - - /* - * Reopen both files - */ - fid1 = H5Fopen(FILE1, H5F_ACC_RDONLY, H5P_DEFAULT); - fid2 = H5Fopen(FILE2, H5F_ACC_RDONLY, H5P_DEFAULT); - - /* - * Mount second file under G in the first file. - */ - H5Fmount(fid1, "/G", fid2, H5P_DEFAULT); - - /* - * Access dataset D in the first file under /G/D name. - */ - did = H5Dopen2(fid1, "/G/D", H5P_DEFAULT); - tid = H5Dget_type(did); - status = H5Dread(did, tid, H5S_ALL, H5S_ALL, H5P_DEFAULT, bm_out); - - /* - * Print out the data. - */ - for(i=0; i<NX; i++){ - for(j=0; j<NY; j++) - printf(" %d", bm_out[i][j]); - printf("\n"); - } - - /* - * Close all identifers - */ - H5Tclose(tid); - H5Dclose(did); - - /* - * Unmounting second file - */ - H5Funmount(fid1, "/G"); - - /* - * Close both files - */ - H5Fclose(fid1); - H5Fclose(fid2); - - return 0; + hid_t fid1, fid2, gid; /* Files and group identifiers */ + hid_t did, tid, sid; /* Dataset and datatype identifiers */ + + herr_t status; + hsize_t dims[] = {NX, NY}; /* Dataset dimensions */ + + int i, j; + int bm[NX][NY], bm_out[NX][NY]; /* Data buffers */ + + /* + * Initialization of buffer matrix "bm" + */ + for (i = 0; i < NX; i++) + for (j = 0; j < NY; j++) + bm[i][j] = i + j; + + /* + * Create first file and a group in it. + */ + fid1 = H5Fcreate(FILE1, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + gid = H5Gcreate2(fid1, "/G", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Close group and file + */ + H5Gclose(gid); + H5Fclose(fid1); + + /* + * Create second file and dataset "D" in it. + */ + fid2 = H5Fcreate(FILE2, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + dims[0] = NX; + dims[1] = NY; + sid = H5Screate_simple(RANK, dims, NULL); + did = H5Dcreate2(fid2, "D", H5T_NATIVE_INT, sid, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Write data to the dataset. + */ + status = H5Dwrite(did, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, bm); + + /* + * Close all identifiers. + */ + H5Sclose(sid); + H5Dclose(did); + H5Fclose(fid2); + + /* + * Reopen both files + */ + fid1 = H5Fopen(FILE1, H5F_ACC_RDONLY, H5P_DEFAULT); + fid2 = H5Fopen(FILE2, H5F_ACC_RDONLY, H5P_DEFAULT); + + /* + * Mount second file under G in the first file. + */ + H5Fmount(fid1, "/G", fid2, H5P_DEFAULT); + + /* + * Access dataset D in the first file under /G/D name. + */ + did = H5Dopen2(fid1, "/G/D", H5P_DEFAULT); + tid = H5Dget_type(did); + status = H5Dread(did, tid, H5S_ALL, H5S_ALL, H5P_DEFAULT, bm_out); + + /* + * Print out the data. + */ + for (i = 0; i < NX; i++) { + for (j = 0; j < NY; j++) + printf(" %d", bm_out[i][j]); + printf("\n"); + } + + /* + * Close all identifers + */ + H5Tclose(tid); + H5Dclose(did); + + /* + * Unmounting second file + */ + H5Funmount(fid1, "/G"); + + /* + * Close both files + */ + H5Fclose(fid1); + H5Fclose(fid2); + + return 0; } - - - diff --git a/examples/h5_rdwt.c b/examples/h5_rdwt.c index f7196c0..c576cc9 100644 --- a/examples/h5_rdwt.c +++ b/examples/h5_rdwt.c @@ -19,33 +19,33 @@ #include "hdf5.h" #define FILE "dset.h5" -int main() { +int +main() +{ - hid_t file_id, dataset_id; /* identifiers */ - herr_t status; - int i, j, dset_data[4][6]; + hid_t file_id, dataset_id; /* identifiers */ + herr_t status; + int i, j, dset_data[4][6]; - /* Initialize the dataset. */ - for (i = 0; i < 4; i++) - for (j = 0; j < 6; j++) - dset_data[i][j] = i * 6 + j + 1; + /* Initialize the dataset. */ + for (i = 0; i < 4; i++) + for (j = 0; j < 6; j++) + dset_data[i][j] = i * 6 + j + 1; - /* Open an existing file. */ - file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); + /* Open an existing file. */ + file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); - /* Open an existing dataset. */ - dataset_id = H5Dopen2(file_id, "/dset", H5P_DEFAULT); + /* Open an existing dataset. */ + dataset_id = H5Dopen2(file_id, "/dset", H5P_DEFAULT); - /* Write the dataset. */ - status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - dset_data); + /* Write the dataset. */ + status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset_data); - status = H5Dread(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - dset_data); + status = H5Dread(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset_data); - /* Close the dataset. */ - status = H5Dclose(dataset_id); + /* Close the dataset. */ + status = H5Dclose(dataset_id); - /* Close the file. */ - status = H5Fclose(file_id); + /* Close the file. */ + status = H5Fclose(file_id); } diff --git a/examples/h5_read.c b/examples/h5_read.c index 7fd8ad4..b3f2492 100644 --- a/examples/h5_read.c +++ b/examples/h5_read.c @@ -20,71 +20,73 @@ #include "hdf5.h" -#define H5FILE_NAME "SDS.h5" +#define H5FILE_NAME "SDS.h5" #define DATASETNAME "IntArray" -#define NX_SUB 3 /* hyperslab dimensions */ -#define NY_SUB 4 -#define NX 7 /* output buffer dimensions */ -#define NY 7 -#define NZ 3 -#define RANK 2 -#define RANK_OUT 3 +#define NX_SUB 3 /* hyperslab dimensions */ +#define NY_SUB 4 +#define NX 7 /* output buffer dimensions */ +#define NY 7 +#define NZ 3 +#define RANK 2 +#define RANK_OUT 3 int -main (void) +main(void) { - hid_t file, dataset; /* handles */ + hid_t file, dataset; /* handles */ hid_t datatype, dataspace; hid_t memspace; - H5T_class_t t_class; /* data type class */ - H5T_order_t order; /* data order */ - size_t size; /* - * size of the data element - * stored in file - */ - hsize_t dimsm[3]; /* memory space dimensions */ - hsize_t dims_out[2]; /* dataset dimensions */ - herr_t status; - - int data_out[NX][NY][NZ ]; /* output buffer */ - - hsize_t count[2]; /* size of the hyperslab in the file */ - hsize_t offset[2]; /* hyperslab offset in the file */ - hsize_t count_out[3]; /* size of the hyperslab in memory */ - hsize_t offset_out[3]; /* hyperslab offset in memory */ - int i, j, k, status_n, rank; + H5T_class_t t_class; /* data type class */ + H5T_order_t order; /* data order */ + size_t size; /* + * size of the data element + * stored in file + */ + hsize_t dimsm[3]; /* memory space dimensions */ + hsize_t dims_out[2]; /* dataset dimensions */ + herr_t status; + + int data_out[NX][NY][NZ]; /* output buffer */ + + hsize_t count[2]; /* size of the hyperslab in the file */ + hsize_t offset[2]; /* hyperslab offset in the file */ + hsize_t count_out[3]; /* size of the hyperslab in memory */ + hsize_t offset_out[3]; /* hyperslab offset in memory */ + int i, j, k, status_n, rank; for (j = 0; j < NX; j++) { - for (i = 0; i < NY; i++) { - for (k = 0; k < NZ ; k++) - data_out[j][i][k] = 0; - } + for (i = 0; i < NY; i++) { + for (k = 0; k < NZ; k++) + data_out[j][i][k] = 0; + } } /* * Open the file and the dataset. */ - file = H5Fopen(H5FILE_NAME, H5F_ACC_RDONLY, H5P_DEFAULT); + file = H5Fopen(H5FILE_NAME, H5F_ACC_RDONLY, H5P_DEFAULT); dataset = H5Dopen2(file, DATASETNAME, H5P_DEFAULT); /* * Get datatype and dataspace handles and then query * dataset class, order, size, rank and dimensions. */ - datatype = H5Dget_type(dataset); /* datatype handle */ - t_class = H5Tget_class(datatype); - if (t_class == H5T_INTEGER) printf("Data set has INTEGER type \n"); - order = H5Tget_order(datatype); - if (order == H5T_ORDER_LE) printf("Little endian order \n"); - - size = H5Tget_size(datatype); + datatype = H5Dget_type(dataset); /* datatype handle */ + t_class = H5Tget_class(datatype); + if (t_class == H5T_INTEGER) + printf("Data set has INTEGER type \n"); + order = H5Tget_order(datatype); + if (order == H5T_ORDER_LE) + printf("Little endian order \n"); + + size = H5Tget_size(datatype); printf(" Data size is %d \n", (int)size); - dataspace = H5Dget_space(dataset); /* dataspace handle */ + dataspace = H5Dget_space(dataset); /* dataspace handle */ rank = H5Sget_simple_extent_ndims(dataspace); status_n = H5Sget_simple_extent_dims(dataspace, dims_out, NULL); - printf("rank %d, dimensions %lu x %lu \n", rank, - (unsigned long)(dims_out[0]), (unsigned long)(dims_out[1])); + printf("rank %d, dimensions %lu x %lu \n", rank, (unsigned long)(dims_out[0]), + (unsigned long)(dims_out[1])); /* * Define hyperslab in the dataset. @@ -93,16 +95,15 @@ main (void) offset[1] = 2; count[0] = NX_SUB; count[1] = NY_SUB; - status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, offset, NULL, - count, NULL); + status = H5Sselect_hyperslab(dataspace, H5S_SELECT_SET, offset, NULL, count, NULL); /* * Define the memory dataspace. */ dimsm[0] = NX; dimsm[1] = NY; - dimsm[2] = NZ ; - memspace = H5Screate_simple(RANK_OUT,dimsm,NULL); + dimsm[2] = NZ; + memspace = H5Screate_simple(RANK_OUT, dimsm, NULL); /* * Define memory hyperslab. @@ -113,18 +114,17 @@ main (void) count_out[0] = NX_SUB; count_out[1] = NY_SUB; count_out[2] = 1; - status = H5Sselect_hyperslab(memspace, H5S_SELECT_SET, offset_out, NULL, - count_out, NULL); + status = H5Sselect_hyperslab(memspace, H5S_SELECT_SET, offset_out, NULL, count_out, NULL); /* * Read data from hyperslab in the file into the hyperslab in * memory and display. */ - status = H5Dread(dataset, H5T_NATIVE_INT, memspace, dataspace, - H5P_DEFAULT, data_out); + status = H5Dread(dataset, H5T_NATIVE_INT, memspace, dataspace, H5P_DEFAULT, data_out); for (j = 0; j < NX; j++) { - for (i = 0; i < NY; i++) printf("%d ", data_out[j][i][0]); - printf("\n"); + for (i = 0; i < NY; i++) + printf("%d ", data_out[j][i][0]); + printf("\n"); } /* * 0 0 0 0 0 0 0 diff --git a/examples/h5_ref2reg_deprec.c b/examples/h5_ref2reg_deprec.c index dc2964c..58b3095 100644 --- a/examples/h5_ref2reg_deprec.c +++ b/examples/h5_ref2reg_deprec.c @@ -26,33 +26,34 @@ #include "hdf5.h" -#define filename "REF_REG.h5" +#define filename "REF_REG.h5" #define dsetnamev "MATRIX" #define dsetnamer "REGION_REFERENCES" -int main(void) +int +main(void) { - hid_t file_id; /* file identifier */ - hid_t space_id; /* dataspace identifiers */ - hid_t spacer_id; - hid_t dsetv_id; /*dataset identifiers*/ - hid_t dsetr_id; - hsize_t dims[2] = {2,9}; - hsize_t dimsr[1] = {2}; - int rank = 2; - int rankr =1; - herr_t status; + hid_t file_id; /* file identifier */ + hid_t space_id; /* dataspace identifiers */ + hid_t spacer_id; + hid_t dsetv_id; /*dataset identifiers*/ + hid_t dsetr_id; + hsize_t dims[2] = {2, 9}; + hsize_t dimsr[1] = {2}; + int rank = 2; + int rankr = 1; + herr_t status; hdset_reg_ref_t ref[2]; hdset_reg_ref_t ref_out[2]; - int data[2][9] = {{1,1,2,3,3,4,5,5,6},{1,2,2,3,4,4,5,6,6}}; - int data_out[2][9] = {{0,0,0,0,0,0,0,0,0},{0,0,0,0,0,0,0,0,0}}; - hsize_t start[2]; - hsize_t count[2]; - hsize_t coord[2][3] = {{0, 0, 1}, {6, 0, 8}}; - unsigned num_points = 3; - int i, j; - size_t name_size1, name_size2; - char buf1[10], buf2[10]; + int data[2][9] = {{1, 1, 2, 3, 3, 4, 5, 5, 6}, {1, 2, 2, 3, 4, 4, 5, 6, 6}}; + int data_out[2][9] = {{0, 0, 0, 0, 0, 0, 0, 0, 0}, {0, 0, 0, 0, 0, 0, 0, 0, 0}}; + hsize_t start[2]; + hsize_t count[2]; + hsize_t coord[2][3] = {{0, 0, 1}, {6, 0, 8}}; + unsigned num_points = 3; + int i, j; + size_t name_size1, name_size2; + char buf1[10], buf2[10]; /* * Create file with default file access and file creation properties. @@ -62,24 +63,26 @@ int main(void) /* * Create dataspace for datasets. */ - space_id = H5Screate_simple(rank, dims, NULL); + space_id = H5Screate_simple(rank, dims, NULL); spacer_id = H5Screate_simple(rankr, dimsr, NULL); /* * Create integer dataset. */ - dsetv_id = H5Dcreate2(file_id, dsetnamev, H5T_NATIVE_INT, space_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dsetv_id = + H5Dcreate2(file_id, dsetnamev, H5T_NATIVE_INT, space_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); /* * Write data to the dataset. */ - status = H5Dwrite(dsetv_id, H5T_NATIVE_INT, H5S_ALL , H5S_ALL, H5P_DEFAULT,data); + status = H5Dwrite(dsetv_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, data); status = H5Dclose(dsetv_id); /* * Dataset with references. */ - dsetr_id = H5Dcreate2(file_id, dsetnamer, H5T_STD_REF_DSETREG, spacer_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dsetr_id = + H5Dcreate2(file_id, dsetnamer, H5T_STD_REF_DSETREG, spacer_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); /* * Create a reference to the hyperslab. @@ -88,8 +91,8 @@ int main(void) start[1] = 3; count[0] = 2; count[1] = 3; - status = H5Sselect_hyperslab(space_id, H5S_SELECT_SET, start, NULL, count, NULL); - status = H5Rcreate(&ref[0], file_id, dsetnamev, H5R_DATASET_REGION, space_id); + status = H5Sselect_hyperslab(space_id, H5S_SELECT_SET, start, NULL, count, NULL); + status = H5Rcreate(&ref[0], file_id, dsetnamev, H5R_DATASET_REGION, space_id); /* * Create a reference to elements selection. @@ -101,7 +104,7 @@ int main(void) /* * Write dataset with the references. */ - status = H5Dwrite(dsetr_id, H5T_STD_REF_DSETREG, H5S_ALL, H5S_ALL, H5P_DEFAULT,ref); + status = H5Dwrite(dsetr_id, H5T_STD_REF_DSETREG, H5S_ALL, H5S_ALL, H5P_DEFAULT, ref); /* * Close all objects. @@ -114,7 +117,7 @@ int main(void) /* * Reopen the file to read selections back. */ - file_id = H5Fopen(filename, H5F_ACC_RDWR, H5P_DEFAULT); + file_id = H5Fopen(filename, H5F_ACC_RDWR, H5P_DEFAULT); /* * Reopen the dataset with object references and read references @@ -122,8 +125,7 @@ int main(void) */ dsetr_id = H5Dopen2(file_id, dsetnamer, H5P_DEFAULT); - status = H5Dread(dsetr_id, H5T_STD_REF_DSETREG, H5S_ALL, H5S_ALL, - H5P_DEFAULT, ref_out); + status = H5Dread(dsetr_id, H5T_STD_REF_DSETREG, H5S_ALL, H5S_ALL, H5P_DEFAULT, ref_out); /* * Dereference the first reference. @@ -133,26 +135,26 @@ int main(void) * Get name of the dataset the first region reference points to * using H5Rget_name */ - name_size1 = H5Rget_name(dsetr_id, H5R_DATASET_REGION, &ref_out[0], (char*)buf1, 10); - printf(" Dataset's name (returned by H5Rget_name) the reference points to is %s, name length is %d\n", buf1, (int)name_size1); + name_size1 = H5Rget_name(dsetr_id, H5R_DATASET_REGION, &ref_out[0], (char *)buf1, 10); + printf(" Dataset's name (returned by H5Rget_name) the reference points to is %s, name length is %d\n", + buf1, (int)name_size1); /* * Get name of the dataset the first region reference points to * using H5Iget_name */ - name_size2 = H5Iget_name(dsetv_id, (char*)buf2, 10); - printf(" Dataset's name (returned by H5Iget_name) the reference points to is %s, name length is %d\n", buf2, (int)name_size2); + name_size2 = H5Iget_name(dsetv_id, (char *)buf2, 10); + printf(" Dataset's name (returned by H5Iget_name) the reference points to is %s, name length is %d\n", + buf2, (int)name_size2); - space_id = H5Rget_region(dsetr_id, H5R_DATASET_REGION,&ref_out[0]); + space_id = H5Rget_region(dsetr_id, H5R_DATASET_REGION, &ref_out[0]); /* * Read and display hyperslab selection from the dataset. */ - status = H5Dread(dsetv_id, H5T_NATIVE_INT, H5S_ALL, space_id, - H5P_DEFAULT, data_out); + status = H5Dread(dsetv_id, H5T_NATIVE_INT, H5S_ALL, space_id, H5P_DEFAULT, data_out); printf("Selected hyperslab: "); - for (i = 0; i <= 1; i++) - { + for (i = 0; i <= 1; i++) { printf("\n"); for (j = 0; j <= 8; j++) printf("%d ", data_out[i][j]); @@ -176,17 +178,15 @@ int main(void) * Dereference the second reference. */ dsetv_id = H5Rdereference2(dsetr_id, H5P_DEFAULT, H5R_DATASET_REGION, &ref_out[1]); - space_id = H5Rget_region(dsetv_id, H5R_DATASET_REGION,&ref_out[1]); + space_id = H5Rget_region(dsetv_id, H5R_DATASET_REGION, &ref_out[1]); /* * Read selected data from the dataset. */ - status = H5Dread(dsetv_id, H5T_NATIVE_INT, H5S_ALL, space_id, - H5P_DEFAULT, data_out); + status = H5Dread(dsetv_id, H5T_NATIVE_INT, H5S_ALL, space_id, H5P_DEFAULT, data_out); printf("Selected points: "); - for (i = 0; i <= 1; i++) - { + for (i = 0; i <= 1; i++) { printf("\n"); for (j = 0; j <= 8; j++) printf("%d ", data_out[i][j]); @@ -203,6 +203,3 @@ int main(void) return 0; } - - - diff --git a/examples/h5_ref_compat.c b/examples/h5_ref_compat.c index a1fbf96..a47a14b 100644 --- a/examples/h5_ref_compat.c +++ b/examples/h5_ref_compat.c @@ -10,12 +10,12 @@ * help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ - /* - * The example below illustrates the use of the new API with a file that was - * written using the old-style reference API, showing how one can take - * advantage of the automatic type conversion from old reference type to new - * reference type. - */ +/* + * The example below illustrates the use of the new API with a file that was + * written using the old-style reference API, showing how one can take + * advantage of the automatic type conversion from old reference type to new + * reference type. + */ #include <stdlib.h> @@ -24,22 +24,23 @@ #define H5FILE_NAME "refer_deprec.h5" -#define NDIMS 1 /* Number of dimensions */ -#define BUF_SIZE 4 /* Size of example buffer */ -#define NREFS 1 /* Number of references */ +#define NDIMS 1 /* Number of dimensions */ +#define BUF_SIZE 4 /* Size of example buffer */ +#define NREFS 1 /* Number of references */ int -main(void) { - hid_t file1, dset1, space1; - hsize_t dset1_dims[NDIMS] = { BUF_SIZE }; - int dset_buf[BUF_SIZE]; - - hid_t dset2, space2; - hsize_t dset2_dims[NDIMS] = { NREFS }; - hobj_ref_t ref_buf[NREFS] = { 0 }; - H5R_ref_t new_ref_buf[NREFS] = { 0 }; +main(void) +{ + hid_t file1, dset1, space1; + hsize_t dset1_dims[NDIMS] = {BUF_SIZE}; + int dset_buf[BUF_SIZE]; + + hid_t dset2, space2; + hsize_t dset2_dims[NDIMS] = {NREFS}; + hobj_ref_t ref_buf[NREFS] = {0}; + H5R_ref_t new_ref_buf[NREFS] = {0}; H5O_type_t obj_type; - int i; + int i; for (i = 0; i < BUF_SIZE; i++) dset_buf[i] = i; @@ -48,8 +49,7 @@ main(void) { file1 = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); space1 = H5Screate_simple(NDIMS, dset1_dims, NULL); - dset1 = H5Dcreate2(file1, "dataset1", H5T_NATIVE_INT, space1, H5P_DEFAULT, - H5P_DEFAULT, H5P_DEFAULT); + dset1 = H5Dcreate2(file1, "dataset1", H5T_NATIVE_INT, space1, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); H5Dwrite(dset1, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset_buf); H5Dclose(dset1); H5Sclose(space1); @@ -62,7 +62,7 @@ main(void) { /* Store reference in separate dataset using deprecated reference type */ space2 = H5Screate_simple(NDIMS, dset2_dims, NULL); - dset2 = H5Dcreate2(file1, "references", H5T_STD_REF_OBJ, space2, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dset2 = H5Dcreate2(file1, "references", H5T_STD_REF_OBJ, space2, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); H5Dwrite(dset2, H5T_STD_REF_OBJ, H5S_ALL, H5S_ALL, H5P_DEFAULT, ref_buf); H5Dclose(dset2); H5Sclose(space2); @@ -87,4 +87,3 @@ main(void) { assert(dset_buf[i] == i); return 0; } - diff --git a/examples/h5_ref_extern.c b/examples/h5_ref_extern.c index 5403814..283af95 100644 --- a/examples/h5_ref_extern.c +++ b/examples/h5_ref_extern.c @@ -10,12 +10,12 @@ * help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ - /* - * The example below illustrates the use of the new API with files that are - * opened read-only. Created references to the objects in that file are - * stored into a separate file, and accessed from that file, without the user - * explicitly opening the original file that was referenced. - */ +/* + * The example below illustrates the use of the new API with files that are + * opened read-only. Created references to the objects in that file are + * stored into a separate file, and accessed from that file, without the user + * explicitly opening the original file that was referenced. + */ #include <stdlib.h> @@ -25,30 +25,30 @@ #define H5FILE_NAME1 "refer_extern1.h5" #define H5FILE_NAME2 "refer_extern2.h5" -#define NDIMS 1 /* Number of dimensions */ -#define BUF_SIZE 4 /* Size of example buffer */ -#define NREFS 1 /* Number of references */ +#define NDIMS 1 /* Number of dimensions */ +#define BUF_SIZE 4 /* Size of example buffer */ +#define NREFS 1 /* Number of references */ int -main(void) { - hid_t file1, dset1, space1; - hsize_t dset1_dims[NDIMS] = { BUF_SIZE }; - int dset_buf[BUF_SIZE]; - - hid_t file2, dset2, space2; - hsize_t dset2_dims[NDIMS] = { NREFS }; - H5R_ref_t ref_buf[NREFS] = { 0 }; +main(void) +{ + hid_t file1, dset1, space1; + hsize_t dset1_dims[NDIMS] = {BUF_SIZE}; + int dset_buf[BUF_SIZE]; + + hid_t file2, dset2, space2; + hsize_t dset2_dims[NDIMS] = {NREFS}; + H5R_ref_t ref_buf[NREFS] = {0}; H5O_type_t obj_type; - int i; + int i; for (i = 0; i < BUF_SIZE; i++) dset_buf[i] = i; /* Create file with one dataset and close it */ - file1 = H5Fcreate(H5FILE_NAME1, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file1 = H5Fcreate(H5FILE_NAME1, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); space1 = H5Screate_simple(NDIMS, dset1_dims, NULL); - dset1 = H5Dcreate2(file1, "dataset1", H5T_NATIVE_INT, space1, H5P_DEFAULT, - H5P_DEFAULT, H5P_DEFAULT); + dset1 = H5Dcreate2(file1, "dataset1", H5T_NATIVE_INT, space1, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); H5Dwrite(dset1, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, dset_buf); H5Dclose(dset1); H5Sclose(space1); @@ -60,10 +60,9 @@ main(void) { H5Fclose(file1); /* Store reference in dataset in separate file "refer_extern2.h5" */ - file2 = H5Fcreate(H5FILE_NAME2, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file2 = H5Fcreate(H5FILE_NAME2, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); space2 = H5Screate_simple(NDIMS, dset2_dims, NULL); - dset2 = H5Dcreate2(file2, "references", H5T_STD_REF, space2, H5P_DEFAULT, - H5P_DEFAULT, H5P_DEFAULT); + dset2 = H5Dcreate2(file2, "references", H5T_STD_REF, space2, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); H5Dwrite(dset2, H5T_STD_REF, H5S_ALL, H5S_ALL, H5P_DEFAULT, ref_buf); H5Dclose(dset2); H5Sclose(space2); @@ -91,4 +90,3 @@ main(void) { return 0; } - diff --git a/examples/h5_reference_deprec.c b/examples/h5_reference_deprec.c index 32a5f59..457956b 100644 --- a/examples/h5_reference_deprec.c +++ b/examples/h5_reference_deprec.c @@ -11,15 +11,15 @@ * help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ - /* - * This program illustrates how references to objects can be used. - * Program creates a dataset and a group in a file. It also creates - * second dataset, and references to the first dataset and the group - * are stored in it. - * Program reopens the file and reads dataset with the references. - * References are used to open the objects. Information about the - * objects is displayed. - */ +/* + * This program illustrates how references to objects can be used. + * Program creates a dataset and a group in a file. It also creates + * second dataset, and references to the first dataset and the group + * are stored in it. + * Program reopens the file and reads dataset with the references. + * References are used to open the objects. Information about the + * objects is displayed. + */ #include <stdlib.h> @@ -28,120 +28,119 @@ #define H5FILE_NAME "refere.h5" int -main(void) { - hid_t fid; /* File, group, datasets, datatypes */ - hid_t gid_a; /* and dataspaces identifiers */ - hid_t did_b, sid_b, tid_b; - hid_t did_r, tid_r, sid_r; - H5O_type_t obj_type; - herr_t status; - - hobj_ref_t *wbuf; /* buffer to write to disk */ - hobj_ref_t *rbuf; /* buffer to read from disk */ - - - hsize_t dim_r[1]; - hsize_t dim_b[2]; - - /* - * Create a file using default properties. - */ - fid = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Create group "A" in the file. - */ - gid_a = H5Gcreate2(fid, "A", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Create dataset "B" in the file. - */ - dim_b[0] = 2; - dim_b[1] = 6; - sid_b = H5Screate_simple(2, dim_b, NULL); - did_b = H5Dcreate2(fid, "B", H5T_NATIVE_FLOAT, sid_b, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Create dataset "R" to store references to the objects "A" and "B". - */ - dim_r[0] = 2; - sid_r = H5Screate_simple(1, dim_r, NULL); - tid_r = H5Tcopy(H5T_STD_REF_OBJ); - did_r = H5Dcreate2(fid, "R", tid_r, sid_r, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Allocate write and read buffers. - */ - wbuf = (hobj_ref_t *)malloc(sizeof(hobj_ref_t) * 2); - rbuf = (hobj_ref_t *)malloc(sizeof(hobj_ref_t) * 2); - - /* - * Create references to the group "A" and dataset "B" - * and store them in the wbuf. - */ - H5Rcreate(&wbuf[0], fid, "A", H5R_OBJECT, (hid_t)-1); - H5Rcreate(&wbuf[1], fid, "B", H5R_OBJECT, (hid_t)-1); - - /* - * Write dataset R using default transfer properties. - */ - status = H5Dwrite(did_r, H5T_STD_REF_OBJ, H5S_ALL, H5S_ALL, H5P_DEFAULT, wbuf); - - /* - * Close all objects. - */ - H5Gclose(gid_a); - - H5Sclose(sid_b); - H5Dclose(did_b); - - H5Tclose(tid_r); - H5Sclose(sid_r); - H5Dclose(did_r); - - H5Fclose(fid); - - /* - * Reopen the file. - */ - fid = H5Fopen(H5FILE_NAME, H5F_ACC_RDWR, H5P_DEFAULT); - - /* - * Open and read dataset "R". - */ - did_r = H5Dopen2(fid, "R", H5P_DEFAULT); - status = H5Dread(did_r, H5T_STD_REF_OBJ, H5S_ALL, H5S_ALL, H5P_DEFAULT, rbuf); - - /* - * Find the type of referenced objects. - */ +main(void) +{ + hid_t fid; /* File, group, datasets, datatypes */ + hid_t gid_a; /* and dataspaces identifiers */ + hid_t did_b, sid_b, tid_b; + hid_t did_r, tid_r, sid_r; + H5O_type_t obj_type; + herr_t status; + + hobj_ref_t *wbuf; /* buffer to write to disk */ + hobj_ref_t *rbuf; /* buffer to read from disk */ + + hsize_t dim_r[1]; + hsize_t dim_b[2]; + + /* + * Create a file using default properties. + */ + fid = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Create group "A" in the file. + */ + gid_a = H5Gcreate2(fid, "A", H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Create dataset "B" in the file. + */ + dim_b[0] = 2; + dim_b[1] = 6; + sid_b = H5Screate_simple(2, dim_b, NULL); + did_b = H5Dcreate2(fid, "B", H5T_NATIVE_FLOAT, sid_b, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Create dataset "R" to store references to the objects "A" and "B". + */ + dim_r[0] = 2; + sid_r = H5Screate_simple(1, dim_r, NULL); + tid_r = H5Tcopy(H5T_STD_REF_OBJ); + did_r = H5Dcreate2(fid, "R", tid_r, sid_r, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Allocate write and read buffers. + */ + wbuf = (hobj_ref_t *)malloc(sizeof(hobj_ref_t) * 2); + rbuf = (hobj_ref_t *)malloc(sizeof(hobj_ref_t) * 2); + + /* + * Create references to the group "A" and dataset "B" + * and store them in the wbuf. + */ + H5Rcreate(&wbuf[0], fid, "A", H5R_OBJECT, (hid_t)-1); + H5Rcreate(&wbuf[1], fid, "B", H5R_OBJECT, (hid_t)-1); + + /* + * Write dataset R using default transfer properties. + */ + status = H5Dwrite(did_r, H5T_STD_REF_OBJ, H5S_ALL, H5S_ALL, H5P_DEFAULT, wbuf); + + /* + * Close all objects. + */ + H5Gclose(gid_a); + + H5Sclose(sid_b); + H5Dclose(did_b); + + H5Tclose(tid_r); + H5Sclose(sid_r); + H5Dclose(did_r); + + H5Fclose(fid); + + /* + * Reopen the file. + */ + fid = H5Fopen(H5FILE_NAME, H5F_ACC_RDWR, H5P_DEFAULT); + + /* + * Open and read dataset "R". + */ + did_r = H5Dopen2(fid, "R", H5P_DEFAULT); + status = H5Dread(did_r, H5T_STD_REF_OBJ, H5S_ALL, H5S_ALL, H5P_DEFAULT, rbuf); + + /* + * Find the type of referenced objects. + */ status = H5Rget_obj_type2(did_r, H5R_OBJECT, &rbuf[0], &obj_type); - if(obj_type == H5O_TYPE_GROUP) + if (obj_type == H5O_TYPE_GROUP) printf("First dereferenced object is a group. \n"); status = H5Rget_obj_type2(did_r, H5R_OBJECT, &rbuf[1], &obj_type); - if(obj_type == H5O_TYPE_DATASET) + if (obj_type == H5O_TYPE_DATASET) printf("Second dereferenced object is a dataset. \n"); - /* - * Get datatype of the dataset "B" - */ - did_b = H5Rdereference2(did_r, H5P_DEFAULT, H5R_OBJECT, &rbuf[1]); - tid_b = H5Dget_type(did_b); - if(H5Tequal(tid_b, H5T_NATIVE_FLOAT)) - printf("Datatype of the dataset is H5T_NATIVE_FLOAT.\n"); - printf("\n"); - - /* - * Close all objects and free memory buffers. - */ - H5Dclose(did_r); - H5Dclose(did_b); - H5Tclose(tid_b); - H5Fclose(fid); - free(rbuf); - free(wbuf); - - return 0; - } - + /* + * Get datatype of the dataset "B" + */ + did_b = H5Rdereference2(did_r, H5P_DEFAULT, H5R_OBJECT, &rbuf[1]); + tid_b = H5Dget_type(did_b); + if (H5Tequal(tid_b, H5T_NATIVE_FLOAT)) + printf("Datatype of the dataset is H5T_NATIVE_FLOAT.\n"); + printf("\n"); + + /* + * Close all objects and free memory buffers. + */ + H5Dclose(did_r); + H5Dclose(did_b); + H5Tclose(tid_b); + H5Fclose(fid); + free(rbuf); + free(wbuf); + + return 0; +} diff --git a/examples/h5_select.c b/examples/h5_select.c index bbc877c..b4aa679 100644 --- a/examples/h5_select.c +++ b/examples/h5_select.c @@ -26,78 +26,80 @@ #define H5FILE_NAME "Select.h5" -#define MSPACE1_RANK 1 /* Rank of the first dataset in memory */ -#define MSPACE1_DIM 50 /* Dataset size in memory */ - -#define MSPACE2_RANK 1 /* Rank of the second dataset in memory */ -#define MSPACE2_DIM 4 /* Dataset size in memory */ - -#define FSPACE_RANK 2 /* Dataset rank as it is stored in the file */ -#define FSPACE_DIM1 8 /* Dimension sizes of the dataset as it is - stored in the file */ -#define FSPACE_DIM2 12 - - /* We will read dataset back from the file - to the dataset in memory with these - dataspace parameters. */ -#define MSPACE_RANK 2 -#define MSPACE_DIM1 8 -#define MSPACE_DIM2 9 - -#define NPOINTS 4 /* Number of points that will be selected - and overwritten */ +#define MSPACE1_RANK 1 /* Rank of the first dataset in memory */ +#define MSPACE1_DIM 50 /* Dataset size in memory */ + +#define MSPACE2_RANK 1 /* Rank of the second dataset in memory */ +#define MSPACE2_DIM 4 /* Dataset size in memory */ + +#define FSPACE_RANK 2 /* Dataset rank as it is stored in the file */ +#define FSPACE_DIM1 \ + 8 /* Dimension sizes of the dataset as it is \ + stored in the file */ +#define FSPACE_DIM2 12 + +/* We will read dataset back from the file + to the dataset in memory with these + dataspace parameters. */ +#define MSPACE_RANK 2 +#define MSPACE_DIM1 8 +#define MSPACE_DIM2 9 + +#define NPOINTS \ + 4 /* Number of points that will be selected \ + and overwritten */ int -main (void) +main(void) { - hid_t file, dataset; /* File and dataset identifiers */ - hid_t mid1, mid2, mid, fid; /* Dataspace identifiers */ - hid_t plist; /* Dataset property list identifier */ + hid_t file, dataset; /* File and dataset identifiers */ + hid_t mid1, mid2, mid, fid; /* Dataspace identifiers */ + hid_t plist; /* Dataset property list identifier */ - hsize_t dim1[] = {MSPACE1_DIM}; /* Dimension size of the first dataset + hsize_t dim1[] = {MSPACE1_DIM}; /* Dimension size of the first dataset (in memory) */ - hsize_t dim2[] = {MSPACE2_DIM}; /* Dimension size of the second dataset + hsize_t dim2[] = {MSPACE2_DIM}; /* Dimension size of the second dataset (in memory */ - hsize_t fdim[] = {FSPACE_DIM1, FSPACE_DIM2}; - /* Dimension sizes of the dataset (on disk) */ - hsize_t mdim[] = {MSPACE_DIM1, MSPACE_DIM2}; /* Dimension sizes of the - dataset in memory when we - read selection from the - dataset on the disk */ - - hsize_t start[2]; /* Start of hyperslab */ - hsize_t stride[2]; /* Stride of hyperslab */ - hsize_t count[2]; /* Block count */ - hsize_t block[2]; /* Block sizes */ - - hsize_t coord[NPOINTS][FSPACE_RANK]; /* Array to store selected points - from the file dataspace */ - herr_t ret; - unsigned i,j; - int fillvalue = 0; /* Fill value for the dataset */ - - int matrix_out[MSPACE_DIM1][MSPACE_DIM2]; /* Buffer to read from the - dataset */ - int vector[MSPACE1_DIM]; - int values[] = {53, 59, 61, 67}; /* New values to be written */ - - /* - * Buffers' initialization. - */ - vector[0] = vector[MSPACE1_DIM - 1] = -1; - for(i = 1; i < MSPACE1_DIM - 1; i++) - vector[i] = i; - - /* - * Create a file. - */ - file = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - - /* - * Create property list for a dataset and set up fill values. - */ - plist = H5Pcreate(H5P_DATASET_CREATE); - ret = H5Pset_fill_value(plist, H5T_NATIVE_INT, &fillvalue); + hsize_t fdim[] = {FSPACE_DIM1, FSPACE_DIM2}; + /* Dimension sizes of the dataset (on disk) */ + hsize_t mdim[] = {MSPACE_DIM1, MSPACE_DIM2}; /* Dimension sizes of the + dataset in memory when we + read selection from the + dataset on the disk */ + + hsize_t start[2]; /* Start of hyperslab */ + hsize_t stride[2]; /* Stride of hyperslab */ + hsize_t count[2]; /* Block count */ + hsize_t block[2]; /* Block sizes */ + + hsize_t coord[NPOINTS][FSPACE_RANK]; /* Array to store selected points + from the file dataspace */ + herr_t ret; + unsigned i, j; + int fillvalue = 0; /* Fill value for the dataset */ + + int matrix_out[MSPACE_DIM1][MSPACE_DIM2]; /* Buffer to read from the + dataset */ + int vector[MSPACE1_DIM]; + int values[] = {53, 59, 61, 67}; /* New values to be written */ + + /* + * Buffers' initialization. + */ + vector[0] = vector[MSPACE1_DIM - 1] = -1; + for (i = 1; i < MSPACE1_DIM - 1; i++) + vector[i] = i; + + /* + * Create a file. + */ + file = H5Fcreate(H5FILE_NAME, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + + /* + * Create property list for a dataset and set up fill values. + */ + plist = H5Pcreate(H5P_DATASET_CREATE); + ret = H5Pset_fill_value(plist, H5T_NATIVE_INT, &fillvalue); /* * Create dataspace for the dataset in the file. @@ -114,11 +116,15 @@ main (void) * Select hyperslab for the dataset in the file, using 3x2 blocks, * (4,3) stride and (2,4) count starting at the position (0,1). */ - start[0] = 0; start[1] = 1; - stride[0] = 4; stride[1] = 3; - count[0] = 2; count[1] = 4; - block[0] = 3; block[1] = 2; - ret = H5Sselect_hyperslab(fid, H5S_SELECT_SET, start, stride, count, block); + start[0] = 0; + start[1] = 1; + stride[0] = 4; + stride[1] = 3; + count[0] = 2; + count[1] = 4; + block[0] = 3; + block[1] = 2; + ret = H5Sselect_hyperslab(fid, H5S_SELECT_SET, start, stride, count, block); /* * Create dataspace for the first dataset. @@ -134,7 +140,7 @@ main (void) stride[0] = 1; count[0] = 48; block[0] = 1; - ret = H5Sselect_hyperslab(mid1, H5S_SELECT_SET, start, stride, count, block); + ret = H5Sselect_hyperslab(mid1, H5S_SELECT_SET, start, stride, count, block); /* * Write selection from the vector buffer to the dataset in the file. @@ -149,7 +155,7 @@ main (void) * 0 41 42 0 43 44 0 45 46 0 47 48 * 0 0 0 0 0 0 0 0 0 0 0 0 */ - ret = H5Dwrite(dataset, H5T_NATIVE_INT, mid1, fid, H5P_DEFAULT, vector); + ret = H5Dwrite(dataset, H5T_NATIVE_INT, mid1, fid, H5P_DEFAULT, vector); /* * Reset the selection for the file dataspace fid. @@ -164,10 +170,14 @@ main (void) /* * Select sequence of NPOINTS points in the file dataspace. */ - coord[0][0] = 0; coord[0][1] = 0; - coord[1][0] = 3; coord[1][1] = 3; - coord[2][0] = 3; coord[2][1] = 5; - coord[3][0] = 5; coord[3][1] = 6; + coord[0][0] = 0; + coord[0][1] = 0; + coord[1][0] = 3; + coord[1][1] = 3; + coord[2][0] = 3; + coord[2][1] = 5; + coord[3][0] = 5; + coord[3][1] = 6; ret = H5Sselect_elements(fid, H5S_SELECT_SET, NPOINTS, (const hsize_t *)coord); @@ -229,11 +239,15 @@ main (void) * 0 59 0 61 * */ - start[0] = 1; start[1] = 2; - block[0] = 1; block[1] = 1; - stride[0] = 1; stride[1] = 1; - count[0] = 3; count[1] = 4; - ret = H5Sselect_hyperslab(fid, H5S_SELECT_SET, start, stride, count, block); + start[0] = 1; + start[1] = 2; + block[0] = 1; + block[1] = 1; + stride[0] = 1; + stride[1] = 1; + count[0] = 3; + count[1] = 4; + ret = H5Sselect_hyperslab(fid, H5S_SELECT_SET, start, stride, count, block); /* * Add second selected hyperslab to the selection. @@ -248,11 +262,15 @@ main (void) * 19 20 * 0 61 */ - start[0] = 2; start[1] = 4; - block[0] = 1; block[1] = 1; - stride[0] = 1; stride[1] = 1; - count[0] = 6; count[1] = 5; - ret = H5Sselect_hyperslab(fid, H5S_SELECT_OR, start, stride, count, block); + start[0] = 2; + start[1] = 4; + block[0] = 1; + block[1] = 1; + stride[0] = 1; + stride[1] = 1; + count[0] = 6; + count[1] = 5; + ret = H5Sselect_hyperslab(fid, H5S_SELECT_OR, start, stride, count, block); /* * Create memory dataspace. @@ -263,30 +281,37 @@ main (void) * Select two hyperslabs in memory. Hyperslabs has the same * size and shape as the selected hyperslabs for the file dataspace. */ - start[0] = 0; start[1] = 0; - block[0] = 1; block[1] = 1; - stride[0] = 1; stride[1] = 1; - count[0] = 3; count[1] = 4; - ret = H5Sselect_hyperslab(mid, H5S_SELECT_SET, start, stride, count, block); - - start[0] = 1; start[1] = 2; - block[0] = 1; block[1] = 1; - stride[0] = 1; stride[1] = 1; - count[0] = 6; count[1] = 5; - ret = H5Sselect_hyperslab(mid, H5S_SELECT_OR, start, stride, count, block); + start[0] = 0; + start[1] = 0; + block[0] = 1; + block[1] = 1; + stride[0] = 1; + stride[1] = 1; + count[0] = 3; + count[1] = 4; + ret = H5Sselect_hyperslab(mid, H5S_SELECT_SET, start, stride, count, block); + + start[0] = 1; + start[1] = 2; + block[0] = 1; + block[1] = 1; + stride[0] = 1; + stride[1] = 1; + count[0] = 6; + count[1] = 5; + ret = H5Sselect_hyperslab(mid, H5S_SELECT_OR, start, stride, count, block); /* * Initialize data buffer. */ for (i = 0; i < MSPACE_DIM1; i++) { - for (j = 0; j < MSPACE_DIM2; j++) + for (j = 0; j < MSPACE_DIM2; j++) matrix_out[i][j] = 0; } /* * Read data back to the buffer matrix_out. */ - ret = H5Dread(dataset, H5T_NATIVE_INT, mid, fid, - H5P_DEFAULT, matrix_out); + ret = H5Dread(dataset, H5T_NATIVE_INT, mid, fid, H5P_DEFAULT, matrix_out); /* * Display the result. Memory dataset is: @@ -300,8 +325,8 @@ main (void) * 0 0 0 0 0 0 0 0 0 * 0 0 0 0 0 0 0 0 0 */ - for(i = 0; i < MSPACE_DIM1; i++) { - for(j = 0; j < MSPACE_DIM2; j++) + for (i = 0; i < MSPACE_DIM1; i++) { + for (j = 0; j < MSPACE_DIM2; j++) printf("%3d ", matrix_out[i][j]); printf("\n"); } @@ -329,4 +354,3 @@ main (void) return 0; } - diff --git a/examples/h5_shared_mesg.c b/examples/h5_shared_mesg.c index 4e1f92a..cf2deb6 100644 --- a/examples/h5_shared_mesg.c +++ b/examples/h5_shared_mesg.c @@ -27,29 +27,13 @@ #include "hdf5.h" #define NUM_DATASETS 40 -const char* DSETNAME[] = { - "dataset0", "dataset1", - "dataset2", "dataset3", - "dataset4", "dataset5", - "dataset6", "dataset7", - "dataset8", "dataset9", - "dataset10", "dataset11", - "dataset12", "dataset13", - "dataset14", "dataset15", - "dataset16", "dataset17", - "dataset18", "dataset19", - "dataset20", "dataset21", - "dataset22", "dataset23", - "dataset24", "dataset25", - "dataset26", "dataset27", - "dataset28", "dataset29", - "dataset30", "dataset31", - "dataset32", "dataset33", - "dataset34", "dataset35", - "dataset36", "dataset37", - "dataset38", "dataset39", - NULL -}; +const char *DSETNAME[] = {"dataset0", "dataset1", "dataset2", "dataset3", "dataset4", "dataset5", + "dataset6", "dataset7", "dataset8", "dataset9", "dataset10", "dataset11", + "dataset12", "dataset13", "dataset14", "dataset15", "dataset16", "dataset17", + "dataset18", "dataset19", "dataset20", "dataset21", "dataset22", "dataset23", + "dataset24", "dataset25", "dataset26", "dataset27", "dataset28", "dataset29", + "dataset30", "dataset31", "dataset32", "dataset33", "dataset34", "dataset35", + "dataset36", "dataset37", "dataset38", "dataset39", NULL}; herr_t create_standard_file(const char *filename, hid_t fcpl); @@ -61,21 +45,24 @@ herr_t create_standard_file(const char *filename, hid_t fcpl); * *------------------------------------------------------------------------- */ -int main(void) +int +main(void) { - hid_t fcpl_id; + hid_t fcpl_id; herr_t ret; /* Create a file creation property list */ fcpl_id = H5Pcreate(H5P_FILE_CREATE); - if(fcpl_id < 0) goto error; + if (fcpl_id < 0) + goto error; /* The file creation property list is the default list right now. * Create a file using it (this is the same as creating a file with * H5P_DEFAULT). Implicit shared messages will be disabled. */ ret = create_standard_file("default_file.h5", fcpl_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* There are five kinds of messages that can be shared: datatypes, * dataspaces, attributes, fill values, and filter pipelines. @@ -86,7 +73,8 @@ int main(void) */ /* To begin with, use only one index. */ ret = H5Pset_shared_mesg_nindexes(fcpl_id, 1); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* Each index has a "minimum message size" for a message of that * type to be shared. Since sharing a message creates some overhead, @@ -111,7 +99,8 @@ int main(void) * shared in this single index. */ ret = H5Pset_shared_mesg_index(fcpl_id, 0, H5O_SHMESG_ALL_FLAG, 40); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* The other property that can be set for shared messages is the * list/B-tree cutoff for the indexes. @@ -128,7 +117,8 @@ int main(void) * second the minimum B-tree size. */ ret = H5Pset_shared_mesg_phase_change(fcpl_id, 30, 20); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* Now create a file with this property list. After the FCPL is used, * everything is automatic; messages will be shared and this will be @@ -137,7 +127,8 @@ int main(void) * written later. */ ret = create_standard_file("one_index_file.h5", fcpl_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* Now try some variations on this. The FCPL hasn't been closed, so * we don't need to re-create it. @@ -147,36 +138,42 @@ int main(void) * overhead). */ ret = H5Pset_shared_mesg_index(fcpl_id, 0, H5O_SHMESG_ALL_FLAG, 1000); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = create_standard_file("only_huge_mesgs_file.h5", fcpl_id); - if(ret < 0) goto error; - + if (ret < 0) + goto error; /* Or, suppose we only wanted to shared dataspaces and * attributes (which might make sense if we were going to use committed * datatypes). We could change the flags on the index: */ ret = H5Pset_shared_mesg_index(fcpl_id, 0, H5O_SHMESG_SDSPACE_FLAG | H5O_SHMESG_ATTR_FLAG, 40); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = create_standard_file("only_dspaces_and_attrs_file.h5", fcpl_id); - if(ret < 0) goto error; - + if (ret < 0) + goto error; /* We could create a second index and put attributes in it to separate them * from datatypes and dataspaces (and then run some performance metrics to * see whether this improved caching performance). */ ret = H5Pset_shared_mesg_nindexes(fcpl_id, 2); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Pset_shared_mesg_index(fcpl_id, 0, H5O_SHMESG_DTYPE_FLAG | H5O_SHMESG_SDSPACE_FLAG, 40); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Pset_shared_mesg_index(fcpl_id, 1, H5O_SHMESG_ATTR_FLAG, 40); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = create_standard_file("separate_indexes_file.h5", fcpl_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* We can try twiddling the "phase change" values and see what it does to * the file size. Since there's only a few different messages (two @@ -184,25 +181,30 @@ int main(void) * save some space. */ ret = H5Pset_shared_mesg_nindexes(fcpl_id, 1); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Pset_shared_mesg_index(fcpl_id, 0, H5O_SHMESG_ALL_FLAG, 40); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Pset_shared_mesg_phase_change(fcpl_id, 5, 0); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = create_standard_file("small_lists_file.h5", fcpl_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* Or we could create indexes that are never lists, but are created as * B-trees. We do this by setting the "maximum list size" to zero. */ ret = H5Pset_shared_mesg_phase_change(fcpl_id, 0, 0); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = create_standard_file("btrees_file.h5", fcpl_id); - if(ret < 0) goto error; - + if (ret < 0) + goto error; /* Obviously there are a lot more permutations of these options possible. * Performance will often be a tradeoff of speed for space, but will @@ -212,10 +214,10 @@ int main(void) * Please let The HDF Group (help@hdfgroup.org) know what you find! */ - /* Close the property list */ ret = H5Pclose(fcpl_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; return 0; error: @@ -238,21 +240,22 @@ error: herr_t create_standard_file(const char *filename, hid_t fcpl_id) { - hid_t file_id=-1; - hid_t type_id=-1, temp_type_id=-1; - hsize_t dims[] = {10, 9, 8, 7, 6, 5, 4, 3, 2, 1}; - hid_t space_id=-1; - hid_t attr_type_id = -1; - hid_t attr_space_id = -1; - int attr_data[] = {1,2,3,4,5,6,7,8,9,0}; - hid_t dset_id=-1; - hid_t attr_id=-1; - int x; - herr_t ret; + hid_t file_id = -1; + hid_t type_id = -1, temp_type_id = -1; + hsize_t dims[] = {10, 9, 8, 7, 6, 5, 4, 3, 2, 1}; + hid_t space_id = -1; + hid_t attr_type_id = -1; + hid_t attr_space_id = -1; + int attr_data[] = {1, 2, 3, 4, 5, 6, 7, 8, 9, 0}; + hid_t dset_id = -1; + hid_t attr_id = -1; + int x; + herr_t ret; /* Create the file */ file_id = H5Fcreate(filename, H5F_ACC_TRUNC, fcpl_id, H5P_DEFAULT); - if(file_id < 0) goto error; + if (file_id < 0) + goto error; /* Create the datatype we'll be using. Generally, sharing messages * is most useful when the message is complex and takes more space on @@ -260,66 +263,80 @@ create_standard_file(const char *filename, hid_t fcpl_id) * However, any type can be shared. */ temp_type_id = H5Tarray_create2(H5T_NATIVE_INT, 2, dims); - if(temp_type_id < 0) goto error; - type_id = H5Tarray_create2(temp_type_id, 2, dims); - if(type_id < 0) goto error; + if (temp_type_id < 0) + goto error; + type_id = H5Tarray_create2(temp_type_id, 2, dims); + if (type_id < 0) + goto error; ret = H5Tclose(temp_type_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; /* Create the dataspace we'll be using. * Again, create a more complex dataspace so that more space will * be saved when we share it. */ space_id = H5Screate_simple(10, dims, dims); - if(space_id < 0) goto error; + if (space_id < 0) + goto error; /* Create a datatype and dataspace for the attributes we'll be creating. * The datatype will be a single integer, and each attribute will hold * 10 integers. */ attr_type_id = H5Tcopy(H5T_NATIVE_INT); - if(attr_type_id < 0) goto error; + if (attr_type_id < 0) + goto error; attr_space_id = H5Screate_simple(1, dims, dims); - if(attr_space_id < 0) goto error; - + if (attr_space_id < 0) + goto error; /* Begin using the messages many times. Do this by creating datasets * that use this datatype, dataspace, and have this attribute. */ - for(x = 0; x < NUM_DATASETS; ++x) { - /* Create a dataset */ - dset_id = H5Dcreate2(file_id, DSETNAME[x], type_id, space_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); - if(dset_id < 0) goto error; - - /* Create an attribute on the dataset */ - attr_id = H5Acreate2(dset_id, "attr_name", attr_type_id, attr_space_id, H5P_DEFAULT, H5P_DEFAULT); - if(attr_id < 0) goto error; - - /* Write data to the attribute */ - ret = H5Awrite(attr_id, H5T_NATIVE_INT, attr_data); - if(ret < 0) goto error; - - ret = H5Aclose(attr_id); - if(ret < 0) goto error; - ret = H5Dclose(dset_id); - if(ret < 0) goto error; + for (x = 0; x < NUM_DATASETS; ++x) { + /* Create a dataset */ + dset_id = H5Dcreate2(file_id, DSETNAME[x], type_id, space_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + if (dset_id < 0) + goto error; + + /* Create an attribute on the dataset */ + attr_id = H5Acreate2(dset_id, "attr_name", attr_type_id, attr_space_id, H5P_DEFAULT, H5P_DEFAULT); + if (attr_id < 0) + goto error; + + /* Write data to the attribute */ + ret = H5Awrite(attr_id, H5T_NATIVE_INT, attr_data); + if (ret < 0) + goto error; + + ret = H5Aclose(attr_id); + if (ret < 0) + goto error; + ret = H5Dclose(dset_id); + if (ret < 0) + goto error; } /* Close all open IDs */ ret = H5Tclose(attr_type_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Sclose(attr_space_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Tclose(type_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Sclose(space_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; ret = H5Fclose(file_id); - if(ret < 0) goto error; + if (ret < 0) + goto error; return 0; error: return -1; } - diff --git a/examples/h5_subset.c b/examples/h5_subset.c index ad2eaba..bd680c7 100644 --- a/examples/h5_subset.c +++ b/examples/h5_subset.c @@ -20,34 +20,32 @@ #define FILE "subset.h5" #define DATASETNAME "IntArray" -#define RANK 2 +#define RANK 2 -#define DIM0_SUB 3 /* subset dimensions */ -#define DIM1_SUB 4 +#define DIM0_SUB 3 /* subset dimensions */ +#define DIM1_SUB 4 - -#define DIM0 8 /* size of dataset */ -#define DIM1 10 +#define DIM0 8 /* size of dataset */ +#define DIM1 10 int -main (void) +main(void) { - hsize_t dims[2], dimsm[2]; - int data[DIM0][DIM1]; /* data to write */ - int sdata[DIM0_SUB][DIM1_SUB]; /* subset to write */ - int rdata[DIM0][DIM1]; /* buffer for read */ - - hid_t file_id, dataset_id; /* handles */ - hid_t dataspace_id, memspace_id; + hsize_t dims[2], dimsm[2]; + int data[DIM0][DIM1]; /* data to write */ + int sdata[DIM0_SUB][DIM1_SUB]; /* subset to write */ + int rdata[DIM0][DIM1]; /* buffer for read */ - herr_t status; + hid_t file_id, dataset_id; /* handles */ + hid_t dataspace_id, memspace_id; - hsize_t count[2]; /* size of subset in the file */ - hsize_t offset[2]; /* subset offset in the file */ - hsize_t stride[2]; - hsize_t block[2]; - int i, j; + herr_t status; + hsize_t count[2]; /* size of subset in the file */ + hsize_t offset[2]; /* subset offset in the file */ + hsize_t stride[2]; + hsize_t block[2]; + int i, j; /***************************************************************** * Create a new file with default creation and access properties.* @@ -55,53 +53,50 @@ main (void) * and dataset. * *****************************************************************/ - file_id = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - - dims[0] = DIM0; - dims[1] = DIM1; - dataspace_id = H5Screate_simple (RANK, dims, NULL); + file_id = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - dataset_id = H5Dcreate2 (file_id, DATASETNAME, H5T_STD_I32BE, dataspace_id, - H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dims[0] = DIM0; + dims[1] = DIM1; + dataspace_id = H5Screate_simple(RANK, dims, NULL); + dataset_id = + H5Dcreate2(file_id, DATASETNAME, H5T_STD_I32BE, dataspace_id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); for (j = 0; j < DIM0; j++) { - for (i = 0; i < DIM1; i++) - if (i< (DIM1/2)) - data[j][i] = 1; + for (i = 0; i < DIM1; i++) + if (i < (DIM1 / 2)) + data[j][i] = 1; else - data[j][i] = 2; + data[j][i] = 2; } - status = H5Dwrite (dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, - H5P_DEFAULT, data); + status = H5Dwrite(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, data); - printf ("\nData Written to File:\n"); - for (i = 0; i<DIM0; i++){ - for (j = 0; j<DIM1; j++) - printf (" %i", data[i][j]); - printf ("\n"); + printf("\nData Written to File:\n"); + for (i = 0; i < DIM0; i++) { + for (j = 0; j < DIM1; j++) + printf(" %i", data[i][j]); + printf("\n"); } - status = H5Sclose (dataspace_id); - status = H5Dclose (dataset_id); - status = H5Fclose (file_id); - + status = H5Sclose(dataspace_id); + status = H5Dclose(dataset_id); + status = H5Fclose(file_id); /***************************************************** * Reopen the file and dataset and write a subset of * * values to the dataset. *****************************************************/ - file_id = H5Fopen (FILE, H5F_ACC_RDWR, H5P_DEFAULT); - dataset_id = H5Dopen2 (file_id, DATASETNAME, H5P_DEFAULT); + file_id = H5Fopen(FILE, H5F_ACC_RDWR, H5P_DEFAULT); + dataset_id = H5Dopen2(file_id, DATASETNAME, H5P_DEFAULT); /* Specify size and shape of subset to write. */ offset[0] = 1; offset[1] = 2; - count[0] = DIM0_SUB; - count[1] = DIM1_SUB; + count[0] = DIM0_SUB; + count[1] = DIM1_SUB; stride[0] = 1; stride[1] = 1; @@ -112,40 +107,36 @@ main (void) /* Create memory space with size of subset. Get file dataspace and select subset from file dataspace. */ - dimsm[0] = DIM0_SUB; - dimsm[1] = DIM1_SUB; - memspace_id = H5Screate_simple (RANK, dimsm, NULL); + dimsm[0] = DIM0_SUB; + dimsm[1] = DIM1_SUB; + memspace_id = H5Screate_simple(RANK, dimsm, NULL); - dataspace_id = H5Dget_space (dataset_id); - status = H5Sselect_hyperslab (dataspace_id, H5S_SELECT_SET, offset, - stride, count, block); + dataspace_id = H5Dget_space(dataset_id); + status = H5Sselect_hyperslab(dataspace_id, H5S_SELECT_SET, offset, stride, count, block); /* Write a subset of data to the dataset, then read the entire dataset back from the file. */ - printf ("\nWrite subset to file specifying:\n"); - printf (" offset=1x2 stride=1x1 count=3x4 block=1x1\n"); + printf("\nWrite subset to file specifying:\n"); + printf(" offset=1x2 stride=1x1 count=3x4 block=1x1\n"); for (j = 0; j < DIM0_SUB; j++) { - for (i = 0; i < DIM1_SUB; i++) - sdata[j][i] = 5; + for (i = 0; i < DIM1_SUB; i++) + sdata[j][i] = 5; } - status = H5Dwrite (dataset_id, H5T_NATIVE_INT, memspace_id, - dataspace_id, H5P_DEFAULT, sdata); + status = H5Dwrite(dataset_id, H5T_NATIVE_INT, memspace_id, dataspace_id, H5P_DEFAULT, sdata); - status = H5Dread (dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, - H5P_DEFAULT, rdata); + status = H5Dread(dataset_id, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, rdata); - printf ("\nData in File after Subset is Written:\n"); - for (i = 0; i<DIM0; i++){ - for (j = 0; j<DIM1; j++) - printf (" %i", rdata[i][j]); - printf ("\n"); + printf("\nData in File after Subset is Written:\n"); + for (i = 0; i < DIM0; i++) { + for (j = 0; j < DIM1; j++) + printf(" %i", rdata[i][j]); + printf("\n"); } - status = H5Sclose (memspace_id); - status = H5Sclose (dataspace_id); - status = H5Dclose (dataset_id); - status = H5Fclose (file_id); - + status = H5Sclose(memspace_id); + status = H5Sclose(dataspace_id); + status = H5Dclose(dataset_id); + status = H5Fclose(file_id); } diff --git a/examples/h5_vds-eiger.c b/examples/h5_vds-eiger.c index a02f4f8..8ba01c6 100644 --- a/examples/h5_vds-eiger.c +++ b/examples/h5_vds-eiger.c @@ -23,85 +23,73 @@ #include <stdio.h> #include <stdlib.h> -#define FILE "vds-eiger.h5" -#define DATASET "VDS-Eiger" -#define VDSDIM0 5 -#define VDSDIM1 10 -#define VDSDIM2 10 -#define DIM0 5 -#define DIM1 10 -#define DIM2 10 -#define RANK 3 +#define FILE "vds-eiger.h5" +#define DATASET "VDS-Eiger" +#define VDSDIM0 5 +#define VDSDIM1 10 +#define VDSDIM2 10 +#define DIM0 5 +#define DIM1 10 +#define DIM2 10 +#define RANK 3 int -main (void) +main(void) { - hid_t file, src_space, vspace, - dset; /* Handles */ - hid_t dcpl; - herr_t status; - hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, - vdsdims_max[3] = {H5S_UNLIMITED, VDSDIM1, VDSDIM1}, - dims[3] = {DIM0, DIM1, DIM2}, - start[3], /* Hyperslab parameters */ - stride[3], - count[3], - block[3]; - hsize_t start_out[3], /* Hyperslab parameter out */ - stride_out[3], - count_out[3], - block_out[3]; + hid_t file, src_space, vspace, dset; /* Handles */ + hid_t dcpl; + herr_t status; + hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, vdsdims_max[3] = {H5S_UNLIMITED, VDSDIM1, VDSDIM1}, + dims[3] = {DIM0, DIM1, DIM2}, start[3], /* Hyperslab parameters */ + stride[3], count[3], block[3]; + hsize_t start_out[3], /* Hyperslab parameter out */ + stride_out[3], count_out[3], block_out[3]; int i; - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; - - file = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - vspace = H5Screate_simple (RANK, vdsdims, vdsdims_max); + vspace = H5Screate_simple(RANK, vdsdims, vdsdims_max); /* Create dataspaces for the source dataset. */ - src_space = H5Screate_simple (RANK, dims, NULL); + src_space = H5Screate_simple(RANK, dims, NULL); /* Create VDS creation property */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); + dcpl = H5Pcreate(H5P_DATASET_CREATE); /* Initialize hyperslab values */ - start[0] = 0; - start[1] = 0; - start[2] = 0; + start[0] = 0; + start[1] = 0; + start[2] = 0; stride[0] = DIM0; stride[1] = 1; stride[2] = 1; - count[0] = H5S_UNLIMITED; - count[1] = 1; - count[2] = 1; - block[0] = DIM0; - block[1] = DIM1; - block[2] = DIM2; - - /* - * Build the mappings - * - */ - status = H5Sselect_hyperslab (vspace, H5S_SELECT_SET, start, stride, count, block); - status = H5Pset_virtual (dcpl, vspace, "f-%b.h5", "/A", src_space); - + count[0] = H5S_UNLIMITED; + count[1] = 1; + count[2] = 1; + block[0] = DIM0; + block[1] = DIM1; + block[2] = DIM2; + /* + * Build the mappings + * + */ + status = H5Sselect_hyperslab(vspace, H5S_SELECT_SET, start, stride, count, block); + status = H5Pset_virtual(dcpl, vspace, "f-%b.h5", "/A", src_space); - /* Create a virtual dataset */ - dset = H5Dcreate2 (file, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (vspace); - status = H5Sclose (src_space); - status = H5Dclose (dset); - status = H5Fclose (file); - + /* Create a virtual dataset */ + dset = H5Dcreate2(file, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(vspace); + status = H5Sclose(src_space); + status = H5Dclose(dset); + status = H5Fclose(file); /* * Now we begin the read section of this example. @@ -110,79 +98,82 @@ main (void) /* * Open file and dataset using the default properties. */ - file = H5Fopen (FILE, H5F_ACC_RDONLY, H5P_DEFAULT); - dset = H5Dopen2 (file, DATASET, H5P_DEFAULT); + file = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT); + dset = H5Dopen2(file, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (dset); + dcpl = H5Dget_create_plist(dset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf(" Wrong layout found \n"); - /* - * Find number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %d\n", (int)num_map); - - /* - * Get mapping parameters for each mapping. - */ - for (i = 0; i < (int)num_map; i++) { - printf(" Mapping %d \n", i); - printf(" Selection in the virtual dataset \n"); - /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); - if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - /* Get source file name */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); - printf(" Source filename %s\n", filename); - - /* Get source dataset name */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); - printf(" Source dataset name %s\n", dsetname); - - /* Get selection in the source dataset */ - printf(" Selection in the source dataset "); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); - if(H5Sget_select_type(src_space) == H5S_SEL_ALL) { - printf("H5S_ALL \n"); - } -/* EIP read data back */ - H5Sclose(vspace); - H5Sclose(src_space); - free(filename); - free(dsetname); - } + /* + * Find number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %d\n", (int)num_map); + + /* + * Get mapping parameters for each mapping. + */ + for (i = 0; i < (int)num_map; i++) { + printf(" Mapping %d \n", i); + printf(" Selection in the virtual dataset \n"); + /* Get selection in the virttual dataset */ + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); + if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + /* Get source file name */ + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); + printf(" Source filename %s\n", filename); + + /* Get source dataset name */ + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); + printf(" Source dataset name %s\n", dsetname); + + /* Get selection in the source dataset */ + printf(" Selection in the source dataset "); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); + if (H5Sget_select_type(src_space) == H5S_SEL_ALL) { + printf("H5S_ALL \n"); + } + /* EIP read data back */ + H5Sclose(vspace); + H5Sclose(src_space); + free(filename); + free(dsetname); + } /* * Close and release resources. */ - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); return 0; } - diff --git a/examples/h5_vds-exc.c b/examples/h5_vds-exc.c index b113c36..a9ef57e 100644 --- a/examples/h5_vds-exc.c +++ b/examples/h5_vds-exc.c @@ -22,80 +22,55 @@ #include <stdio.h> #include <stdlib.h> -#define FILE "vds-exc.h5" -#define DATASET "VDS-Excalibur" -#define VDSDIM0 0 -#define VDSDIM1 15 -#define VDSDIM2 6 -#define KDIM0 0 -#define KDIM1 2 -#define KDIM2 6 -#define NDIM0 0 -#define NDIM1 3 -#define NDIM2 6 -#define RANK 3 - -const char *SRC_FILE[] = { - "a.h5", - "b.h5", - "c.h5", - "d.h5", - "e.h5", - "f.h5" -}; - -const char *SRC_DATASET[] = { - "A", - "B", - "C", - "D", - "E", - "F" -}; +#define FILE "vds-exc.h5" +#define DATASET "VDS-Excalibur" +#define VDSDIM0 0 +#define VDSDIM1 15 +#define VDSDIM2 6 +#define KDIM0 0 +#define KDIM1 2 +#define KDIM2 6 +#define NDIM0 0 +#define NDIM1 3 +#define NDIM2 6 +#define RANK 3 + +const char *SRC_FILE[] = {"a.h5", "b.h5", "c.h5", "d.h5", "e.h5", "f.h5"}; + +const char *SRC_DATASET[] = {"A", "B", "C", "D", "E", "F"}; int -main (void) +main(void) { - hid_t file, space, ksrc_space, nsrc_space, vspace, - src_space, - dset; /* Handles */ - hid_t dcpl; - herr_t status; - hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, - vdsdims_max[3] = {H5S_UNLIMITED,VDSDIM1, VDSDIM2}, - kdims[3] = {KDIM0, KDIM1, KDIM2}, - kdims_max[3] = {H5S_UNLIMITED, KDIM1, KDIM2}, - ndims[3] = {NDIM0, NDIM1, NDIM2}, - ndims_max[3] = {H5S_UNLIMITED, NDIM1, NDIM2}, - start[3], /* Hyperslab parameters */ - stride[3], - count[3], - block[3]; - hsize_t start_out[3], - stride_out[3], - count_out[3], - block_out[3]; + hid_t file, space, ksrc_space, nsrc_space, vspace, src_space, dset; /* Handles */ + hid_t dcpl; + herr_t status; + hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, vdsdims_max[3] = {H5S_UNLIMITED, VDSDIM1, VDSDIM2}, + kdims[3] = {KDIM0, KDIM1, KDIM2}, kdims_max[3] = {H5S_UNLIMITED, KDIM1, KDIM2}, + ndims[3] = {NDIM0, NDIM1, NDIM2}, ndims_max[3] = {H5S_UNLIMITED, NDIM1, NDIM2}, + start[3], /* Hyperslab parameters */ + stride[3], count[3], block[3]; + hsize_t start_out[3], stride_out[3], count_out[3], block_out[3]; int k = 2; int n = 3; int i; - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; - - file = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - space = H5Screate_simple (RANK, vdsdims, vdsdims_max); + space = H5Screate_simple(RANK, vdsdims, vdsdims_max); /* Create dataspaces for A, C, and E datasets. */ - ksrc_space = H5Screate_simple (RANK, kdims, kdims_max); + ksrc_space = H5Screate_simple(RANK, kdims, kdims_max); /* Create dataspaces for B, D, and F datasets. */ - nsrc_space = H5Screate_simple (RANK, ndims, ndims_max); + nsrc_space = H5Screate_simple(RANK, ndims, ndims_max); /* Create VDS creation property */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); + dcpl = H5Pcreate(H5P_DATASET_CREATE); /* Initialize hyperslab values */ @@ -109,42 +84,40 @@ main (void) block[1] = k; block[2] = VDSDIM2; - /* - * Build the mappings for A, C and E source datasets. - * Unlimited hyperslab selection is the same in the source datasets. - * Unlimited hyperslab selections in the virtual dataset have different offsets. - */ - status = H5Sselect_hyperslab (ksrc_space, H5S_SELECT_SET, start, NULL, count, block); - for (i = 0; i < 3; i++) { - start[1] = (hsize_t)((k+n)*i); - status = H5Sselect_hyperslab (space, H5S_SELECT_SET, start, NULL, count, block); - status = H5Pset_virtual (dcpl, space, SRC_FILE[2*i], SRC_DATASET[2*i], ksrc_space); - } - - /* Reinitialize start[1] and block[1] to build the second set of mappings. */ - start[1] = 0; - block[1] = n; - /* - * Build the mappings for B, D and F source datasets. - * Unlimited hyperslab selection is the same in the source datasets. - * Unlimited hyperslab selections in the virtual dataset have different offsets. - */ - status = H5Sselect_hyperslab (nsrc_space, H5S_SELECT_SET, start, NULL, count, block); - for (i = 0; i < 3; i++) { - start[1] = (hsize_t)(k+(k+n)*i); - status = H5Sselect_hyperslab (space, H5S_SELECT_SET, start, NULL, count, block); - status = H5Pset_virtual (dcpl, space, SRC_FILE[2*i+1], SRC_DATASET[2*i+1], nsrc_space); - } - - /* Create a virtual dataset */ - dset = H5Dcreate2 (file, DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (space); - status = H5Sclose (nsrc_space); - status = H5Sclose (ksrc_space); - status = H5Dclose (dset); - status = H5Fclose (file); - + /* + * Build the mappings for A, C and E source datasets. + * Unlimited hyperslab selection is the same in the source datasets. + * Unlimited hyperslab selections in the virtual dataset have different offsets. + */ + status = H5Sselect_hyperslab(ksrc_space, H5S_SELECT_SET, start, NULL, count, block); + for (i = 0; i < 3; i++) { + start[1] = (hsize_t)((k + n) * i); + status = H5Sselect_hyperslab(space, H5S_SELECT_SET, start, NULL, count, block); + status = H5Pset_virtual(dcpl, space, SRC_FILE[2 * i], SRC_DATASET[2 * i], ksrc_space); + } + + /* Reinitialize start[1] and block[1] to build the second set of mappings. */ + start[1] = 0; + block[1] = n; + /* + * Build the mappings for B, D and F source datasets. + * Unlimited hyperslab selection is the same in the source datasets. + * Unlimited hyperslab selections in the virtual dataset have different offsets. + */ + status = H5Sselect_hyperslab(nsrc_space, H5S_SELECT_SET, start, NULL, count, block); + for (i = 0; i < 3; i++) { + start[1] = (hsize_t)(k + (k + n) * i); + status = H5Sselect_hyperslab(space, H5S_SELECT_SET, start, NULL, count, block); + status = H5Pset_virtual(dcpl, space, SRC_FILE[2 * i + 1], SRC_DATASET[2 * i + 1], nsrc_space); + } + + /* Create a virtual dataset */ + dset = H5Dcreate2(file, DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(space); + status = H5Sclose(nsrc_space); + status = H5Sclose(ksrc_space); + status = H5Dclose(dset); + status = H5Fclose(file); /* * Now we begin the read section of this example. @@ -153,85 +126,92 @@ main (void) /* * Open file and dataset using the default properties. */ - file = H5Fopen (FILE, H5F_ACC_RDONLY, H5P_DEFAULT); - dset = H5Dopen2 (file, DATASET, H5P_DEFAULT); + file = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT); + dset = H5Dopen2(file, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (dset); + dcpl = H5Dget_create_plist(dset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf("Wrong layout found \n"); - /* - * Find number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %lu\n", (unsigned long)num_map); - - /* - * Get mapping parameters for each mapping. - */ - for (i = 0; i < (int)num_map; i++) { - printf(" Mapping %d \n", i); - printf(" Selection in the virtual dataset \n"); - /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); - if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - /* Get source file name */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); - printf(" Source filename %s\n", filename); - - /* Get source dataset name */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); - printf(" Source dataset name %s\n", dsetname); - - /* Get selection in the source dataset */ - printf(" Selection in the source dataset \n"); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); - if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (src_space, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - H5Sclose(vspace); - H5Sclose(src_space); - free(filename); - free(dsetname); - } -/* EIP read data back */ + /* + * Find number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %lu\n", (unsigned long)num_map); + + /* + * Get mapping parameters for each mapping. + */ + for (i = 0; i < (int)num_map; i++) { + printf(" Mapping %d \n", i); + printf(" Selection in the virtual dataset \n"); + /* Get selection in the virttual dataset */ + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); + if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + /* Get source file name */ + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); + printf(" Source filename %s\n", filename); + + /* Get source dataset name */ + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); + printf(" Source dataset name %s\n", dsetname); + + /* Get selection in the source dataset */ + printf(" Selection in the source dataset \n"); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); + if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(src_space, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + H5Sclose(vspace); + H5Sclose(src_space); + free(filename); + free(dsetname); + } + /* EIP read data back */ /* * Close and release resources. */ - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); return 0; } - diff --git a/examples/h5_vds-exclim.c b/examples/h5_vds-exclim.c index 152731c..559799b 100644 --- a/examples/h5_vds-exclim.c +++ b/examples/h5_vds-exclim.c @@ -23,77 +23,53 @@ #include <stdio.h> #include <stdlib.h> -#define FILE "vds-exclim.h5" -#define DATASET "VDS-Excaliburlim" -#define VDSDIM0 3 -#define VDSDIM1 15 -#define VDSDIM2 6 -#define KDIM0 3 -#define KDIM1 2 -#define KDIM2 6 -#define NDIM0 3 -#define NDIM1 3 -#define NDIM2 6 -#define RANK 3 - -const char *SRC_FILE[] = { - "a.h5", - "b.h5", - "c.h5", - "d.h5", - "e.h5", - "f.h5" -}; - -const char *SRC_DATASET[] = { - "A", - "B", - "C", - "D", - "E", - "F" -}; +#define FILE "vds-exclim.h5" +#define DATASET "VDS-Excaliburlim" +#define VDSDIM0 3 +#define VDSDIM1 15 +#define VDSDIM2 6 +#define KDIM0 3 +#define KDIM1 2 +#define KDIM2 6 +#define NDIM0 3 +#define NDIM1 3 +#define NDIM2 6 +#define RANK 3 + +const char *SRC_FILE[] = {"a.h5", "b.h5", "c.h5", "d.h5", "e.h5", "f.h5"}; + +const char *SRC_DATASET[] = {"A", "B", "C", "D", "E", "F"}; int -main (void) +main(void) { - hid_t file, space, ksrc_space, nsrc_space, vspace, - src_space, - dset; /* Handles */ - hid_t dcpl; - herr_t status; - hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, - kdims[3] = {KDIM0, KDIM1, KDIM2}, - ndims[3] = {NDIM0, NDIM1, NDIM2}, - start[3], /* Hyperslab parameters */ - stride[3], - count[3], - block[3]; - hsize_t start_out[3], - stride_out[3], - count_out[3], - block_out[3]; + hid_t file, space, ksrc_space, nsrc_space, vspace, src_space, dset; /* Handles */ + hid_t dcpl; + herr_t status; + hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, kdims[3] = {KDIM0, KDIM1, KDIM2}, + ndims[3] = {NDIM0, NDIM1, NDIM2}, start[3], /* Hyperslab parameters */ + stride[3], count[3], block[3]; + hsize_t start_out[3], stride_out[3], count_out[3], block_out[3]; int k = 2; int n = 3; int i; - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; - - file = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - space = H5Screate_simple (RANK, vdsdims, NULL); + space = H5Screate_simple(RANK, vdsdims, NULL); /* Create dataspaces for A, C, and E datasets. */ - ksrc_space = H5Screate_simple (RANK, kdims, NULL); + ksrc_space = H5Screate_simple(RANK, kdims, NULL); /* Create dataspaces for B, D, and F datasets. */ - nsrc_space = H5Screate_simple (RANK, ndims, NULL); + nsrc_space = H5Screate_simple(RANK, ndims, NULL); /* Create VDS creation property */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); + dcpl = H5Pcreate(H5P_DATASET_CREATE); /* Initialize hyperslab values */ @@ -107,40 +83,38 @@ main (void) block[1] = k; block[2] = VDSDIM2; - /* - * Build the mappings for A, C and E source datasets. - * - */ - status = H5Sselect_hyperslab (ksrc_space, H5S_SELECT_SET, start, NULL, count, block); - for (i = 0; i < 3; i++) { - start[1] = (hsize_t)((k+n)*i); - status = H5Sselect_hyperslab (space, H5S_SELECT_SET, start, NULL, count, block); - status = H5Pset_virtual (dcpl, space, SRC_FILE[2*i], SRC_DATASET[2*i], ksrc_space); - } - - /* Reinitialize start[0] and block[1] */ - start[0] = 0; - block[1] = n; - /* - * Build the mappings for B, D and F source datasets. - * - */ - status = H5Sselect_hyperslab (nsrc_space, H5S_SELECT_SET, start, NULL, count, block); - for (i = 0; i < 3; i++) { - start[1] = (hsize_t)(k+(k+n)*i); - status = H5Sselect_hyperslab (space, H5S_SELECT_SET, start, NULL, count, block); - status = H5Pset_virtual (dcpl, space, SRC_FILE[2*i+1], SRC_DATASET[2*i+1], nsrc_space); - } - - /* Create a virtual dataset */ - dset = H5Dcreate2 (file, DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (space); - status = H5Sclose (nsrc_space); - status = H5Sclose (ksrc_space); - status = H5Dclose (dset); - status = H5Fclose (file); - + /* + * Build the mappings for A, C and E source datasets. + * + */ + status = H5Sselect_hyperslab(ksrc_space, H5S_SELECT_SET, start, NULL, count, block); + for (i = 0; i < 3; i++) { + start[1] = (hsize_t)((k + n) * i); + status = H5Sselect_hyperslab(space, H5S_SELECT_SET, start, NULL, count, block); + status = H5Pset_virtual(dcpl, space, SRC_FILE[2 * i], SRC_DATASET[2 * i], ksrc_space); + } + + /* Reinitialize start[0] and block[1] */ + start[0] = 0; + block[1] = n; + /* + * Build the mappings for B, D and F source datasets. + * + */ + status = H5Sselect_hyperslab(nsrc_space, H5S_SELECT_SET, start, NULL, count, block); + for (i = 0; i < 3; i++) { + start[1] = (hsize_t)(k + (k + n) * i); + status = H5Sselect_hyperslab(space, H5S_SELECT_SET, start, NULL, count, block); + status = H5Pset_virtual(dcpl, space, SRC_FILE[2 * i + 1], SRC_DATASET[2 * i + 1], nsrc_space); + } + + /* Create a virtual dataset */ + dset = H5Dcreate2(file, DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(space); + status = H5Sclose(nsrc_space); + status = H5Sclose(ksrc_space); + status = H5Dclose(dset); + status = H5Fclose(file); /* * Now we begin the read section of this example. @@ -149,85 +123,92 @@ main (void) /* * Open file and dataset using the default properties. */ - file = H5Fopen (FILE, H5F_ACC_RDONLY, H5P_DEFAULT); - dset = H5Dopen2 (file, DATASET, H5P_DEFAULT); + file = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT); + dset = H5Dopen2(file, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (dset); + dcpl = H5Dget_create_plist(dset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf("Wrong layout found \n"); - /* - * Find number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %lu\n", (unsigned long)num_map); - - /* - * Get mapping parameters for each mapping. - */ - for (i = 0; i < (int)num_map; i++) { - printf(" Mapping %d \n", i); - printf(" Selection in the virtual dataset \n"); - /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); - if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - /* Get source file name */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); - printf(" Source filename %s\n", filename); - - /* Get source dataset name */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); - printf(" Source dataset name %s\n", dsetname); - - /* Get selection in the source dataset */ - printf(" Selection in the source dataset \n"); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); - if(H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%d, %d, %d] \n", (int)start_out[0], (int)start_out[1], (int)start_out[2]); - printf(" stride = [%d, %d, %d] \n", (int)stride_out[0], (int)stride_out[1], (int)stride_out[2]); - printf(" count = [%d, %d, %d] \n", (int)count_out[0], (int)count_out[1], (int)count_out[2]); - printf(" block = [%d, %d, %d] \n", (int)block_out[0], (int)block_out[1], (int)block_out[2]); - } - } - H5Sclose(vspace); - H5Sclose(src_space); - free(filename); - free(dsetname); - } -/* EIP read data back */ + /* + * Find number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %lu\n", (unsigned long)num_map); + + /* + * Get mapping parameters for each mapping. + */ + for (i = 0; i < (int)num_map; i++) { + printf(" Mapping %d \n", i); + printf(" Selection in the virtual dataset \n"); + /* Get selection in the virttual dataset */ + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); + if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + /* Get source file name */ + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); + printf(" Source filename %s\n", filename); + + /* Get source dataset name */ + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); + printf(" Source dataset name %s\n", dsetname); + + /* Get selection in the source dataset */ + printf(" Selection in the source dataset \n"); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); + if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%d, %d, %d] \n", (int)start_out[0], (int)start_out[1], + (int)start_out[2]); + printf(" stride = [%d, %d, %d] \n", (int)stride_out[0], (int)stride_out[1], + (int)stride_out[2]); + printf(" count = [%d, %d, %d] \n", (int)count_out[0], (int)count_out[1], + (int)count_out[2]); + printf(" block = [%d, %d, %d] \n", (int)block_out[0], (int)block_out[1], + (int)block_out[2]); + } + } + H5Sclose(vspace); + H5Sclose(src_space); + free(filename); + free(dsetname); + } + /* EIP read data back */ /* * Close and release resources. */ - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); return 0; } - diff --git a/examples/h5_vds-percival-unlim-maxmin.c b/examples/h5_vds-percival-unlim-maxmin.c index 7b0d532..01e41ef 100644 --- a/examples/h5_vds-percival-unlim-maxmin.c +++ b/examples/h5_vds-percival-unlim-maxmin.c @@ -26,185 +26,162 @@ #include <stdio.h> #include <stdlib.h> -#define VFILE "vds-percival-unlim-maxmin.h5" -#define DATASET "VDS-Percival-unlim-maxmin" -#define VDSDIM0 H5S_UNLIMITED -#define VDSDIM1 10 -#define VDSDIM2 10 - -#define DIM0 H5S_UNLIMITED -#define DIM0_1 4 /* Initial size of the source datasets */ -#define DIM1 10 -#define DIM2 10 -#define RANK 3 -#define PLANE_STRIDE 4 - -const char *SRC_FILE[] = { - "a.h5", - "b.h5", - "c.h5", - "d.h5" -}; - -const char *SRC_DATASET[] = { - "A", - "B", - "C", - "D" -}; +#define VFILE "vds-percival-unlim-maxmin.h5" +#define DATASET "VDS-Percival-unlim-maxmin" +#define VDSDIM0 H5S_UNLIMITED +#define VDSDIM1 10 +#define VDSDIM2 10 + +#define DIM0 H5S_UNLIMITED +#define DIM0_1 4 /* Initial size of the source datasets */ +#define DIM1 10 +#define DIM2 10 +#define RANK 3 +#define PLANE_STRIDE 4 + +const char *SRC_FILE[] = {"a.h5", "b.h5", "c.h5", "d.h5"}; + +const char *SRC_DATASET[] = {"A", "B", "C", "D"}; int -main (void) +main(void) { - hid_t vfile, file, src_space, mem_space, vspace, - vdset, dset; /* Handles */ - hid_t dcpl, dapl; - herr_t status; - hsize_t vdsdims[3] = {4*DIM0_1, VDSDIM1, VDSDIM2}, - vdsdims_max[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, - dims[3] = {DIM0_1, DIM1, DIM2}, - memdims[3] = {DIM0_1, DIM1, DIM2}, - extdims[3] = {0, DIM1, DIM2}, /* Dimensions of the extended source datasets */ - chunk_dims[3] = {DIM0_1, DIM1, DIM2}, - dims_max[3] = {DIM0, DIM1, DIM2}, - vdsdims_out[3], - vdsdims_max_out[3], - start[3], /* Hyperslab parameters */ - stride[3], - count[3], - src_count[3], - block[3]; - hsize_t start_out[3], /* Hyperslab parameter out */ - stride_out[3], - count_out[3], - block_out[3]; + hid_t vfile, file, src_space, mem_space, vspace, vdset, dset; /* Handles */ + hid_t dcpl, dapl; + herr_t status; + hsize_t vdsdims[3] = {4 * DIM0_1, VDSDIM1, VDSDIM2}, vdsdims_max[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, + dims[3] = {DIM0_1, DIM1, DIM2}, memdims[3] = {DIM0_1, DIM1, DIM2}, + extdims[3] = {0, DIM1, DIM2}, /* Dimensions of the extended source datasets */ + chunk_dims[3] = {DIM0_1, DIM1, DIM2}, dims_max[3] = {DIM0, DIM1, DIM2}, vdsdims_out[3], + vdsdims_max_out[3], start[3], /* Hyperslab parameters */ + stride[3], count[3], src_count[3], block[3]; + hsize_t start_out[3], /* Hyperslab parameter out */ + stride_out[3], count_out[3], block_out[3]; int i, j; - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; - int wdata[DIM0_1*DIM1*DIM2]; + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; + int wdata[DIM0_1 * DIM1 * DIM2]; /* * Create source files and datasets. This step is optional. */ - for (i=0; i < PLANE_STRIDE; i++) { + for (i = 0; i < PLANE_STRIDE; i++) { /* * Initialize data for i-th source dataset. */ - for (j = 0; j < DIM0_1*DIM1*DIM2; j++) wdata[j] = i+1; + for (j = 0; j < DIM0_1 * DIM1 * DIM2; j++) + wdata[j] = i + 1; /* * Create the source files and datasets. Write data to each dataset and * close all resources. */ - file = H5Fcreate (SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - src_space = H5Screate_simple (RANK, dims, dims_max); - dcpl = H5Pcreate(H5P_DATASET_CREATE); - status = H5Pset_chunk (dcpl, RANK, chunk_dims); - dset = H5Dcreate2 (file, SRC_DATASET[i], H5T_NATIVE_INT, src_space, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Dwrite (dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - wdata); - status = H5Sclose (src_space); - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + file = H5Fcreate(SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + src_space = H5Screate_simple(RANK, dims, dims_max); + dcpl = H5Pcreate(H5P_DATASET_CREATE); + status = H5Pset_chunk(dcpl, RANK, chunk_dims); + dset = H5Dcreate2(file, SRC_DATASET[i], H5T_NATIVE_INT, src_space, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Dwrite(dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, wdata); + status = H5Sclose(src_space); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); } - vfile = H5Fcreate (VFILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + vfile = H5Fcreate(VFILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - vspace = H5Screate_simple (RANK, vdsdims, vdsdims_max); + vspace = H5Screate_simple(RANK, vdsdims, vdsdims_max); /* Create dataspaces for the source dataset. */ - src_space = H5Screate_simple (RANK, dims, dims_max); + src_space = H5Screate_simple(RANK, dims, dims_max); /* Create VDS creation property */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); + dcpl = H5Pcreate(H5P_DATASET_CREATE); /* Initialize hyperslab values */ - start[0] = 0; - start[1] = 0; - start[2] = 0; - stride[0] = PLANE_STRIDE; /* we will select every fifth plane in VDS */ - stride[1] = 1; - stride[2] = 1; - count[0] = H5S_UNLIMITED; - count[1] = 1; - count[2] = 1; + start[0] = 0; + start[1] = 0; + start[2] = 0; + stride[0] = PLANE_STRIDE; /* we will select every fifth plane in VDS */ + stride[1] = 1; + stride[2] = 1; + count[0] = H5S_UNLIMITED; + count[1] = 1; + count[2] = 1; src_count[0] = H5S_UNLIMITED; src_count[1] = 1; src_count[2] = 1; - block[0] = 1; - block[1] = DIM1; - block[2] = DIM2; + block[0] = 1; + block[1] = DIM1; + block[2] = DIM2; /* * Build the mappings * */ - status = H5Sselect_hyperslab (src_space, H5S_SELECT_SET, start, NULL, src_count, block); - for (i=0; i < PLANE_STRIDE; i++) { - status = H5Sselect_hyperslab (vspace, H5S_SELECT_SET, start, stride, count, block); - status = H5Pset_virtual (dcpl, vspace, SRC_FILE[i], SRC_DATASET[i], src_space); + status = H5Sselect_hyperslab(src_space, H5S_SELECT_SET, start, NULL, src_count, block); + for (i = 0; i < PLANE_STRIDE; i++) { + status = H5Sselect_hyperslab(vspace, H5S_SELECT_SET, start, stride, count, block); + status = H5Pset_virtual(dcpl, vspace, SRC_FILE[i], SRC_DATASET[i], src_space); start[0]++; } H5Sselect_none(vspace); /* Create a virtual dataset */ - vdset = H5Dcreate2 (vfile, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (vspace); - status = H5Sclose (src_space); - status = H5Pclose (dcpl); + vdset = H5Dcreate2(vfile, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(vspace); + status = H5Sclose(src_space); + status = H5Pclose(dcpl); /* Let's add data to the source datasets and check new dimensions for VDS */ /* We will add only one plane to the first source dataset, two planes to the second one, three to the third, and four to the forth. */ - for (i=0; i < PLANE_STRIDE; i++) { + for (i = 0; i < PLANE_STRIDE; i++) { /* * Initialize data for i-th source dataset. */ - for (j = 0; j < (i+1)*DIM1*DIM2; j++) wdata[j] = 10*(i+1); + for (j = 0; j < (i + 1) * DIM1 * DIM2; j++) + wdata[j] = 10 * (i + 1); /* * Open the source files and datasets. Appen data to each dataset and * close all resources. */ - file = H5Fopen (SRC_FILE[i], H5F_ACC_RDWR, H5P_DEFAULT); - dset = H5Dopen2 (file, SRC_DATASET[i], H5P_DEFAULT); - extdims[0] = DIM0_1+i+1; - status = H5Dset_extent (dset, extdims); - src_space = H5Dget_space (dset); - start[0] = DIM0_1; - start[1] = 0; - start[2] = 0; - count[0] = 1; - count[1] = 1; - count[2] = 1; - block[0] = i+1; - block[1] = DIM1; - block[2] = DIM2; - - memdims[0] = i+1; - mem_space = H5Screate_simple(RANK, memdims, NULL); - status = H5Sselect_hyperslab (src_space, H5S_SELECT_SET, start, NULL, count, block); - status = H5Dwrite (dset, H5T_NATIVE_INT, mem_space, src_space, H5P_DEFAULT, - wdata); - status = H5Sclose (src_space); - status = H5Dclose (dset); - status = H5Fclose (file); - } - - status = H5Dclose (vdset); - status = H5Fclose (vfile); + file = H5Fopen(SRC_FILE[i], H5F_ACC_RDWR, H5P_DEFAULT); + dset = H5Dopen2(file, SRC_DATASET[i], H5P_DEFAULT); + extdims[0] = DIM0_1 + i + 1; + status = H5Dset_extent(dset, extdims); + src_space = H5Dget_space(dset); + start[0] = DIM0_1; + start[1] = 0; + start[2] = 0; + count[0] = 1; + count[1] = 1; + count[2] = 1; + block[0] = i + 1; + block[1] = DIM1; + block[2] = DIM2; + + memdims[0] = i + 1; + mem_space = H5Screate_simple(RANK, memdims, NULL); + status = H5Sselect_hyperslab(src_space, H5S_SELECT_SET, start, NULL, count, block); + status = H5Dwrite(dset, H5T_NATIVE_INT, mem_space, src_space, H5P_DEFAULT, wdata); + status = H5Sclose(src_space); + status = H5Dclose(dset); + status = H5Fclose(file); + } + + status = H5Dclose(vdset); + status = H5Fclose(vfile); /* * Now we begin the read section of this example. @@ -213,108 +190,115 @@ main (void) /* * Open file and dataset using the default properties. */ - vfile = H5Fopen (VFILE, H5F_ACC_RDONLY, H5P_DEFAULT); + vfile = H5Fopen(VFILE, H5F_ACC_RDONLY, H5P_DEFAULT); /* * Open VDS using different access properties to use max or * min extents depending on the sizes of the underlying datasets */ - dapl = H5Pcreate (H5P_DATASET_ACCESS); + dapl = H5Pcreate(H5P_DATASET_ACCESS); - for(i = 0; i < 2; i++) { - status = H5Pset_virtual_view (dapl, i ? H5D_VDS_LAST_AVAILABLE : H5D_VDS_FIRST_MISSING); - vdset = H5Dopen2 (vfile, DATASET, dapl); + for (i = 0; i < 2; i++) { + status = H5Pset_virtual_view(dapl, i ? H5D_VDS_LAST_AVAILABLE : H5D_VDS_FIRST_MISSING); + vdset = H5Dopen2(vfile, DATASET, dapl); /* Let's get space of the VDS and its dimension; we should get 32(or 20)x10x10 */ - vspace = H5Dget_space (vdset); - H5Sget_simple_extent_dims (vspace, vdsdims_out, vdsdims_max_out); - printf ("VDS dimensions, bounds = H5D_VDS_%s: ", i ? "LAST_AVAILABLE" : "FIRST_MISSING"); - for (j=0; j<RANK; j++) - printf (" %d ", (int)vdsdims_out[j]); - printf ("\n"); + vspace = H5Dget_space(vdset); + H5Sget_simple_extent_dims(vspace, vdsdims_out, vdsdims_max_out); + printf("VDS dimensions, bounds = H5D_VDS_%s: ", i ? "LAST_AVAILABLE" : "FIRST_MISSING"); + for (j = 0; j < RANK; j++) + printf(" %d ", (int)vdsdims_out[j]); + printf("\n"); /* Close */ - status = H5Dclose (vdset); - status = H5Sclose (vspace); + status = H5Dclose(vdset); + status = H5Sclose(vspace); } - status = H5Pclose (dapl); + status = H5Pclose(dapl); - vdset = H5Dopen2 (vfile, DATASET, H5P_DEFAULT); + vdset = H5Dopen2(vfile, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (vdset); + dcpl = H5Dget_create_plist(vdset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf(" Wrong layout found \n"); - /* - * Find number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %lu\n", (unsigned long)num_map); - - /* - * Get mapping parameters for each mapping. - */ - for (i = 0; i < (int)num_map; i++) { - printf(" Mapping %d \n", i); - printf(" Selection in the virtual dataset \n"); - /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); - if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - /* Get source file name */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); - printf(" Source filename %s\n", filename); - - /* Get source dataset name */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); - printf(" Source dataset name %s\n", dsetname); - - /* Get selection in the source dataset */ - printf(" Selection in the source dataset \n"); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); - if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(src_space)) { - status = H5Sget_regular_hyperslab (src_space, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - H5Sclose(vspace); - H5Sclose(src_space); - free(filename); - free(dsetname); - } + /* + * Find number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %lu\n", (unsigned long)num_map); + + /* + * Get mapping parameters for each mapping. + */ + for (i = 0; i < (int)num_map; i++) { + printf(" Mapping %d \n", i); + printf(" Selection in the virtual dataset \n"); + /* Get selection in the virttual dataset */ + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); + if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + /* Get source file name */ + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); + printf(" Source filename %s\n", filename); + + /* Get source dataset name */ + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); + printf(" Source dataset name %s\n", dsetname); + + /* Get selection in the source dataset */ + printf(" Selection in the source dataset \n"); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); + if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(src_space)) { + status = H5Sget_regular_hyperslab(src_space, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + H5Sclose(vspace); + H5Sclose(src_space); + free(filename); + free(dsetname); + } /* * Close and release resources. */ - status = H5Pclose (dcpl); - status = H5Dclose (vdset); - status = H5Fclose (vfile); + status = H5Pclose(dcpl); + status = H5Dclose(vdset); + status = H5Fclose(vfile); return 0; } - diff --git a/examples/h5_vds-percival-unlim.c b/examples/h5_vds-percival-unlim.c index 0823f40..ff32506 100644 --- a/examples/h5_vds-percival-unlim.c +++ b/examples/h5_vds-percival-unlim.c @@ -24,190 +24,167 @@ #include <stdio.h> #include <stdlib.h> -#define VFILE "vds-percival-unlim.h5" -#define DATASET "VDS-Percival-unlim" -#define VDSDIM0 H5S_UNLIMITED -#define VDSDIM1 10 -#define VDSDIM2 10 - -#define DIM0 H5S_UNLIMITED -#define DIM0_1 10 /* Initial size of the datasets */ -#define DIM1 10 -#define DIM2 10 -#define RANK 3 -#define PLANE_STRIDE 4 - -const char *SRC_FILE[] = { - "a.h5", - "b.h5", - "c.h5", - "d.h5" -}; - -const char *SRC_DATASET[] = { - "A", - "B", - "C", - "D" -}; +#define VFILE "vds-percival-unlim.h5" +#define DATASET "VDS-Percival-unlim" +#define VDSDIM0 H5S_UNLIMITED +#define VDSDIM1 10 +#define VDSDIM2 10 + +#define DIM0 H5S_UNLIMITED +#define DIM0_1 10 /* Initial size of the datasets */ +#define DIM1 10 +#define DIM2 10 +#define RANK 3 +#define PLANE_STRIDE 4 + +const char *SRC_FILE[] = {"a.h5", "b.h5", "c.h5", "d.h5"}; + +const char *SRC_DATASET[] = {"A", "B", "C", "D"}; int -main (void) +main(void) { - hid_t vfile, file, src_space, mem_space, vspace, - vdset, dset; /* Handles */ - hid_t dcpl; - herr_t status; - hsize_t vdsdims[3] = {4*DIM0_1, VDSDIM1, VDSDIM2}, - vdsdims_max[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, - dims[3] = {DIM0_1, DIM1, DIM2}, - extdims[3] = {2*DIM0_1, DIM1, DIM2}, - chunk_dims[3] = {DIM0_1, DIM1, DIM2}, - dims_max[3] = {DIM0, DIM1, DIM2}, - vdsdims_out[3], - vdsdims_max_out[3], - start[3], /* Hyperslab parameters */ - stride[3], - count[3], - src_count[3], - block[3]; - hsize_t start_out[3], /* Hyperslab parameter out */ - stride_out[3], - count_out[3], - block_out[3]; + hid_t vfile, file, src_space, mem_space, vspace, vdset, dset; /* Handles */ + hid_t dcpl; + herr_t status; + hsize_t vdsdims[3] = {4 * DIM0_1, VDSDIM1, VDSDIM2}, vdsdims_max[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, + dims[3] = {DIM0_1, DIM1, DIM2}, extdims[3] = {2 * DIM0_1, DIM1, DIM2}, + chunk_dims[3] = {DIM0_1, DIM1, DIM2}, dims_max[3] = {DIM0, DIM1, DIM2}, vdsdims_out[3], + vdsdims_max_out[3], start[3], /* Hyperslab parameters */ + stride[3], count[3], src_count[3], block[3]; + hsize_t start_out[3], /* Hyperslab parameter out */ + stride_out[3], count_out[3], block_out[3]; int i, j, k; - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; - int wdata[DIM0_1*DIM1*DIM2]; + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; + int wdata[DIM0_1 * DIM1 * DIM2]; int rdata[80][10][10]; int a_rdata[20][10][10]; /* * Create source files and datasets. This step is optional. */ - for (i=0; i < PLANE_STRIDE; i++) { + for (i = 0; i < PLANE_STRIDE; i++) { /* * Initialize data for i-th source dataset. */ - for (j = 0; j < DIM0_1*DIM1*DIM2; j++) wdata[j] = i+1; + for (j = 0; j < DIM0_1 * DIM1 * DIM2; j++) + wdata[j] = i + 1; /* * Create the source files and datasets. Write data to each dataset and * close all resources. */ - file = H5Fcreate (SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - src_space = H5Screate_simple (RANK, dims, dims_max); - dcpl = H5Pcreate(H5P_DATASET_CREATE); - status = H5Pset_chunk (dcpl, RANK, chunk_dims); - dset = H5Dcreate2 (file, SRC_DATASET[i], H5T_NATIVE_INT, src_space, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Dwrite (dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - wdata); - status = H5Sclose (src_space); - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + file = H5Fcreate(SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + src_space = H5Screate_simple(RANK, dims, dims_max); + dcpl = H5Pcreate(H5P_DATASET_CREATE); + status = H5Pset_chunk(dcpl, RANK, chunk_dims); + dset = H5Dcreate2(file, SRC_DATASET[i], H5T_NATIVE_INT, src_space, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Dwrite(dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, wdata); + status = H5Sclose(src_space); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); } - vfile = H5Fcreate (VFILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + vfile = H5Fcreate(VFILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - vspace = H5Screate_simple (RANK, vdsdims, vdsdims_max); + vspace = H5Screate_simple(RANK, vdsdims, vdsdims_max); /* Create dataspaces for the source dataset. */ - src_space = H5Screate_simple (RANK, dims, dims_max); + src_space = H5Screate_simple(RANK, dims, dims_max); /* Create VDS creation property */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); + dcpl = H5Pcreate(H5P_DATASET_CREATE); /* Initialize hyperslab values */ - start[0] = 0; - start[1] = 0; - start[2] = 0; - stride[0] = PLANE_STRIDE; /* we will select every fifth plane in VDS */ - stride[1] = 1; - stride[2] = 1; - count[0] = H5S_UNLIMITED; - count[1] = 1; - count[2] = 1; + start[0] = 0; + start[1] = 0; + start[2] = 0; + stride[0] = PLANE_STRIDE; /* we will select every fifth plane in VDS */ + stride[1] = 1; + stride[2] = 1; + count[0] = H5S_UNLIMITED; + count[1] = 1; + count[2] = 1; src_count[0] = H5S_UNLIMITED; src_count[1] = 1; src_count[2] = 1; - block[0] = 1; - block[1] = DIM1; - block[2] = DIM2; + block[0] = 1; + block[1] = DIM1; + block[2] = DIM2; /* * Build the mappings * */ - status = H5Sselect_hyperslab (src_space, H5S_SELECT_SET, start, NULL, src_count, block); - for (i=0; i < PLANE_STRIDE; i++) { - status = H5Sselect_hyperslab (vspace, H5S_SELECT_SET, start, stride, count, block); - status = H5Pset_virtual (dcpl, vspace, SRC_FILE[i], SRC_DATASET[i], src_space); + status = H5Sselect_hyperslab(src_space, H5S_SELECT_SET, start, NULL, src_count, block); + for (i = 0; i < PLANE_STRIDE; i++) { + status = H5Sselect_hyperslab(vspace, H5S_SELECT_SET, start, stride, count, block); + status = H5Pset_virtual(dcpl, vspace, SRC_FILE[i], SRC_DATASET[i], src_space); start[0]++; } H5Sselect_none(vspace); /* Create a virtual dataset */ - vdset = H5Dcreate2 (vfile, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (vspace); - status = H5Sclose (src_space); - status = H5Pclose (dcpl); + vdset = H5Dcreate2(vfile, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(vspace); + status = H5Sclose(src_space); + status = H5Pclose(dcpl); /* Let's get space of the VDS and its dimension; we should get 40x10x10 */ - vspace = H5Dget_space (vdset); - H5Sget_simple_extent_dims (vspace, vdsdims_out, vdsdims_max_out); - printf ("VDS dimensions first time \n"); - printf (" Current: "); - for (i=0; i<RANK; i++) - printf (" %d ", (int)vdsdims_out[i]); - printf ("\n"); + vspace = H5Dget_space(vdset); + H5Sget_simple_extent_dims(vspace, vdsdims_out, vdsdims_max_out); + printf("VDS dimensions first time \n"); + printf(" Current: "); + for (i = 0; i < RANK; i++) + printf(" %d ", (int)vdsdims_out[i]); + printf("\n"); /* Let's add data to the source datasets and check new dimensions for VDS */ - for (i=0; i < PLANE_STRIDE; i++) { + for (i = 0; i < PLANE_STRIDE; i++) { /* * Initialize data for i-th source dataset. */ - for (j = 0; j < DIM0_1*DIM1*DIM2; j++) wdata[j] = 10*(i+1); + for (j = 0; j < DIM0_1 * DIM1 * DIM2; j++) + wdata[j] = 10 * (i + 1); /* * Create the source files and datasets. Write data to each dataset and * close all resources. */ - file = H5Fopen (SRC_FILE[i], H5F_ACC_RDWR, H5P_DEFAULT); - dset = H5Dopen2 (file, SRC_DATASET[i], H5P_DEFAULT); - status = H5Dset_extent (dset, extdims); - src_space = H5Dget_space (dset); - start[0] = DIM0_1; - start[1] = 0; - start[2] = 0; - count[0] = 1; - count[1] = 1; - count[2] = 1; - block[0] = DIM0_1; - block[1] = DIM1; - block[2] = DIM2; + file = H5Fopen(SRC_FILE[i], H5F_ACC_RDWR, H5P_DEFAULT); + dset = H5Dopen2(file, SRC_DATASET[i], H5P_DEFAULT); + status = H5Dset_extent(dset, extdims); + src_space = H5Dget_space(dset); + start[0] = DIM0_1; + start[1] = 0; + start[2] = 0; + count[0] = 1; + count[1] = 1; + count[2] = 1; + block[0] = DIM0_1; + block[1] = DIM1; + block[2] = DIM2; mem_space = H5Screate_simple(RANK, dims, NULL); - status = H5Sselect_hyperslab (src_space, H5S_SELECT_SET, start, NULL, count, block); - status = H5Dwrite (dset, H5T_NATIVE_INT, mem_space, src_space, H5P_DEFAULT, - wdata); - status = H5Sclose (src_space); - status = H5Dclose (dset); - status = H5Fclose (file); - } + status = H5Sselect_hyperslab(src_space, H5S_SELECT_SET, start, NULL, count, block); + status = H5Dwrite(dset, H5T_NATIVE_INT, mem_space, src_space, H5P_DEFAULT, wdata); + status = H5Sclose(src_space); + status = H5Dclose(dset); + status = H5Fclose(file); + } - status = H5Dclose (vdset); - status = H5Fclose (vfile); + status = H5Dclose(vdset); + status = H5Fclose(vfile); /* * Now we begin the read section of this example. @@ -216,86 +193,94 @@ main (void) /* * Open file and dataset using the default properties. */ - vfile = H5Fopen (VFILE, H5F_ACC_RDONLY, H5P_DEFAULT); - vdset = H5Dopen2 (vfile, DATASET, H5P_DEFAULT); + vfile = H5Fopen(VFILE, H5F_ACC_RDONLY, H5P_DEFAULT); + vdset = H5Dopen2(vfile, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (vdset); + dcpl = H5Dget_create_plist(vdset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf(" Wrong layout found \n"); - /* - * Find number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %lu\n", (unsigned long)num_map); - - /* - * Get mapping parameters for each mapping. - */ - for (i = 0; i < (int)num_map; i++) { - printf(" Mapping %d \n", i); - printf(" Selection in the virtual dataset \n"); - /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); - if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - /* Get source file name */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); - printf(" Source filename %s\n", filename); - - /* Get source dataset name */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); - printf(" Source dataset name %s\n", dsetname); - - /* Get selection in the source dataset */ - printf(" Selection in the source dataset \n"); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); - if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(src_space)) { - status = H5Sget_regular_hyperslab (src_space, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - H5Sclose(vspace); - H5Sclose(src_space); - free(filename); - free(dsetname); - } + /* + * Find number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %lu\n", (unsigned long)num_map); + + /* + * Get mapping parameters for each mapping. + */ + for (i = 0; i < (int)num_map; i++) { + printf(" Mapping %d \n", i); + printf(" Selection in the virtual dataset \n"); + /* Get selection in the virttual dataset */ + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); + if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + /* Get source file name */ + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); + printf(" Source filename %s\n", filename); + + /* Get source dataset name */ + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); + printf(" Source dataset name %s\n", dsetname); + + /* Get selection in the source dataset */ + printf(" Selection in the source dataset \n"); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); + if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(src_space)) { + status = H5Sget_regular_hyperslab(src_space, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + H5Sclose(vspace); + H5Sclose(src_space); + free(filename); + free(dsetname); + } /* * Read data from VDS. */ - vspace = H5Dget_space (vdset); - H5Sget_simple_extent_dims (vspace, vdsdims_out, vdsdims_max_out); - printf ("VDS dimensions second time \n"); - printf (" Current: "); - for (i=0; i<RANK; i++) - printf (" %d ", (int)vdsdims_out[i]); - printf ("\n"); + vspace = H5Dget_space(vdset); + H5Sget_simple_extent_dims(vspace, vdsdims_out, vdsdims_max_out); + printf("VDS dimensions second time \n"); + printf(" Current: "); + for (i = 0; i < RANK; i++) + printf(" %d ", (int)vdsdims_out[i]); + printf("\n"); /* Read all VDS data */ @@ -312,53 +297,50 @@ main (void) block[1] = vdsdims_out[1]; block[2] = vdsdims_out[2]; - status = H5Sselect_hyperslab (vspace, H5S_SELECT_SET, start, NULL, count, block); + status = H5Sselect_hyperslab(vspace, H5S_SELECT_SET, start, NULL, count, block); mem_space = H5Screate_simple(RANK, vdsdims_out, NULL); - status = H5Dread (vdset, H5T_NATIVE_INT, mem_space, vspace, H5P_DEFAULT, - rdata); - printf (" All data: \n"); - for (i=0; i < (int)vdsdims_out[0]; i++) { - for (j=0; j < (int)vdsdims_out[1]; j++) { - printf ("(%d, %d, 0)", i, j); - for (k=0; k < (int)vdsdims_out[2]; k++) - printf (" %d ", rdata[i][j][k]); - printf ("\n"); + status = H5Dread(vdset, H5T_NATIVE_INT, mem_space, vspace, H5P_DEFAULT, rdata); + printf(" All data: \n"); + for (i = 0; i < (int)vdsdims_out[0]; i++) { + for (j = 0; j < (int)vdsdims_out[1]; j++) { + printf("(%d, %d, 0)", i, j); + for (k = 0; k < (int)vdsdims_out[2]; k++) + printf(" %d ", rdata[i][j][k]); + printf("\n"); } } /* Read VDS, but only data mapeed to dataset a.h5 */ - start[0] = 0; - start[1] = 0; - start[2] = 0; + start[0] = 0; + start[1] = 0; + start[2] = 0; stride[0] = PLANE_STRIDE; stride[1] = 1; stride[2] = 1; - count[0] = 2*DIM0_1; - count[1] = 1; - count[2] = 1; - block[0] = 1; - block[1] = vdsdims_out[1]; - block[2] = vdsdims_out[2]; - dims[0] = 2*DIM0_1; - status = H5Sselect_hyperslab (vspace, H5S_SELECT_SET, start, stride, count, block); - mem_space = H5Screate_simple(RANK, dims, NULL); - status = H5Dread (vdset, H5T_NATIVE_INT, mem_space, vspace, H5P_DEFAULT, - a_rdata); - printf (" All data: \n"); - for (i=0; i < 2*DIM0_1; i++) { - for (j=0; j < (int)vdsdims_out[1]; j++) { - printf ("(%d, %d, 0)", i, j); - for (k=0; k < (int)vdsdims_out[2]; k++) - printf (" %d ", a_rdata[i][j][k]); - printf ("\n"); + count[0] = 2 * DIM0_1; + count[1] = 1; + count[2] = 1; + block[0] = 1; + block[1] = vdsdims_out[1]; + block[2] = vdsdims_out[2]; + dims[0] = 2 * DIM0_1; + status = H5Sselect_hyperslab(vspace, H5S_SELECT_SET, start, stride, count, block); + mem_space = H5Screate_simple(RANK, dims, NULL); + status = H5Dread(vdset, H5T_NATIVE_INT, mem_space, vspace, H5P_DEFAULT, a_rdata); + printf(" All data: \n"); + for (i = 0; i < 2 * DIM0_1; i++) { + for (j = 0; j < (int)vdsdims_out[1]; j++) { + printf("(%d, %d, 0)", i, j); + for (k = 0; k < (int)vdsdims_out[2]; k++) + printf(" %d ", a_rdata[i][j][k]); + printf("\n"); } } /* * Close and release resources. */ status = H5Sclose(mem_space); - status = H5Pclose (dcpl); - status = H5Dclose (vdset); - status = H5Fclose (vfile); + status = H5Pclose(dcpl); + status = H5Dclose(vdset); + status = H5Fclose(vfile); return 0; } - diff --git a/examples/h5_vds-percival.c b/examples/h5_vds-percival.c index aeca368..6d688d8 100644 --- a/examples/h5_vds-percival.c +++ b/examples/h5_vds-percival.c @@ -25,145 +25,126 @@ #include <stdio.h> #include <stdlib.h> -#define FILE "vds-percival.h5" -#define DATASET "VDS-Percival" +#define FILE "vds-percival.h5" +#define DATASET "VDS-Percival" /* later #define VDSDIM0 H5S_UNLIMITED */ -#define VDSDIM0 40 -#define VDSDIM1 10 -#define VDSDIM2 10 +#define VDSDIM0 40 +#define VDSDIM1 10 +#define VDSDIM2 10 /* later #define DIM0 H5S_UNLIMITED */ -#define DIM0 10 -#define DIM1 10 -#define DIM2 10 -#define RANK 3 -#define PLANE_STRIDE 4 - -const char *SRC_FILE[] = { - "a.h5", - "b.h5", - "c.h5", - "d.h5" -}; - -const char *SRC_DATASET[] = { - "A", - "B", - "C", - "D" -}; +#define DIM0 10 +#define DIM1 10 +#define DIM2 10 +#define RANK 3 +#define PLANE_STRIDE 4 + +const char *SRC_FILE[] = {"a.h5", "b.h5", "c.h5", "d.h5"}; + +const char *SRC_DATASET[] = {"A", "B", "C", "D"}; int -main (void) +main(void) { - hid_t file, src_space, vspace, - dset; /* Handles */ - hid_t dcpl; - herr_t status; - hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, - vdsdims_max[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, - dims[3] = {DIM0, DIM1, DIM2}, - dims_max[3] = {DIM0, DIM1, DIM2}, - start[3], /* Hyperslab start parameter for VDS */ - stride[3], - count[3], - src_count[3], - block[3]; - hsize_t start_out[3], /* Hyperslab parameter out */ - stride_out[3], - count_out[3], - block_out[3]; + hid_t file, src_space, vspace, dset; /* Handles */ + hid_t dcpl; + herr_t status; + hsize_t vdsdims[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, vdsdims_max[3] = {VDSDIM0, VDSDIM1, VDSDIM2}, + dims[3] = {DIM0, DIM1, DIM2}, dims_max[3] = {DIM0, DIM1, DIM2}, + start[3], /* Hyperslab start parameter for VDS */ + stride[3], count[3], src_count[3], block[3]; + hsize_t start_out[3], /* Hyperslab parameter out */ + stride_out[3], count_out[3], block_out[3]; int i, j; - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; - int wdata[DIM0*DIM1*DIM2]; + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; + int wdata[DIM0 * DIM1 * DIM2]; /* * Create source files and datasets. This step is optional. */ - for (i=0; i < PLANE_STRIDE; i++) { + for (i = 0; i < PLANE_STRIDE; i++) { /* * Initialize data for i-th source dataset. */ - for (j = 0; j < DIM0*DIM1*DIM2; j++) wdata[j] = i+1; + for (j = 0; j < DIM0 * DIM1 * DIM2; j++) + wdata[j] = i + 1; /* * Create the source files and datasets. Write data to each dataset and * close all resources. */ - file = H5Fcreate (SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - src_space = H5Screate_simple (RANK, dims, NULL); - dset = H5Dcreate2 (file, SRC_DATASET[i], H5T_NATIVE_INT, src_space, H5P_DEFAULT, - H5P_DEFAULT, H5P_DEFAULT); - status = H5Dwrite (dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - wdata); - status = H5Sclose (src_space); - status = H5Dclose (dset); - status = H5Fclose (file); + file = H5Fcreate(SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + src_space = H5Screate_simple(RANK, dims, NULL); + dset = H5Dcreate2(file, SRC_DATASET[i], H5T_NATIVE_INT, src_space, H5P_DEFAULT, H5P_DEFAULT, + H5P_DEFAULT); + status = H5Dwrite(dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, wdata); + status = H5Sclose(src_space); + status = H5Dclose(dset); + status = H5Fclose(file); } - file = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - vspace = H5Screate_simple (RANK, vdsdims, vdsdims_max); + vspace = H5Screate_simple(RANK, vdsdims, vdsdims_max); /* Create dataspaces for the source dataset. */ - src_space = H5Screate_simple (RANK, dims, dims_max); + src_space = H5Screate_simple(RANK, dims, dims_max); /* Create VDS creation property */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); + dcpl = H5Pcreate(H5P_DATASET_CREATE); /* Initialize hyperslab values */ - start[0] = 0; - start[1] = 0; - start[2] = 0; + start[0] = 0; + start[1] = 0; + start[2] = 0; stride[0] = PLANE_STRIDE; /* we will select every fifth plane in VDS */ stride[1] = 1; stride[2] = 1; -/* later - count[0] = H5S_UNLIMITED; -*/ - count[0] = VDSDIM0/4; + /* later + count[0] = H5S_UNLIMITED; + */ + count[0] = VDSDIM0 / 4; count[1] = 1; count[2] = 1; -/* later - src_count[0] = H5S_UNLIMITED; -*/ + /* later + src_count[0] = H5S_UNLIMITED; + */ src_count[0] = DIM0; src_count[1] = 1; src_count[2] = 1; - block[0] = 1; - block[1] = DIM1; - block[2] = DIM2; + block[0] = 1; + block[1] = DIM1; + block[2] = DIM2; /* * Build the mappings * */ - status = H5Sselect_hyperslab (src_space, H5S_SELECT_SET, start, NULL, src_count, block); - for (i=0; i < PLANE_STRIDE; i++) { - status = H5Sselect_hyperslab (vspace, H5S_SELECT_SET, start, stride, count, block); - status = H5Pset_virtual (dcpl, vspace, SRC_FILE[i], SRC_DATASET[i], src_space); + status = H5Sselect_hyperslab(src_space, H5S_SELECT_SET, start, NULL, src_count, block); + for (i = 0; i < PLANE_STRIDE; i++) { + status = H5Sselect_hyperslab(vspace, H5S_SELECT_SET, start, stride, count, block); + status = H5Pset_virtual(dcpl, vspace, SRC_FILE[i], SRC_DATASET[i], src_space); start[0]++; } H5Sselect_none(vspace); /* Create a virtual dataset */ - dset = H5Dcreate2 (file, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (vspace); - status = H5Sclose (src_space); - status = H5Dclose (dset); - status = H5Fclose (file); + dset = H5Dcreate2(file, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(vspace); + status = H5Sclose(src_space); + status = H5Dclose(dset); + status = H5Fclose(file); /* * Now we begin the read section of this example. @@ -172,82 +153,89 @@ main (void) /* * Open file and dataset using the default properties. */ - file = H5Fopen (FILE, H5F_ACC_RDONLY, H5P_DEFAULT); - dset = H5Dopen2 (file, DATASET, H5P_DEFAULT); + file = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT); + dset = H5Dopen2(file, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (dset); + dcpl = H5Dget_create_plist(dset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf(" Wrong layout found \n"); - /* - * Find number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %lu\n", (unsigned long)num_map); - - /* - * Get mapping parameters for each mapping. - */ - for (i = 0; i < (int)num_map; i++) { - printf(" Mapping %d \n", i); - printf(" Selection in the virtual dataset \n"); - /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); - if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - /* Get source file name */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); - printf(" Source filename %s\n", filename); - - /* Get source dataset name */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); - printf(" Source dataset name %s\n", dsetname); - - /* Get selection in the source dataset */ - printf(" Selection in the source dataset \n"); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); - if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { - if (H5Sis_regular_hyperslab(src_space)) { - status = H5Sget_regular_hyperslab (src_space, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1], (unsigned long long)start_out[2]); - printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); - printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1], (unsigned long long)count_out[2]); - printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1], (unsigned long long)block_out[2]); - } - } - H5Sclose(vspace); - H5Sclose(src_space); - free(filename); - free(dsetname); - } + /* + * Find number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %lu\n", (unsigned long)num_map); + + /* + * Get mapping parameters for each mapping. + */ + for (i = 0; i < (int)num_map; i++) { + printf(" Mapping %d \n", i); + printf(" Selection in the virtual dataset \n"); + /* Get selection in the virttual dataset */ + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); + if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(vspace)) { + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + /* Get source file name */ + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); + printf(" Source filename %s\n", filename); + + /* Get source dataset name */ + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); + printf(" Source dataset name %s\n", dsetname); + + /* Get selection in the source dataset */ + printf(" Selection in the source dataset \n"); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); + if (H5Sget_select_type(src_space) == H5S_SEL_HYPERSLABS) { + if (H5Sis_regular_hyperslab(src_space)) { + status = H5Sget_regular_hyperslab(src_space, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1], (unsigned long long)start_out[2]); + printf(" stride = [%llu, %llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1], (unsigned long long)stride_out[2]); + printf(" count = [%llu, %llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1], (unsigned long long)count_out[2]); + printf(" block = [%llu, %llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1], (unsigned long long)block_out[2]); + } + } + H5Sclose(vspace); + H5Sclose(src_space); + free(filename); + free(dsetname); + } /* * Close and release resources. */ - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); return 0; } - diff --git a/examples/h5_vds-simpleIO.c b/examples/h5_vds-simpleIO.c index 5fd5c52..f5d8901 100644 --- a/examples/h5_vds-simpleIO.c +++ b/examples/h5_vds-simpleIO.c @@ -27,61 +27,59 @@ #include <stdio.h> #include <stdlib.h> -#define FILE "vds-simpleIO.h5" -#define DATASET "VDS" -#define DIM1 6 -#define DIM0 4 -#define RANK 2 - -#define SRC_FILE "a.h5" -#define SRC_DATASET "/A" +#define FILE "vds-simpleIO.h5" +#define DATASET "VDS" +#define DIM1 6 +#define DIM0 4 +#define RANK 2 +#define SRC_FILE "a.h5" +#define SRC_DATASET "/A" int -main (void) +main(void) { - hid_t file, space, src_space, vspace, dset; /* Handles */ - hid_t dcpl; - herr_t status; - hsize_t vdsdims[2] = {DIM0, DIM1}, /* Virtual dataset dimension */ - dims[2] = {DIM0, DIM1}; /* Source dataset dimensions */ - int wdata[DIM0][DIM1], /* Write buffer for source dataset */ - rdata[DIM0][DIM1], /* Read buffer for virtual dataset */ - i, j; - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; + hid_t file, space, src_space, vspace, dset; /* Handles */ + hid_t dcpl; + herr_t status; + hsize_t vdsdims[2] = {DIM0, DIM1}, /* Virtual dataset dimension */ + dims[2] = {DIM0, DIM1}; /* Source dataset dimensions */ + int wdata[DIM0][DIM1], /* Write buffer for source dataset */ + rdata[DIM0][DIM1], /* Read buffer for virtual dataset */ + i, j; + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; /* * Initialize data. */ - for (i = 0; i < DIM0; i++) - for (j = 0; j < DIM1; j++) wdata[i][j] = i+1; - - /* - * Create the source file and the dataset. Write data to the source dataset - * and close all resources. - */ - - file = H5Fcreate (SRC_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - space = H5Screate_simple (RANK, dims, NULL); - dset = H5Dcreate2 (file, SRC_DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, - H5P_DEFAULT, H5P_DEFAULT); - status = H5Dwrite (dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - wdata[0]); - status = H5Sclose (space); - status = H5Dclose (dset); - status = H5Fclose (file); + for (i = 0; i < DIM0; i++) + for (j = 0; j < DIM1; j++) + wdata[i][j] = i + 1; + + /* + * Create the source file and the dataset. Write data to the source dataset + * and close all resources. + */ + + file = H5Fcreate(SRC_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + space = H5Screate_simple(RANK, dims, NULL); + dset = H5Dcreate2(file, SRC_DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + status = H5Dwrite(dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, wdata[0]); + status = H5Sclose(space); + status = H5Dclose(dset); + status = H5Fclose(file); /* Create file in which virtual dataset will be stored. */ - file = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - vspace = H5Screate_simple (RANK, vdsdims, NULL); + vspace = H5Screate_simple(RANK, vdsdims, NULL); /* Set VDS creation property. */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); + dcpl = H5Pcreate(H5P_DATASET_CREATE); /* * Build the mappings. @@ -89,16 +87,15 @@ main (void) * In the virtual dataset we select the first, the second and the third rows * and map each row to the data in the corresponding source dataset. */ - src_space = H5Screate_simple (RANK, dims, NULL); - status = H5Pset_virtual (dcpl, vspace, SRC_FILE, SRC_DATASET, src_space); + src_space = H5Screate_simple(RANK, dims, NULL); + status = H5Pset_virtual(dcpl, vspace, SRC_FILE, SRC_DATASET, src_space); /* Create a virtual dataset. */ - dset = H5Dcreate2 (file, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (vspace); - status = H5Sclose (src_space); - status = H5Dclose (dset); - status = H5Fclose (file); + dset = H5Dcreate2(file, DATASET, H5T_NATIVE_INT, vspace, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(vspace); + status = H5Sclose(src_space); + status = H5Dclose(dset); + status = H5Fclose(file); /* * Now we begin the read section of this example. @@ -107,60 +104,60 @@ main (void) /* * Open the file and virtual dataset. */ - file = H5Fopen (FILE, H5F_ACC_RDONLY, H5P_DEFAULT); - dset = H5Dopen2 (file, DATASET, H5P_DEFAULT); + file = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT); + dset = H5Dopen2(file, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (dset); + dcpl = H5Dget_create_plist(dset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf(" Wrong layout found \n"); - /* - * Find the number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %lu\n", (unsigned long)num_map); + /* + * Find the number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %lu\n", (unsigned long)num_map); - /* - * Get mapping parameters for each mapping. - */ + /* + * Get mapping parameters for each mapping. + */ for (i = 0; i < (int)num_map; i++) { printf(" Mapping %d \n", i); printf(" Selection in the virtual dataset "); /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); /* Make sure it is ALL selection and then print selection. */ - if(H5Sget_select_type(vspace) == H5S_SEL_ALL) { - printf("Selection is H5S_ALL \n"); + if (H5Sget_select_type(vspace) == H5S_SEL_ALL) { + printf("Selection is H5S_ALL \n"); } /* Get source file name. */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); printf(" Source filename %s\n", filename); /* Get source dataset name. */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); printf(" Source dataset name %s\n", dsetname); /* Get selection in the source dataset. */ printf(" Selection in the source dataset "); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); /* Make sure it is ALL selection and then print selection. */ - if(H5Sget_select_type(src_space) == H5S_SEL_ALL) { - printf("Selection is H5S_ALL \n"); + if (H5Sget_select_type(src_space) == H5S_SEL_ALL) { + printf("Selection is H5S_ALL \n"); } H5Sclose(vspace); H5Sclose(src_space); @@ -170,26 +167,24 @@ main (void) /* * Read the data using the default properties. */ - status = H5Dread (dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - rdata[0]); + status = H5Dread(dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, rdata[0]); /* * Output the data to the screen. */ - printf (" VDS Data:\n"); - for (i=0; i<DIM0; i++) { - printf (" ["); - for (j=0; j<DIM1; j++) - printf (" %3d", rdata[i][j]); - printf ("]\n"); + printf(" VDS Data:\n"); + for (i = 0; i < DIM0; i++) { + printf(" ["); + for (j = 0; j < DIM1; j++) + printf(" %3d", rdata[i][j]); + printf("]\n"); } /* * Close and release resources. */ - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); return 0; } - diff --git a/examples/h5_vds.c b/examples/h5_vds.c index cce7b88..ad262f7 100644 --- a/examples/h5_vds.c +++ b/examples/h5_vds.c @@ -35,88 +35,74 @@ #include <stdio.h> #include <stdlib.h> -#define FILE "vds.h5" -#define DATASET "VDS" -#define VDSDIM1 6 -#define VDSDIM0 4 -#define DIM0 6 -#define RANK1 1 -#define RANK2 2 - -const char *SRC_FILE[] = { - "a.h5", - "b.h5", - "c.h5" -}; - -const char *SRC_DATASET[] = { - "A", - "B", - "C" -}; +#define FILE "vds.h5" +#define DATASET "VDS" +#define VDSDIM1 6 +#define VDSDIM0 4 +#define DIM0 6 +#define RANK1 1 +#define RANK2 2 + +const char *SRC_FILE[] = {"a.h5", "b.h5", "c.h5"}; + +const char *SRC_DATASET[] = {"A", "B", "C"}; int -main (void) +main(void) { - hid_t file, space, src_space, vspace, dset; /* Handles */ - hid_t dcpl; - herr_t status; - hsize_t vdsdims[2] = {VDSDIM0, VDSDIM1}, /* Virtual datasets dimension */ - dims[1] = {DIM0}, /* Source datasets dimensions */ - start[2], /* Hyperslab parameters */ - stride[2], - count[2], - block[2]; - hsize_t start_out[2], - stride_out[2], - count_out[2], - block_out[2]; - int wdata[DIM0], /* Write buffer for source dataset */ - rdata[VDSDIM0][VDSDIM1], /* Read buffer for virtual dataset */ - i, j, k, l; - int fill_value = -1; /* Fill value for VDS */ - H5D_layout_t layout; /* Storage layout */ - size_t num_map; /* Number of mappings */ - ssize_t len; /* Length of the string; also a return value */ - char *filename; - char *dsetname; + hid_t file, space, src_space, vspace, dset; /* Handles */ + hid_t dcpl; + herr_t status; + hsize_t vdsdims[2] = {VDSDIM0, VDSDIM1}, /* Virtual datasets dimension */ + dims[1] = {DIM0}, /* Source datasets dimensions */ + start[2], /* Hyperslab parameters */ + stride[2], count[2], block[2]; + hsize_t start_out[2], stride_out[2], count_out[2], block_out[2]; + int wdata[DIM0], /* Write buffer for source dataset */ + rdata[VDSDIM0][VDSDIM1], /* Read buffer for virtual dataset */ + i, j, k, l; + int fill_value = -1; /* Fill value for VDS */ + H5D_layout_t layout; /* Storage layout */ + size_t num_map; /* Number of mappings */ + ssize_t len; /* Length of the string; also a return value */ + char * filename; + char * dsetname; hsize_t nblocks; - hsize_t *buf; /* Buffer to hold hyperslab coordinates */ + hsize_t * buf; /* Buffer to hold hyperslab coordinates */ /* * Create source files and datasets. This step is optional. */ - for (i=0; i < 3; i++) { + for (i = 0; i < 3; i++) { /* * Initialize data for i-th source dataset. */ - for (j = 0; j < DIM0; j++) wdata[j] = i+1; + for (j = 0; j < DIM0; j++) + wdata[j] = i + 1; /* * Create the source files and datasets. Write data to each dataset and * close all resources. */ - file = H5Fcreate (SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); - space = H5Screate_simple (RANK1, dims, NULL); - dset = H5Dcreate2 (file, SRC_DATASET[i], H5T_NATIVE_INT, space, H5P_DEFAULT, - H5P_DEFAULT, H5P_DEFAULT); - status = H5Dwrite (dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - wdata); - status = H5Sclose (space); - status = H5Dclose (dset); - status = H5Fclose (file); + file = H5Fcreate(SRC_FILE[i], H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + space = H5Screate_simple(RANK1, dims, NULL); + dset = H5Dcreate2(file, SRC_DATASET[i], H5T_NATIVE_INT, space, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + status = H5Dwrite(dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, wdata); + status = H5Sclose(space); + status = H5Dclose(dset); + status = H5Fclose(file); } /* Create file in which virtual dataset will be stored. */ - file = H5Fcreate (FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); + file = H5Fcreate(FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT); /* Create VDS dataspace. */ - space = H5Screate_simple (RANK2, vdsdims, NULL); + space = H5Screate_simple(RANK2, vdsdims, NULL); /* Set VDS creation property. */ - dcpl = H5Pcreate (H5P_DATASET_CREATE); - status = H5Pset_fill_value (dcpl, H5T_NATIVE_INT, &fill_value); + dcpl = H5Pcreate(H5P_DATASET_CREATE); + status = H5Pset_fill_value(dcpl, H5T_NATIVE_INT, &fill_value); /* Initialize hyperslab values. */ start[0] = 0; @@ -132,21 +118,20 @@ main (void) * In the virtual dataset we select the first, the second and the third rows * and map each row to the data in the corresponding source dataset. */ - src_space = H5Screate_simple (RANK1, dims, NULL); + src_space = H5Screate_simple(RANK1, dims, NULL); for (i = 0; i < 3; i++) { start[0] = (hsize_t)i; /* Select i-th row in the virtual dataset; selection in the source datasets is the same. */ - status = H5Sselect_hyperslab (space, H5S_SELECT_SET, start, NULL, count, block); - status = H5Pset_virtual (dcpl, space, SRC_FILE[i], SRC_DATASET[i], src_space); + status = H5Sselect_hyperslab(space, H5S_SELECT_SET, start, NULL, count, block); + status = H5Pset_virtual(dcpl, space, SRC_FILE[i], SRC_DATASET[i], src_space); } /* Create a virtual dataset. */ - dset = H5Dcreate2 (file, DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, - dcpl, H5P_DEFAULT); - status = H5Sclose (space); - status = H5Sclose (src_space); - status = H5Dclose (dset); - status = H5Fclose (file); + dset = H5Dcreate2(file, DATASET, H5T_NATIVE_INT, space, H5P_DEFAULT, dcpl, H5P_DEFAULT); + status = H5Sclose(space); + status = H5Sclose(src_space); + status = H5Dclose(dset); + status = H5Fclose(file); /* * Now we begin the read section of this example. @@ -155,80 +140,84 @@ main (void) /* * Open the file and virtual dataset. */ - file = H5Fopen (FILE, H5F_ACC_RDONLY, H5P_DEFAULT); - dset = H5Dopen2 (file, DATASET, H5P_DEFAULT); + file = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT); + dset = H5Dopen2(file, DATASET, H5P_DEFAULT); /* * Get creation property list and mapping properties. */ - dcpl = H5Dget_create_plist (dset); + dcpl = H5Dget_create_plist(dset); /* * Get storage layout. */ - layout = H5Pget_layout (dcpl); + layout = H5Pget_layout(dcpl); if (H5D_VIRTUAL == layout) printf(" Dataset has a virtual layout \n"); else printf(" Wrong layout found \n"); - /* - * Find the number of mappings. - */ - status = H5Pget_virtual_count (dcpl, &num_map); - printf(" Number of mappings is %lu\n", (unsigned long)num_map); + /* + * Find the number of mappings. + */ + status = H5Pget_virtual_count(dcpl, &num_map); + printf(" Number of mappings is %lu\n", (unsigned long)num_map); - /* - * Get mapping parameters for each mapping. - */ + /* + * Get mapping parameters for each mapping. + */ for (i = 0; i < (int)num_map; i++) { printf(" Mapping %d \n", i); printf(" Selection in the virtual dataset "); /* Get selection in the virttual dataset */ - vspace = H5Pget_virtual_vspace (dcpl, (size_t)i); + vspace = H5Pget_virtual_vspace(dcpl, (size_t)i); /* Make sure that this is a hyperslab selection and then print information. */ if (H5Sget_select_type(vspace) == H5S_SEL_HYPERSLABS) { - nblocks = H5Sget_select_hyper_nblocks (vspace); - buf = (hsize_t *)malloc(sizeof(hsize_t)*2*RANK2*nblocks); - status = H5Sget_select_hyper_blocklist (vspace, (hsize_t)0, nblocks, buf); - for (l=0; l<nblocks; l++) { + nblocks = H5Sget_select_hyper_nblocks(vspace); + buf = (hsize_t *)malloc(sizeof(hsize_t) * 2 * RANK2 * nblocks); + status = H5Sget_select_hyper_blocklist(vspace, (hsize_t)0, nblocks, buf); + for (l = 0; l < nblocks; l++) { printf("("); - for (k=0; k<RANK2-1; k++) + for (k = 0; k < RANK2 - 1; k++) printf("%d,", (int)buf[k]); printf("%d ) - (", (int)buf[k]); - for (k=0; k<RANK2-1; k++) - printf("%d,", (int)buf[RANK2+k]); - printf("%d)\n", (int)buf[RANK2+k]); + for (k = 0; k < RANK2 - 1; k++) + printf("%d,", (int)buf[RANK2 + k]); + printf("%d)\n", (int)buf[RANK2 + k]); } - /* We also can use new APIs to get start, stride, count and block */ + /* We also can use new APIs to get start, stride, count and block */ if (H5Sis_regular_hyperslab(vspace)) { - status = H5Sget_regular_hyperslab (vspace, start_out, stride_out, count_out, block_out); - printf(" start = [%llu, %llu] \n", (unsigned long long)start_out[0], (unsigned long long)start_out[1]); - printf(" stride = [%llu, %llu] \n", (unsigned long long)stride_out[0], (unsigned long long)stride_out[1]); - printf(" count = [%llu, %llu] \n", (unsigned long long)count_out[0], (unsigned long long)count_out[1]); - printf(" block = [%llu, %llu] \n", (unsigned long long)block_out[0], (unsigned long long)block_out[1]); + status = H5Sget_regular_hyperslab(vspace, start_out, stride_out, count_out, block_out); + printf(" start = [%llu, %llu] \n", (unsigned long long)start_out[0], + (unsigned long long)start_out[1]); + printf(" stride = [%llu, %llu] \n", (unsigned long long)stride_out[0], + (unsigned long long)stride_out[1]); + printf(" count = [%llu, %llu] \n", (unsigned long long)count_out[0], + (unsigned long long)count_out[1]); + printf(" block = [%llu, %llu] \n", (unsigned long long)block_out[0], + (unsigned long long)block_out[1]); } } /* Get source file name. */ - len = H5Pget_virtual_filename (dcpl, (size_t)i, NULL, 0); - filename = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_filename (dcpl, (size_t)i, filename, len+1); + len = H5Pget_virtual_filename(dcpl, (size_t)i, NULL, 0); + filename = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_filename(dcpl, (size_t)i, filename, len + 1); printf(" Source filename %s\n", filename); /* Get source dataset name. */ - len = H5Pget_virtual_dsetname (dcpl, (size_t)i, NULL, 0); - dsetname = (char *)malloc((size_t)len*sizeof(char)+1); - H5Pget_virtual_dsetname (dcpl, (size_t)i, dsetname, len+1); + len = H5Pget_virtual_dsetname(dcpl, (size_t)i, NULL, 0); + dsetname = (char *)malloc((size_t)len * sizeof(char) + 1); + H5Pget_virtual_dsetname(dcpl, (size_t)i, dsetname, len + 1); printf(" Source dataset name %s\n", dsetname); /* Get selection in the source dataset. */ printf(" Selection in the source dataset "); - src_space = H5Pget_virtual_srcspace (dcpl, (size_t)i); + src_space = H5Pget_virtual_srcspace(dcpl, (size_t)i); /* Make sure it is ALL selection and then print the coordinates. */ - if(H5Sget_select_type(src_space) == H5S_SEL_ALL) { - printf("(0) - (%d) \n", DIM0-1); + if (H5Sget_select_type(src_space) == H5S_SEL_ALL) { + printf("(0) - (%d) \n", DIM0 - 1); } H5Sclose(vspace); H5Sclose(src_space); @@ -240,26 +229,24 @@ main (void) /* * Read the data using the default properties. */ - status = H5Dread (dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, - rdata[0]); + status = H5Dread(dset, H5T_NATIVE_INT, H5S_ALL, H5S_ALL, H5P_DEFAULT, rdata[0]); /* * Output the data to the screen. */ - printf (" VDS Data:\n"); - for (i=0; i<VDSDIM0; i++) { - printf (" ["); - for (j=0; j<VDSDIM1; j++) - printf (" %3d", rdata[i][j]); - printf ("]\n"); + printf(" VDS Data:\n"); + for (i = 0; i < VDSDIM0; i++) { + printf(" ["); + for (j = 0; j < VDSDIM1; j++) + printf(" %3d", rdata[i][j]); + printf("]\n"); } /* * Close and release resources. */ - status = H5Pclose (dcpl); - status = H5Dclose (dset); - status = H5Fclose (file); + status = H5Pclose(dcpl); + status = H5Dclose(dset); + status = H5Fclose(file); return 0; } - diff --git a/examples/h5_write.c b/examples/h5_write.c index 1a7cfe7..13e0eca 100644 --- a/examples/h5_write.c +++ b/examples/h5_write.c @@ -18,28 +18,28 @@ #include "hdf5.h" -#define H5FILE_NAME "SDS.h5" +#define H5FILE_NAME "SDS.h5" #define DATASETNAME "IntArray" -#define NX 5 /* dataset dimensions */ -#define NY 6 -#define RANK 2 +#define NX 5 /* dataset dimensions */ +#define NY 6 +#define RANK 2 int -main (void) +main(void) { - hid_t file, dataset; /* file and dataset handles */ - hid_t datatype, dataspace; /* handles */ - hsize_t dimsf[2]; /* dataset dimensions */ - herr_t status; - int data[NX][NY]; /* data to write */ - int i, j; + hid_t file, dataset; /* file and dataset handles */ + hid_t datatype, dataspace; /* handles */ + hsize_t dimsf[2]; /* dataset dimensions */ + herr_t status; + int data[NX][NY]; /* data to write */ + int i, j; /* * Data and output buffer initialization. */ - for(j = 0; j < NX; j++) - for(i = 0; i < NY; i++) - data[j][i] = i + j; + for (j = 0; j < NX; j++) + for (i = 0; i < NY; i++) + data[j][i] = i + j; /* * 0 1 2 3 4 5 * 1 2 3 4 5 6 @@ -59,8 +59,8 @@ main (void) * Describe the size of the array and create the data space for fixed * size dataset. */ - dimsf[0] = NX; - dimsf[1] = NY; + dimsf[0] = NX; + dimsf[1] = NY; dataspace = H5Screate_simple(RANK, dimsf, NULL); /* @@ -68,14 +68,13 @@ main (void) * We will store little endian INT numbers. */ datatype = H5Tcopy(H5T_NATIVE_INT); - status = H5Tset_order(datatype, H5T_ORDER_LE); + status = H5Tset_order(datatype, H5T_ORDER_LE); /* * Create a new dataset within the file using defined dataspace and * datatype and default dataset creation properties. */ - dataset = H5Dcreate2(file, DATASETNAME, datatype, dataspace, - H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dataset = H5Dcreate2(file, DATASETNAME, datatype, dataspace, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); /* * Write the data to the dataset using default transfer properties. @@ -92,4 +91,3 @@ main (void) return 0; } - diff --git a/examples/ph5example.c b/examples/ph5example.c index d718479..06c8919 100644 --- a/examples/ph5example.c +++ b/examples/ph5example.c @@ -46,69 +46,73 @@ /* Define some handy debugging shorthands, routines, ... */ /* debugging tools */ -#define MESG(x)\ - if (verbose) printf("%s\n", x);\ - -#define MPI_BANNER(mesg)\ - {printf("--------------------------------\n");\ - printf("Proc %d: ", mpi_rank); \ - printf("*** %s\n", mesg);\ - printf("--------------------------------\n");} +#define MESG(x) \ + if (verbose) \ + printf("%s\n", x); + +#define MPI_BANNER(mesg) \ + { \ + printf("--------------------------------\n"); \ + printf("Proc %d: ", mpi_rank); \ + printf("*** %s\n", mesg); \ + printf("--------------------------------\n"); \ + } -#define SYNC(comm)\ - {MPI_BANNER("doing a SYNC"); MPI_Barrier(comm); MPI_BANNER("SYNC DONE");} +#define SYNC(comm) \ + { \ + MPI_BANNER("doing a SYNC"); \ + MPI_Barrier(comm); \ + MPI_BANNER("SYNC DONE"); \ + } /* End of Define some handy debugging shorthands, routines, ... */ /* Constants definitions */ /* 24 is a multiple of 2, 3, 4, 6, 8, 12. Neat for parallel tests. */ -#define SPACE1_DIM1 24 -#define SPACE1_DIM2 24 -#define SPACE1_RANK 2 -#define DATASETNAME1 "Data1" -#define DATASETNAME2 "Data2" -#define DATASETNAME3 "Data3" +#define SPACE1_DIM1 24 +#define SPACE1_DIM2 24 +#define SPACE1_RANK 2 +#define DATASETNAME1 "Data1" +#define DATASETNAME2 "Data2" +#define DATASETNAME3 "Data3" /* hyperslab layout styles */ -#define BYROW 1 /* divide into slabs of rows */ -#define BYCOL 2 /* divide into blocks of columns */ - -#define PARAPREFIX "HDF5_PARAPREFIX" /* file prefix environment variable name */ +#define BYROW 1 /* divide into slabs of rows */ +#define BYCOL 2 /* divide into blocks of columns */ +#define PARAPREFIX "HDF5_PARAPREFIX" /* file prefix environment variable name */ /* dataset data type. Int's can be easily octo dumped. */ typedef int DATATYPE; /* global variables */ -int nerrors = 0; /* errors count */ +int nerrors = 0; /* errors count */ #ifndef PATH_MAX -#define PATH_MAX 512 -#endif /* !PATH_MAX */ -char testfiles[2][PATH_MAX]; +#define PATH_MAX 512 +#endif /* !PATH_MAX */ +char testfiles[2][PATH_MAX]; - -int mpi_size, mpi_rank; /* mpi variables */ +int mpi_size, mpi_rank; /* mpi variables */ /* option flags */ -int verbose = 0; /* verbose, default as no. */ -int doread=1; /* read test */ -int dowrite=1; /* write test */ -int docleanup=1; /* cleanup */ +int verbose = 0; /* verbose, default as no. */ +int doread = 1; /* read test */ +int dowrite = 1; /* write test */ +int docleanup = 1; /* cleanup */ /* Prototypes */ void slab_set(hsize_t start[], hsize_t count[], hsize_t stride[], int mode); -void dataset_fill(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE * dataset); -void dataset_print(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE * dataset); -int dataset_vrfy(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset, DATATYPE *original); +void dataset_fill(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset); +void dataset_print(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset); +int dataset_vrfy(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset, DATATYPE *original); void phdf5writeInd(char *filename); void phdf5readInd(char *filename); void phdf5writeAll(char *filename); void phdf5readAll(char *filename); void test_split_comm_access(char filenames[][PATH_MAX]); -int parse_options(int argc, char **argv); +int parse_options(int argc, char **argv); void usage(void); -int mkfilenames(char *prefix); +int mkfilenames(char *prefix); void cleanup(void); - /* * Setup the dimensions of the hyperslab. * Two modes--by rows or by columns. @@ -117,113 +121,110 @@ void cleanup(void); void slab_set(hsize_t start[], hsize_t count[], hsize_t stride[], int mode) { - switch (mode){ - case BYROW: - /* Each process takes a slabs of rows. */ - stride[0] = 1; - stride[1] = 1; - count[0] = SPACE1_DIM1/mpi_size; - count[1] = SPACE1_DIM2; - start[0] = mpi_rank*count[0]; - start[1] = 0; - break; - case BYCOL: - /* Each process takes a block of columns. */ - stride[0] = 1; - stride[1] = 1; - count[0] = SPACE1_DIM1; - count[1] = SPACE1_DIM2/mpi_size; - start[0] = 0; - start[1] = mpi_rank*count[1]; - break; - default: - /* Unknown mode. Set it to cover the whole dataset. */ - printf("unknown slab_set mode (%d)\n", mode); - stride[0] = 1; - stride[1] = 1; - count[0] = SPACE1_DIM1; - count[1] = SPACE1_DIM2; - start[0] = 0; - start[1] = 0; - break; + switch (mode) { + case BYROW: + /* Each process takes a slabs of rows. */ + stride[0] = 1; + stride[1] = 1; + count[0] = SPACE1_DIM1 / mpi_size; + count[1] = SPACE1_DIM2; + start[0] = mpi_rank * count[0]; + start[1] = 0; + break; + case BYCOL: + /* Each process takes a block of columns. */ + stride[0] = 1; + stride[1] = 1; + count[0] = SPACE1_DIM1; + count[1] = SPACE1_DIM2 / mpi_size; + start[0] = 0; + start[1] = mpi_rank * count[1]; + break; + default: + /* Unknown mode. Set it to cover the whole dataset. */ + printf("unknown slab_set mode (%d)\n", mode); + stride[0] = 1; + stride[1] = 1; + count[0] = SPACE1_DIM1; + count[1] = SPACE1_DIM2; + start[0] = 0; + start[1] = 0; + break; } } - /* * Fill the dataset with trivial data for testing. * Assume dimension rank is 2 and data is stored contiguous. */ void -dataset_fill(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE * dataset) +dataset_fill(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset) { DATATYPE *dataptr = dataset; - hsize_t i, j; + hsize_t i, j; /* put some trivial data in the data_array */ - for (i=0; i < count[0]; i++){ - for (j=0; j < count[1]; j++){ - *dataptr++ = (i*stride[0]+start[0])*100 + (j*stride[1]+start[1]+1); - } + for (i = 0; i < count[0]; i++) { + for (j = 0; j < count[1]; j++) { + *dataptr++ = (i * stride[0] + start[0]) * 100 + (j * stride[1] + start[1] + 1); + } } } - /* * Print the content of the dataset. */ -void dataset_print(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE * dataset) +void +dataset_print(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset) { DATATYPE *dataptr = dataset; - hsize_t i, j; + hsize_t i, j; /* print the slab read */ - for (i=0; i < count[0]; i++){ - printf("Row %lu: ", (unsigned long)(i*stride[0]+start[0])); - for (j=0; j < count[1]; j++){ - printf("%03d ", *dataptr++); - } - printf("\n"); + for (i = 0; i < count[0]; i++) { + printf("Row %lu: ", (unsigned long)(i * stride[0] + start[0])); + for (j = 0; j < count[1]; j++) { + printf("%03d ", *dataptr++); + } + printf("\n"); } } - /* * Print the content of the dataset. */ -int dataset_vrfy(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset, DATATYPE *original) +int +dataset_vrfy(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *dataset, DATATYPE *original) { -#define MAX_ERR_REPORT 10 /* Maximum number of errors reported */ +#define MAX_ERR_REPORT 10 /* Maximum number of errors reported */ hsize_t i, j; - int nerr; + int nerr; /* print it if verbose */ if (verbose) - dataset_print(start, count, stride, dataset); + dataset_print(start, count, stride, dataset); nerr = 0; - for (i=0; i < count[0]; i++){ - for (j=0; j < count[1]; j++){ - if (*dataset++ != *original++){ - nerr++; - if (nerr <= MAX_ERR_REPORT){ - printf("Dataset Verify failed at [%lu][%lu](row %lu, col %lu): expect %d, got %d\n", - (unsigned long)i, (unsigned long)j, - (unsigned long)(i*stride[0]+start[0]), (unsigned long)(j*stride[1]+start[1]), - *(dataset-1), *(original-1)); - } - } - } + for (i = 0; i < count[0]; i++) { + for (j = 0; j < count[1]; j++) { + if (*dataset++ != *original++) { + nerr++; + if (nerr <= MAX_ERR_REPORT) { + printf("Dataset Verify failed at [%lu][%lu](row %lu, col %lu): expect %d, got %d\n", + (unsigned long)i, (unsigned long)j, (unsigned long)(i * stride[0] + start[0]), + (unsigned long)(j * stride[1] + start[1]), *(dataset - 1), *(original - 1)); + } + } + } } if (nerr > MAX_ERR_REPORT) - printf("[more errors ...]\n"); + printf("[more errors ...]\n"); if (nerr) - printf("%d errors found in dataset_vrfy\n", nerr); - return(nerr); + printf("%d errors found in dataset_vrfy\n", nerr); + return (nerr); } - /* * Example of using the parallel HDF5 library to create two datasets * in one HDF5 files with parallel MPIO access support. @@ -235,32 +236,31 @@ int dataset_vrfy(hsize_t start[], hsize_t count[], hsize_t stride[], DATATYPE *d void phdf5writeInd(char *filename) { - hid_t fid1; /* HDF5 file IDs */ - hid_t acc_tpl1; /* File access templates */ - hid_t sid1; /* Dataspace ID */ - hid_t file_dataspace; /* File dataspace ID */ - hid_t mem_dataspace; /* memory dataspace ID */ - hid_t dataset1, dataset2; /* Dataset ID */ - hsize_t dims1[SPACE1_RANK] = - {SPACE1_DIM1,SPACE1_DIM2}; /* dataspace dim sizes */ - DATATYPE data_array1[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ + hid_t fid1; /* HDF5 file IDs */ + hid_t acc_tpl1; /* File access templates */ + hid_t sid1; /* Dataspace ID */ + hid_t file_dataspace; /* File dataspace ID */ + hid_t mem_dataspace; /* memory dataspace ID */ + hid_t dataset1, dataset2; /* Dataset ID */ + hsize_t dims1[SPACE1_RANK] = {SPACE1_DIM1, SPACE1_DIM2}; /* dataspace dim sizes */ + DATATYPE data_array1[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ - hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ - hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ + hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ + hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ - herr_t ret; /* Generic return value */ + herr_t ret; /* Generic return value */ MPI_Comm comm = MPI_COMM_WORLD; MPI_Info info = MPI_INFO_NULL; if (verbose) - printf("Independent write test on file %s\n", filename); + printf("Independent write test on file %s\n", filename); /* ------------------- * START AN HDF5 FILE * -------------------*/ /* setup file access template with parallel IO access. */ - acc_tpl1 = H5Pcreate (H5P_FILE_ACCESS); + acc_tpl1 = H5Pcreate(H5P_FILE_ACCESS); assert(acc_tpl1 != FAIL); MESG("H5Pcreate access succeed"); /* set Parallel access with communicator */ @@ -277,70 +277,60 @@ phdf5writeInd(char *filename) ret = H5Pclose(acc_tpl1); assert(ret != FAIL); - /* -------------------------- * Define the dimensions of the overall datasets * and the slabs local to the MPI process. * ------------------------- */ /* setup dimensionality object */ sid1 = H5Screate_simple(SPACE1_RANK, dims1, NULL); - assert (sid1 != FAIL); + assert(sid1 != FAIL); MESG("H5Screate_simple succeed"); - /* create a dataset collectively */ - dataset1 = H5Dcreate2(fid1, DATASETNAME1, H5T_NATIVE_INT, sid1, - H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dataset1 = H5Dcreate2(fid1, DATASETNAME1, H5T_NATIVE_INT, sid1, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); assert(dataset1 != FAIL); MESG("H5Dcreate2 succeed"); /* create another dataset collectively */ - dataset2 = H5Dcreate2(fid1, DATASETNAME2, H5T_NATIVE_INT, sid1, - H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); + dataset2 = H5Dcreate2(fid1, DATASETNAME2, H5T_NATIVE_INT, sid1, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); assert(dataset2 != FAIL); MESG("H5Dcreate2 succeed"); - - /* set up dimensions of the slab this process accesses */ - start[0] = mpi_rank*SPACE1_DIM1/mpi_size; - start[1] = 0; - count[0] = SPACE1_DIM1/mpi_size; - count[1] = SPACE1_DIM2; + start[0] = mpi_rank * SPACE1_DIM1 / mpi_size; + start[1] = 0; + count[0] = SPACE1_DIM1 / mpi_size; + count[1] = SPACE1_DIM2; stride[0] = 1; - stride[1] =1; -if (verbose) - printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", - (unsigned long)start[0], (unsigned long)start[1], - (unsigned long)count[0], (unsigned long)count[1], - (unsigned long)(count[0]*count[1])); + stride[1] = 1; + if (verbose) + printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", (unsigned long)start[0], + (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1], + (unsigned long)(count[0] * count[1])); /* put some trivial data in the data_array */ dataset_fill(start, count, stride, &data_array1[0][0]); MESG("data_array initialized"); /* create a file dataspace independently */ - file_dataspace = H5Dget_space (dataset1); + file_dataspace = H5Dget_space(dataset1); assert(file_dataspace != FAIL); MESG("H5Dget_space succeed"); - ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, - count, NULL); + ret = H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, NULL); assert(ret != FAIL); MESG("H5Sset_hyperslab succeed"); /* create a memory dataspace independently */ - mem_dataspace = H5Screate_simple (SPACE1_RANK, count, NULL); - assert (mem_dataspace != FAIL); + mem_dataspace = H5Screate_simple(SPACE1_RANK, count, NULL); + assert(mem_dataspace != FAIL); /* write data independently */ - ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - H5P_DEFAULT, data_array1); + ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, H5P_DEFAULT, data_array1); assert(ret != FAIL); MESG("H5Dwrite succeed"); /* write data independently */ - ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - H5P_DEFAULT, data_array1); + ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, H5P_DEFAULT, data_array1); assert(ret != FAIL); MESG("H5Dwrite succeed"); @@ -348,10 +338,10 @@ if (verbose) H5Sclose(file_dataspace); /* close dataset collectively */ - ret=H5Dclose(dataset1); + ret = H5Dclose(dataset1); assert(ret != FAIL); MESG("H5Dclose1 succeed"); - ret=H5Dclose(dataset2); + ret = H5Dclose(dataset2); assert(ret != FAIL); MESG("H5Dclose2 succeed"); @@ -366,39 +356,38 @@ if (verbose) void phdf5readInd(char *filename) { - hid_t fid1; /* HDF5 file IDs */ - hid_t acc_tpl1; /* 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[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ - DATATYPE data_origin1[SPACE1_DIM1][SPACE1_DIM2]; /* expected data buffer */ + hid_t fid1; /* HDF5 file IDs */ + hid_t acc_tpl1; /* 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[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ + DATATYPE data_origin1[SPACE1_DIM1][SPACE1_DIM2]; /* expected data buffer */ - hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ - hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ + hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ + hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ - herr_t ret; /* Generic return value */ + herr_t ret; /* Generic return value */ MPI_Comm comm = MPI_COMM_WORLD; MPI_Info info = MPI_INFO_NULL; if (verbose) - printf("Independent read test on file %s\n", filename); + printf("Independent read test on file %s\n", filename); /* setup file access template */ - acc_tpl1 = H5Pcreate (H5P_FILE_ACCESS); + acc_tpl1 = H5Pcreate(H5P_FILE_ACCESS); assert(acc_tpl1 != FAIL); /* set Parallel access with communicator */ ret = H5Pset_fapl_mpio(acc_tpl1, comm, info); assert(ret != FAIL); - /* open the file collectively */ - fid1=H5Fopen(filename,H5F_ACC_RDWR,acc_tpl1); + fid1 = H5Fopen(filename, H5F_ACC_RDWR, acc_tpl1); assert(fid1 != FAIL); /* Release file-access template */ - ret=H5Pclose(acc_tpl1); + ret = H5Pclose(acc_tpl1); assert(ret != FAIL); /* open the dataset1 collectively */ @@ -409,37 +398,33 @@ phdf5readInd(char *filename) dataset2 = H5Dopen2(fid1, DATASETNAME1, H5P_DEFAULT); assert(dataset2 != FAIL); - /* set up dimensions of the slab this process accesses */ - start[0] = mpi_rank*SPACE1_DIM1/mpi_size; - start[1] = 0; - count[0] = SPACE1_DIM1/mpi_size; - count[1] = SPACE1_DIM2; + start[0] = mpi_rank * SPACE1_DIM1 / mpi_size; + start[1] = 0; + count[0] = SPACE1_DIM1 / mpi_size; + count[1] = SPACE1_DIM2; stride[0] = 1; - stride[1] =1; -if (verbose) - printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", - (unsigned long)start[0], (unsigned long)start[1], - (unsigned long)count[0], (unsigned long)count[1], - (unsigned long)(count[0]*count[1])); + stride[1] = 1; + if (verbose) + printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", (unsigned long)start[0], + (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1], + (unsigned long)(count[0] * count[1])); /* create a file dataspace independently */ - file_dataspace = H5Dget_space (dataset1); + file_dataspace = H5Dget_space(dataset1); assert(file_dataspace != FAIL); - ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, - count, NULL); + ret = H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, NULL); assert(ret != FAIL); /* create a memory dataspace independently */ - mem_dataspace = H5Screate_simple (SPACE1_RANK, count, NULL); - assert (mem_dataspace != FAIL); + mem_dataspace = H5Screate_simple(SPACE1_RANK, count, NULL); + assert(mem_dataspace != FAIL); /* fill dataset with test data */ dataset_fill(start, count, stride, &data_origin1[0][0]); /* read data independently */ - ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - H5P_DEFAULT, data_array1); + ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, H5P_DEFAULT, data_array1); assert(ret != FAIL); /* verify the read data with original expected data */ @@ -447,8 +432,7 @@ if (verbose) assert(ret != FAIL); /* read data independently */ - ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - H5P_DEFAULT, data_array1); + ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, H5P_DEFAULT, data_array1); assert(ret != FAIL); /* verify the read data with original expected data */ @@ -456,9 +440,9 @@ if (verbose) assert(ret == 0); /* close dataset collectively */ - ret=H5Dclose(dataset1); + ret = H5Dclose(dataset1); assert(ret != FAIL); - ret=H5Dclose(dataset2); + ret = H5Dclose(dataset2); assert(ret != FAIL); /* release all IDs created */ @@ -468,7 +452,6 @@ if (verbose) H5Fclose(fid1); } - /* * Example of using the parallel HDF5 library to create two datasets * in one HDF5 file with collective parallel access support. @@ -481,33 +464,32 @@ if (verbose) void phdf5writeAll(char *filename) { - hid_t fid1; /* HDF5 file IDs */ - hid_t acc_tpl1; /* File access templates */ - hid_t xfer_plist; /* Dataset transfer properties list */ - hid_t sid1; /* Dataspace ID */ - hid_t file_dataspace; /* File dataspace ID */ - hid_t mem_dataspace; /* memory dataspace ID */ - hid_t dataset1, dataset2; /* Dataset ID */ - hsize_t dims1[SPACE1_RANK] = - {SPACE1_DIM1,SPACE1_DIM2}; /* dataspace dim sizes */ - DATATYPE data_array1[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ - - hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ - hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ - - herr_t ret; /* Generic return value */ + hid_t fid1; /* HDF5 file IDs */ + hid_t acc_tpl1; /* File access templates */ + hid_t xfer_plist; /* Dataset transfer properties list */ + hid_t sid1; /* Dataspace ID */ + hid_t file_dataspace; /* File dataspace ID */ + hid_t mem_dataspace; /* memory dataspace ID */ + hid_t dataset1, dataset2; /* Dataset ID */ + hsize_t dims1[SPACE1_RANK] = {SPACE1_DIM1, SPACE1_DIM2}; /* dataspace dim sizes */ + DATATYPE data_array1[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ + + hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ + hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ + + herr_t ret; /* Generic return value */ MPI_Comm comm = MPI_COMM_WORLD; MPI_Info info = MPI_INFO_NULL; if (verbose) - printf("Collective write test on file %s\n", filename); + printf("Collective write test on file %s\n", filename); /* ------------------- * START AN HDF5 FILE * -------------------*/ /* setup file access template with parallel IO access. */ - acc_tpl1 = H5Pcreate (H5P_FILE_ACCESS); + acc_tpl1 = H5Pcreate(H5P_FILE_ACCESS); assert(acc_tpl1 != FAIL); MESG("H5Pcreate access succeed"); /* set Parallel access with communicator */ @@ -516,25 +498,23 @@ phdf5writeAll(char *filename) MESG("H5Pset_fapl_mpio succeed"); /* create the file collectively */ - fid1=H5Fcreate(filename,H5F_ACC_TRUNC,H5P_DEFAULT,acc_tpl1); + fid1 = H5Fcreate(filename, H5F_ACC_TRUNC, H5P_DEFAULT, acc_tpl1); assert(fid1 != FAIL); MESG("H5Fcreate succeed"); /* Release file-access template */ - ret=H5Pclose(acc_tpl1); + ret = H5Pclose(acc_tpl1); assert(ret != FAIL); - /* -------------------------- * Define the dimensions of the overall datasets * and create the dataset * ------------------------- */ /* setup dimensionality object */ - sid1 = H5Screate_simple (SPACE1_RANK, dims1, NULL); - assert (sid1 != FAIL); + sid1 = H5Screate_simple(SPACE1_RANK, dims1, NULL); + assert(sid1 != FAIL); MESG("H5Screate_simple succeed"); - /* create a dataset collectively */ dataset1 = H5Dcreate2(fid1, DATASETNAME1, H5T_NATIVE_INT, sid1, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); assert(dataset1 != FAIL); @@ -551,43 +531,40 @@ phdf5writeAll(char *filename) /* Dataset1: each process takes a block of rows. */ slab_set(start, count, stride, BYROW); -if (verbose) - printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", - (unsigned long)start[0], (unsigned long)start[1], - (unsigned long)count[0], (unsigned long)count[1], - (unsigned long)(count[0]*count[1])); + if (verbose) + printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", (unsigned long)start[0], + (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1], + (unsigned long)(count[0] * count[1])); /* create a file dataspace independently */ - file_dataspace = H5Dget_space (dataset1); + file_dataspace = H5Dget_space(dataset1); assert(file_dataspace != FAIL); MESG("H5Dget_space succeed"); - ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, - count, NULL); + ret = H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, NULL); assert(ret != FAIL); MESG("H5Sset_hyperslab succeed"); /* create a memory dataspace independently */ - mem_dataspace = H5Screate_simple (SPACE1_RANK, count, NULL); - assert (mem_dataspace != FAIL); + mem_dataspace = H5Screate_simple(SPACE1_RANK, count, NULL); + assert(mem_dataspace != FAIL); /* fill the local slab with some trivial data */ dataset_fill(start, count, stride, &data_array1[0][0]); MESG("data_array initialized"); - if (verbose){ - MESG("data_array created"); - dataset_print(start, count, stride, &data_array1[0][0]); + if (verbose) { + MESG("data_array created"); + dataset_print(start, count, stride, &data_array1[0][0]); } /* set up the collective transfer properties list */ - xfer_plist = H5Pcreate (H5P_DATASET_XFER); + xfer_plist = H5Pcreate(H5P_DATASET_XFER); assert(xfer_plist != FAIL); - ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); + ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); assert(ret != FAIL); MESG("H5Pcreate xfer succeed"); /* write data collectively */ - ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - xfer_plist, data_array1); + ret = H5Dwrite(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, xfer_plist, data_array1); assert(ret != FAIL); MESG("H5Dwrite succeed"); @@ -600,51 +577,48 @@ if (verbose) /* Dataset2: each process takes a block of columns. */ slab_set(start, count, stride, BYCOL); -if (verbose) - printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", - (unsigned long)start[0], (unsigned long)start[1], - (unsigned long)count[0], (unsigned long)count[1], - (unsigned long)(count[0]*count[1])); + if (verbose) + printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", (unsigned long)start[0], + (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1], + (unsigned long)(count[0] * count[1])); /* put some trivial data in the data_array */ dataset_fill(start, count, stride, &data_array1[0][0]); MESG("data_array initialized"); - if (verbose){ - MESG("data_array created"); - dataset_print(start, count, stride, &data_array1[0][0]); + if (verbose) { + MESG("data_array created"); + dataset_print(start, count, stride, &data_array1[0][0]); } /* create a file dataspace independently */ - file_dataspace = H5Dget_space (dataset1); + file_dataspace = H5Dget_space(dataset1); assert(file_dataspace != FAIL); MESG("H5Dget_space succeed"); - ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, - count, NULL); + ret = H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, NULL); assert(ret != FAIL); MESG("H5Sset_hyperslab succeed"); /* create a memory dataspace independently */ - mem_dataspace = H5Screate_simple (SPACE1_RANK, count, NULL); - assert (mem_dataspace != FAIL); + mem_dataspace = H5Screate_simple(SPACE1_RANK, count, NULL); + assert(mem_dataspace != FAIL); /* fill the local slab with some trivial data */ dataset_fill(start, count, stride, &data_array1[0][0]); MESG("data_array initialized"); - if (verbose){ - MESG("data_array created"); - dataset_print(start, count, stride, &data_array1[0][0]); + if (verbose) { + MESG("data_array created"); + dataset_print(start, count, stride, &data_array1[0][0]); } /* set up the collective transfer properties list */ - xfer_plist = H5Pcreate (H5P_DATASET_XFER); + xfer_plist = H5Pcreate(H5P_DATASET_XFER); assert(xfer_plist != FAIL); - ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); + ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); assert(ret != FAIL); MESG("H5Pcreate xfer succeed"); /* write data independently */ - ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - xfer_plist, data_array1); + ret = H5Dwrite(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, xfer_plist, data_array1); assert(ret != FAIL); MESG("H5Dwrite succeed"); @@ -653,14 +627,13 @@ if (verbose) H5Sclose(mem_dataspace); H5Pclose(xfer_plist); - /* * All writes completed. Close datasets collectively */ - ret=H5Dclose(dataset1); + ret = H5Dclose(dataset1); assert(ret != FAIL); MESG("H5Dclose1 succeed"); - ret=H5Dclose(dataset2); + ret = H5Dclose(dataset2); assert(ret != FAIL); MESG("H5Dclose2 succeed"); @@ -683,31 +656,31 @@ if (verbose) void phdf5readAll(char *filename) { - hid_t fid1; /* HDF5 file IDs */ - hid_t acc_tpl1; /* File access templates */ - hid_t xfer_plist; /* Dataset transfer properties list */ - hid_t file_dataspace; /* File dataspace ID */ - hid_t mem_dataspace; /* memory dataspace ID */ - hid_t dataset1, dataset2; /* Dataset ID */ - DATATYPE data_array1[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ - DATATYPE data_origin1[SPACE1_DIM1][SPACE1_DIM2]; /* expected data buffer */ + hid_t fid1; /* HDF5 file IDs */ + hid_t acc_tpl1; /* File access templates */ + hid_t xfer_plist; /* Dataset transfer properties list */ + hid_t file_dataspace; /* File dataspace ID */ + hid_t mem_dataspace; /* memory dataspace ID */ + hid_t dataset1, dataset2; /* Dataset ID */ + DATATYPE data_array1[SPACE1_DIM1][SPACE1_DIM2]; /* data buffer */ + DATATYPE data_origin1[SPACE1_DIM1][SPACE1_DIM2]; /* expected data buffer */ - hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ - hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ + hsize_t start[SPACE1_RANK]; /* for hyperslab setting */ + hsize_t count[SPACE1_RANK], stride[SPACE1_RANK]; /* for hyperslab setting */ - herr_t ret; /* Generic return value */ + herr_t ret; /* Generic return value */ MPI_Comm comm = MPI_COMM_WORLD; MPI_Info info = MPI_INFO_NULL; if (verbose) - printf("Collective read test on file %s\n", filename); + printf("Collective read test on file %s\n", filename); /* ------------------- * OPEN AN HDF5 FILE * -------------------*/ /* setup file access template with parallel IO access. */ - acc_tpl1 = H5Pcreate (H5P_FILE_ACCESS); + acc_tpl1 = H5Pcreate(H5P_FILE_ACCESS); assert(acc_tpl1 != FAIL); MESG("H5Pcreate access succeed"); /* set Parallel access with communicator */ @@ -716,15 +689,14 @@ phdf5readAll(char *filename) MESG("H5Pset_fapl_mpio succeed"); /* open the file collectively */ - fid1=H5Fopen(filename,H5F_ACC_RDWR,acc_tpl1); + fid1 = H5Fopen(filename, H5F_ACC_RDWR, acc_tpl1); assert(fid1 != FAIL); MESG("H5Fopen succeed"); /* Release file-access template */ - ret=H5Pclose(acc_tpl1); + ret = H5Pclose(acc_tpl1); assert(ret != FAIL); - /* -------------------------- * Open the datasets in it * ------------------------- */ @@ -744,43 +716,40 @@ phdf5readAll(char *filename) /* Dataset1: each process takes a block of columns. */ slab_set(start, count, stride, BYCOL); -if (verbose) - printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", - (unsigned long)start[0], (unsigned long)start[1], - (unsigned long)count[0], (unsigned long)count[1], - (unsigned long)(count[0]*count[1])); + if (verbose) + printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", (unsigned long)start[0], + (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1], + (unsigned long)(count[0] * count[1])); /* create a file dataspace independently */ - file_dataspace = H5Dget_space (dataset1); + file_dataspace = H5Dget_space(dataset1); assert(file_dataspace != FAIL); MESG("H5Dget_space succeed"); - ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, - count, NULL); + ret = H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, NULL); assert(ret != FAIL); MESG("H5Sset_hyperslab succeed"); /* create a memory dataspace independently */ - mem_dataspace = H5Screate_simple (SPACE1_RANK, count, NULL); - assert (mem_dataspace != FAIL); + mem_dataspace = H5Screate_simple(SPACE1_RANK, count, NULL); + assert(mem_dataspace != FAIL); /* fill dataset with test data */ dataset_fill(start, count, stride, &data_origin1[0][0]); MESG("data_array initialized"); - if (verbose){ - MESG("data_array created"); - dataset_print(start, count, stride, &data_array1[0][0]); + if (verbose) { + MESG("data_array created"); + dataset_print(start, count, stride, &data_array1[0][0]); } /* set up the collective transfer properties list */ - xfer_plist = H5Pcreate (H5P_DATASET_XFER); + xfer_plist = H5Pcreate(H5P_DATASET_XFER); assert(xfer_plist != FAIL); - ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); + ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); assert(ret != FAIL); MESG("H5Pcreate xfer succeed"); /* read data collectively */ - ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - xfer_plist, data_array1); + ret = H5Dread(dataset1, H5T_NATIVE_INT, mem_dataspace, file_dataspace, xfer_plist, data_array1); assert(ret != FAIL); MESG("H5Dread succeed"); @@ -797,43 +766,40 @@ if (verbose) /* Dataset2: each process takes a block of rows. */ slab_set(start, count, stride, BYROW); -if (verbose) - printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", - (unsigned long)start[0], (unsigned long)start[1], - (unsigned long)count[0], (unsigned long)count[1], - (unsigned long)(count[0]*count[1])); + if (verbose) + printf("start[]=(%lu,%lu), count[]=(%lu,%lu), total datapoints=%lu\n", (unsigned long)start[0], + (unsigned long)start[1], (unsigned long)count[0], (unsigned long)count[1], + (unsigned long)(count[0] * count[1])); /* create a file dataspace independently */ - file_dataspace = H5Dget_space (dataset1); + file_dataspace = H5Dget_space(dataset1); assert(file_dataspace != FAIL); MESG("H5Dget_space succeed"); - ret=H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, - count, NULL); + ret = H5Sselect_hyperslab(file_dataspace, H5S_SELECT_SET, start, stride, count, NULL); assert(ret != FAIL); MESG("H5Sset_hyperslab succeed"); /* create a memory dataspace independently */ - mem_dataspace = H5Screate_simple (SPACE1_RANK, count, NULL); - assert (mem_dataspace != FAIL); + mem_dataspace = H5Screate_simple(SPACE1_RANK, count, NULL); + assert(mem_dataspace != FAIL); /* fill dataset with test data */ dataset_fill(start, count, stride, &data_origin1[0][0]); MESG("data_array initialized"); - if (verbose){ - MESG("data_array created"); - dataset_print(start, count, stride, &data_array1[0][0]); + if (verbose) { + MESG("data_array created"); + dataset_print(start, count, stride, &data_array1[0][0]); } /* set up the collective transfer properties list */ - xfer_plist = H5Pcreate (H5P_DATASET_XFER); + xfer_plist = H5Pcreate(H5P_DATASET_XFER); assert(xfer_plist != FAIL); - ret=H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); + ret = H5Pset_dxpl_mpio(xfer_plist, H5FD_MPIO_COLLECTIVE); assert(ret != FAIL); MESG("H5Pcreate xfer succeed"); /* read data independently */ - ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, - xfer_plist, data_array1); + ret = H5Dread(dataset2, H5T_NATIVE_INT, mem_dataspace, file_dataspace, xfer_plist, data_array1); assert(ret != FAIL); MESG("H5Dread succeed"); @@ -846,14 +812,13 @@ if (verbose) H5Sclose(mem_dataspace); H5Pclose(xfer_plist); - /* * All reads completed. Close datasets collectively */ - ret=H5Dclose(dataset1); + ret = H5Dclose(dataset1); assert(ret != FAIL); MESG("H5Dclose1 succeed"); - ret=H5Dclose(dataset2); + ret = H5Dclose(dataset2); assert(ret != FAIL); MESG("H5Dclose2 succeed"); @@ -877,51 +842,51 @@ test_split_comm_access(char filenames[][PATH_MAX]) { MPI_Comm comm; MPI_Info info = MPI_INFO_NULL; - int color, mrc; - int newrank, newprocs; - hid_t fid; /* file IDs */ - hid_t acc_tpl; /* File access properties */ - herr_t ret; /* generic return value */ + int color, mrc; + int newrank, newprocs; + hid_t fid; /* file IDs */ + hid_t acc_tpl; /* File access properties */ + herr_t ret; /* generic return value */ if (verbose) - printf("Independent write test on file %s %s\n", - filenames[0], filenames[1]); - - color = mpi_rank%2; - mrc = MPI_Comm_split (MPI_COMM_WORLD, color, mpi_rank, &comm); - assert(mrc==MPI_SUCCESS); - MPI_Comm_size(comm,&newprocs); - MPI_Comm_rank(comm,&newrank); - - if (color){ - /* odd-rank processes */ - mrc = MPI_Barrier(comm); - assert(mrc==MPI_SUCCESS); - }else{ - /* even-rank processes */ - /* setup file access template */ - acc_tpl = H5Pcreate (H5P_FILE_ACCESS); - assert(acc_tpl != FAIL); - - /* set Parallel access with communicator */ - ret = H5Pset_fapl_mpio(acc_tpl, comm, info); - assert(ret != FAIL); - - /* create the file collectively */ - fid=H5Fcreate(filenames[color],H5F_ACC_TRUNC,H5P_DEFAULT,acc_tpl); - assert(fid != FAIL); - MESG("H5Fcreate succeed"); - - /* Release file-access template */ - ret=H5Pclose(acc_tpl); - assert(ret != FAIL); - - ret=H5Fclose(fid); - assert(ret != FAIL); + printf("Independent write test on file %s %s\n", filenames[0], filenames[1]); + + color = mpi_rank % 2; + mrc = MPI_Comm_split(MPI_COMM_WORLD, color, mpi_rank, &comm); + assert(mrc == MPI_SUCCESS); + MPI_Comm_size(comm, &newprocs); + MPI_Comm_rank(comm, &newrank); + + if (color) { + /* odd-rank processes */ + mrc = MPI_Barrier(comm); + assert(mrc == MPI_SUCCESS); } - if (mpi_rank == 0){ - mrc = MPI_File_delete(filenames[color], info); - assert(mrc==MPI_SUCCESS); + else { + /* even-rank processes */ + /* setup file access template */ + acc_tpl = H5Pcreate(H5P_FILE_ACCESS); + assert(acc_tpl != FAIL); + + /* set Parallel access with communicator */ + ret = H5Pset_fapl_mpio(acc_tpl, comm, info); + assert(ret != FAIL); + + /* create the file collectively */ + fid = H5Fcreate(filenames[color], H5F_ACC_TRUNC, H5P_DEFAULT, acc_tpl); + assert(fid != FAIL); + MESG("H5Fcreate succeed"); + + /* Release file-access template */ + ret = H5Pclose(acc_tpl); + assert(ret != FAIL); + + ret = H5Fclose(fid); + assert(ret != FAIL); + } + if (mpi_rank == 0) { + mrc = MPI_File_delete(filenames[color], info); + assert(mrc == MPI_SUCCESS); } } @@ -944,7 +909,6 @@ usage(void) printf("\n"); } - /* * compose the test filename with the prefix supplied. * return code: 0 if no error @@ -953,88 +917,93 @@ usage(void) int mkfilenames(char *prefix) { - int i, n; + int i, n; size_t strsize; /* filename will be prefix/ParaEgN.h5 where N is 0 to 9. */ /* So, string must be big enough to hold the prefix, / and 10 more chars */ /* and the terminating null. */ strsize = strlen(prefix) + 12; - if (strsize > PATH_MAX){ - printf("File prefix too long; Use a short path name.\n"); - return(1); + if (strsize > PATH_MAX) { + printf("File prefix too long; Use a short path name.\n"); + return (1); } - n = sizeof(testfiles)/sizeof(testfiles[0]); - if (n > 9){ - printf("Warning: Too many entries in testfiles. " - "Need to adjust the code to accommodate the large size.\n"); + n = sizeof(testfiles) / sizeof(testfiles[0]); + if (n > 9) { + printf("Warning: Too many entries in testfiles. " + "Need to adjust the code to accommodate the large size.\n"); } - for (i=0; i<n; i++){ - sprintf(testfiles[i], "%s/ParaEg%d.h5", prefix, i); + for (i = 0; i < n; i++) { + sprintf(testfiles[i], "%s/ParaEg%d.h5", prefix, i); } - return(0); - + return (0); } - /* * parse the command line options */ int -parse_options(int argc, char **argv){ +parse_options(int argc, char **argv) +{ int i, n; /* initialize testfiles to nulls */ - n = sizeof(testfiles)/sizeof(testfiles[0]); - for (i=0; i<n; i++){ - testfiles[i][0] = '\0'; + n = sizeof(testfiles) / sizeof(testfiles[0]); + for (i = 0; i < n; i++) { + testfiles[i][0] = '\0'; } - while (--argc){ - if (**(++argv) != '-'){ - break; - }else{ - switch(*(*argv+1)){ - case 'f': ++argv; - if (--argc < 1){ - usage(); - nerrors++; - return(1); - } - if (mkfilenames(*argv)){ - nerrors++; - return(1); - } - break; - case 'c': docleanup = 0; /* no cleanup */ - break; - case 'r': doread = 0; - break; - case 'w': dowrite = 0; - break; - case 'v': verbose = 1; - break; - default: usage(); - nerrors++; - return(1); - } - } + while (--argc) { + if (**(++argv) != '-') { + break; + } + else { + switch (*(*argv + 1)) { + case 'f': + ++argv; + if (--argc < 1) { + usage(); + nerrors++; + return (1); + } + if (mkfilenames(*argv)) { + nerrors++; + return (1); + } + break; + case 'c': + docleanup = 0; /* no cleanup */ + break; + case 'r': + doread = 0; + break; + case 'w': + dowrite = 0; + break; + case 'v': + verbose = 1; + break; + default: + usage(); + nerrors++; + return (1); + } + } } /* check the file prefix */ - if (testfiles[0][0] == '\0'){ - /* try get it from environment variable HDF5_PARAPREFIX */ - char *env; - char *env_default = "."; /* default to current directory */ - if ((env=getenv(PARAPREFIX))==NULL){ - env = env_default; - } - mkfilenames(env); + if (testfiles[0][0] == '\0') { + /* try get it from environment variable HDF5_PARAPREFIX */ + char *env; + char *env_default = "."; /* default to current directory */ + if ((env = getenv(PARAPREFIX)) == NULL) { + env = env_default; + } + mkfilenames(env); } - return(0); + return (0); } - /* * cleanup test files created */ @@ -1043,88 +1012,87 @@ cleanup(void) { int i, n; - n = sizeof(testfiles)/sizeof(testfiles[0]); - for (i=0; i<n; i++){ - MPI_File_delete(testfiles[i], MPI_INFO_NULL); + n = sizeof(testfiles) / sizeof(testfiles[0]); + for (i = 0; i < n; i++) { + MPI_File_delete(testfiles[i], MPI_INFO_NULL); } } - /* Main Program */ int main(int argc, char **argv) { - int mpi_namelen; + int mpi_namelen; char mpi_name[MPI_MAX_PROCESSOR_NAME]; - int i, n; + int i, n; - MPI_Init(&argc,&argv); - MPI_Comm_size(MPI_COMM_WORLD,&mpi_size); - MPI_Comm_rank(MPI_COMM_WORLD,&mpi_rank); - MPI_Get_processor_name(mpi_name,&mpi_namelen); + MPI_Init(&argc, &argv); + MPI_Comm_size(MPI_COMM_WORLD, &mpi_size); + MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank); + MPI_Get_processor_name(mpi_name, &mpi_namelen); /* Make sure datasets can be divided into equal chunks by the processes */ - if ((SPACE1_DIM1 % mpi_size) || (SPACE1_DIM2 % mpi_size)){ - printf("DIM1(%d) and DIM2(%d) must be multiples of processes (%d)\n", - SPACE1_DIM1, SPACE1_DIM2, mpi_size); - nerrors++; - goto finish; + if ((SPACE1_DIM1 % mpi_size) || (SPACE1_DIM2 % mpi_size)) { + printf("DIM1(%d) and DIM2(%d) must be multiples of processes (%d)\n", SPACE1_DIM1, SPACE1_DIM2, + mpi_size); + nerrors++; + goto finish; } if (parse_options(argc, argv) != 0) - goto finish; + goto finish; /* show test file names */ - if (mpi_rank == 0){ - n = sizeof(testfiles)/sizeof(testfiles[0]); - printf("Parallel test files are:\n"); - for (i=0; i<n; i++){ - printf(" %s\n", testfiles[i]); - } + if (mpi_rank == 0) { + n = sizeof(testfiles) / sizeof(testfiles[0]); + printf("Parallel test files are:\n"); + for (i = 0; i < n; i++) { + printf(" %s\n", testfiles[i]); + } } - if (dowrite){ - MPI_BANNER("testing PHDF5 dataset using split communicators..."); - test_split_comm_access(testfiles); - MPI_BANNER("testing PHDF5 dataset independent write..."); - phdf5writeInd(testfiles[0]); - MPI_BANNER("testing PHDF5 dataset collective write..."); - phdf5writeAll(testfiles[1]); + if (dowrite) { + MPI_BANNER("testing PHDF5 dataset using split communicators..."); + test_split_comm_access(testfiles); + MPI_BANNER("testing PHDF5 dataset independent write..."); + phdf5writeInd(testfiles[0]); + MPI_BANNER("testing PHDF5 dataset collective write..."); + phdf5writeAll(testfiles[1]); } - if (doread){ - MPI_BANNER("testing PHDF5 dataset independent read..."); - phdf5readInd(testfiles[0]); - MPI_BANNER("testing PHDF5 dataset collective read..."); - phdf5readAll(testfiles[1]); + if (doread) { + MPI_BANNER("testing PHDF5 dataset independent read..."); + phdf5readInd(testfiles[0]); + MPI_BANNER("testing PHDF5 dataset collective read..."); + phdf5readAll(testfiles[1]); } - if (!(dowrite || doread)){ - usage(); - nerrors++; + if (!(dowrite || doread)) { + usage(); + nerrors++; } finish: - if (mpi_rank == 0){ /* only process 0 reports */ - if (nerrors) - printf("***PHDF5 tests detected %d errors***\n", nerrors); - else{ - printf("===================================\n"); - printf("PHDF5 tests finished with no errors\n"); - printf("===================================\n"); - } + if (mpi_rank == 0) { /* only process 0 reports */ + if (nerrors) + printf("***PHDF5 tests detected %d errors***\n", nerrors); + else { + printf("===================================\n"); + printf("PHDF5 tests finished with no errors\n"); + printf("===================================\n"); + } } if (docleanup) - cleanup(); + cleanup(); MPI_Finalize(); - return(nerrors); + return (nerrors); } -#else /* H5_HAVE_PARALLEL */ +#else /* H5_HAVE_PARALLEL */ /* dummy program since H5_HAVE_PARALLE is not configured in */ int main(void) { -printf("No PHDF5 example because parallel is not configured in\n"); -return(0); + printf("No PHDF5 example because parallel is not configured in\n"); + return (0); } #endif /* H5_HAVE_PARALLEL */ |