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HDF5  1.14.4.3
API Reference
 
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H5Dpublic.h File Reference
#include "H5public.h"
#include "H5Ipublic.h"

Macros

#define H5D_CHUNK_CACHE_NSLOTS_DEFAULT   SIZE_MAX
 
#define H5D_CHUNK_CACHE_NBYTES_DEFAULT   SIZE_MAX
 
#define H5D_CHUNK_CACHE_W0_DEFAULT   (-1.0)
 
#define H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS   (0x0002u)
 
#define H5D_CHUNK_BTREE   H5D_CHUNK_IDX_BTREE
 
#define H5D_XFER_DIRECT_CHUNK_WRITE_FLAG_NAME   "direct_chunk_flag"
 
#define H5D_XFER_DIRECT_CHUNK_WRITE_FILTERS_NAME   "direct_chunk_filters"
 
#define H5D_XFER_DIRECT_CHUNK_WRITE_OFFSET_NAME   "direct_chunk_offset"
 
#define H5D_XFER_DIRECT_CHUNK_WRITE_DATASIZE_NAME   "direct_chunk_datasize"
 
#define H5D_XFER_DIRECT_CHUNK_READ_FLAG_NAME   "direct_chunk_read_flag"
 
#define H5D_XFER_DIRECT_CHUNK_READ_OFFSET_NAME   "direct_chunk_read_offset"
 
#define H5D_XFER_DIRECT_CHUNK_READ_FILTERS_NAME   "direct_chunk_read_filters"
 

Typedefs

typedef herr_t(* H5D_append_cb_t) (hid_t dataset_id, hsize_t *cur_dims, void *op_data)
 Callback for H5Pset_append_flush()
 
typedef herr_t(* H5D_operator_t) (void *elem, hid_t type_id, unsigned ndim, const hsize_t *point, void *operator_data)
 Callback for H5Diterate()
 
typedef herr_t(* H5D_scatter_func_t) (const void **src_buf, size_t *src_buf_bytes_used, void *op_data)
 Callback for H5Dscatter()
 
typedef herr_t(* H5D_gather_func_t) (const void *dst_buf, size_t dst_buf_bytes_used, void *op_data)
 Callback for H5Dgather()
 
typedef int(* H5D_chunk_iter_op_t) (const hsize_t *offset, unsigned filter_mask, haddr_t addr, hsize_t size, void *op_data)
 Callback for H5Dchunk_iter()
 

Enumerations

enum  H5D_layout_t {
  H5D_LAYOUT_ERROR = -1 , H5D_COMPACT = 0 , H5D_CONTIGUOUS = 1 , H5D_CHUNKED = 2 ,
  H5D_VIRTUAL = 3 , H5D_NLAYOUTS = 4
}
 
enum  H5D_chunk_index_t {
  H5D_CHUNK_IDX_BTREE = 0 , H5D_CHUNK_IDX_SINGLE , H5D_CHUNK_IDX_NONE = 2 , H5D_CHUNK_IDX_FARRAY = 3 ,
  H5D_CHUNK_IDX_EARRAY = 4 , H5D_CHUNK_IDX_BT2 = 5 , H5D_CHUNK_IDX_NTYPES
}
 
enum  H5D_alloc_time_t {
  H5D_ALLOC_TIME_ERROR = -1 , H5D_ALLOC_TIME_DEFAULT = 0 , H5D_ALLOC_TIME_EARLY = 1 , H5D_ALLOC_TIME_LATE = 2 ,
  H5D_ALLOC_TIME_INCR = 3
}
 
enum  H5D_space_status_t { H5D_SPACE_STATUS_ERROR = -1 , H5D_SPACE_STATUS_NOT_ALLOCATED = 0 , H5D_SPACE_STATUS_PART_ALLOCATED = 1 , H5D_SPACE_STATUS_ALLOCATED = 2 }
 
enum  H5D_fill_time_t { H5D_FILL_TIME_ERROR = -1 , H5D_FILL_TIME_ALLOC = 0 , H5D_FILL_TIME_NEVER = 1 , H5D_FILL_TIME_IFSET = 2 }
 
enum  H5D_fill_value_t { H5D_FILL_VALUE_ERROR = -1 , H5D_FILL_VALUE_UNDEFINED = 0 , H5D_FILL_VALUE_DEFAULT = 1 , H5D_FILL_VALUE_USER_DEFINED = 2 }
 
enum  H5D_vds_view_t { H5D_VDS_ERROR = -1 , H5D_VDS_FIRST_MISSING = 0 , H5D_VDS_LAST_AVAILABLE = 1 }
 

Functions

hid_t H5Dcreate2 (hid_t loc_id, const char *name, hid_t type_id, hid_t space_id, hid_t lcpl_id, hid_t dcpl_id, hid_t dapl_id)
 Creates a new dataset and links it into the file.
 
hid_t H5Dcreate_async (hid_t loc_id, const char *name, hid_t type_id, hid_t space_id, hid_t lcpl_id, hid_t dcpl_id, hid_t dapl_id, hid_t es_id)
 
hid_t H5Dcreate_anon (hid_t loc_id, hid_t type_id, hid_t space_id, hid_t dcpl_id, hid_t dapl_id)
 Creates a dataset in a file without linking it into the file structure.
 
hid_t H5Dopen2 (hid_t loc_id, const char *name, hid_t dapl_id)
 Opens an existing dataset.
 
hid_t H5Dopen_async (hid_t loc_id, const char *name, hid_t dapl_id, hid_t es_id)
 
hid_t H5Dget_space (hid_t dset_id)
 Returns an identifier for a copy of the dataspace for a dataset.
 
hid_t H5Dget_space_async (hid_t dset_id, hid_t es_id)
 
herr_t H5Dget_space_status (hid_t dset_id, H5D_space_status_t *allocation)
 Determines whether space has been allocated for a dataset.
 
hid_t H5Dget_type (hid_t dset_id)
 Returns an identifier for a copy of the datatype for a dataset.
 
hid_t H5Dget_create_plist (hid_t dset_id)
 Returns an identifier for a copy of the dataset creation property list for a dataset.
 
hid_t H5Dget_access_plist (hid_t dset_id)
 Returns the dataset access property list associated with a dataset.
 
hsize_t H5Dget_storage_size (hid_t dset_id)
 Returns the amount of storage allocated for a dataset.
 
herr_t H5Dget_chunk_storage_size (hid_t dset_id, const hsize_t *offset, hsize_t *chunk_bytes)
 Returns the amount of storage allocated within the file for a raw data chunk in a dataset.
 
herr_t H5Dget_num_chunks (hid_t dset_id, hid_t fspace_id, hsize_t *nchunks)
 Retrieves number of chunks that have nonempty intersection with a specified selection.
 
herr_t H5Dget_chunk_info_by_coord (hid_t dset_id, const hsize_t *offset, unsigned *filter_mask, haddr_t *addr, hsize_t *size)
 Retrieves information about a chunk specified by its coordinates.
 
herr_t H5Dchunk_iter (hid_t dset_id, hid_t dxpl_id, H5D_chunk_iter_op_t cb, void *op_data)
 Iterate over all chunks of a chunked dataset.
 
herr_t H5Dget_chunk_info (hid_t dset_id, hid_t fspace_id, hsize_t chk_idx, hsize_t *offset, unsigned *filter_mask, haddr_t *addr, hsize_t *size)
 Retrieves information about a chunk specified by its index.
 
haddr_t H5Dget_offset (hid_t dset_id)
 Returns dataset address in file.
 
herr_t H5Dread (hid_t dset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t dxpl_id, void *buf)
 Reads raw data from a dataset into a provided buffer.
 
herr_t H5Dread_multi (size_t count, hid_t dset_id[], hid_t mem_type_id[], hid_t mem_space_id[], hid_t file_space_id[], hid_t dxpl_id, void *buf[])
 Reads raw data from a set of datasets into the provided buffers.
 
herr_t H5Dread_async (hid_t dset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t dxpl_id, void *buf, hid_t es_id)
 
herr_t H5Dread_multi_async (size_t count, hid_t dset_id[], hid_t mem_type_id[], hid_t mem_space_id[], hid_t file_space_id[], hid_t dxpl_id, void *buf[], hid_t es_id)
 
herr_t H5Dwrite (hid_t dset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t dxpl_id, const void *buf)
 Writes raw data from a buffer to a dataset.
 
herr_t H5Dwrite_multi (size_t count, hid_t dset_id[], hid_t mem_type_id[], hid_t mem_space_id[], hid_t file_space_id[], hid_t dxpl_id, const void *buf[])
 Writes raw data from a set buffers to a set of datasets.
 
herr_t H5Dwrite_async (hid_t dset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t dxpl_id, const void *buf, hid_t es_id)
 
herr_t H5Dwrite_multi_async (size_t count, hid_t dset_id[], hid_t mem_type_id[], hid_t mem_space_id[], hid_t file_space_id[], hid_t dxpl_id, const void *buf[], hid_t es_id)
 
herr_t H5Dwrite_chunk (hid_t dset_id, hid_t dxpl_id, uint32_t filters, const hsize_t *offset, size_t data_size, const void *buf)
 Writes a raw data chunk from a buffer directly to a dataset in a file.
 
herr_t H5Dread_chunk (hid_t dset_id, hid_t dxpl_id, const hsize_t *offset, uint32_t *filters, void *buf)
 Reads a raw data chunk directly from a dataset in a file into a buffer.
 
herr_t H5Diterate (void *buf, hid_t type_id, hid_t space_id, H5D_operator_t op, void *operator_data)
 Iterates over all selected elements in a dataspace.
 
herr_t H5Dvlen_get_buf_size (hid_t dset_id, hid_t type_id, hid_t space_id, hsize_t *size)
 Determines the number of bytes required to store variable-length (VL) data.
 
herr_t H5Dfill (const void *fill, hid_t fill_type_id, void *buf, hid_t buf_type_id, hid_t space_id)
 Fills dataspace elements with a fill value in a memory buffer.
 
herr_t H5Dset_extent (hid_t dset_id, const hsize_t size[])
 Changes the sizes of a dataset's dimensions.
 
herr_t H5Dset_extent_async (hid_t dset_id, const hsize_t size[], hid_t es_id)
 
herr_t H5Dflush (hid_t dset_id)
 Flushes all buffers associated with a dataset to disk.
 
herr_t H5Drefresh (hid_t dset_id)
 Refreshes all buffers associated with a dataset.
 
herr_t H5Dscatter (H5D_scatter_func_t op, void *op_data, hid_t type_id, hid_t dst_space_id, void *dst_buf)
 Scatters data into a selection within a memory buffer.
 
herr_t H5Dgather (hid_t src_space_id, const void *src_buf, hid_t type_id, size_t dst_buf_size, void *dst_buf, H5D_gather_func_t op, void *op_data)
 Gathers data from a selection within a memory buffer raw data chunk in a dataset.
 
herr_t H5Dclose (hid_t dset_id)
 Closes the specified dataset.
 
herr_t H5Dclose_async (hid_t dset_id, hid_t es_id)
 
hid_t H5Dcreate1 (hid_t loc_id, const char *name, hid_t type_id, hid_t space_id, hid_t dcpl_id)
 Creates a dataset at the specified location.
 
hid_t H5Dopen1 (hid_t loc_id, const char *name)
 Opens an existing dataset.
 
herr_t H5Dextend (hid_t dset_id, const hsize_t size[])
 Extends a dataset.
 
herr_t H5Dvlen_reclaim (hid_t type_id, hid_t space_id, hid_t dxpl_id, void *buf)
 Reclaims variable-length (VL) datatype memory buffers.
 

Macro Definition Documentation

◆ H5D_CHUNK_BTREE

#define H5D_CHUNK_BTREE   H5D_CHUNK_IDX_BTREE

◆ H5D_CHUNK_CACHE_NBYTES_DEFAULT

#define H5D_CHUNK_CACHE_NBYTES_DEFAULT   SIZE_MAX

◆ H5D_CHUNK_CACHE_NSLOTS_DEFAULT

#define H5D_CHUNK_CACHE_NSLOTS_DEFAULT   SIZE_MAX

◆ H5D_CHUNK_CACHE_W0_DEFAULT

#define H5D_CHUNK_CACHE_W0_DEFAULT   (-1.0)

◆ H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS

#define H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS   (0x0002u)

◆ H5D_XFER_DIRECT_CHUNK_READ_FILTERS_NAME

#define H5D_XFER_DIRECT_CHUNK_READ_FILTERS_NAME   "direct_chunk_read_filters"

◆ H5D_XFER_DIRECT_CHUNK_READ_FLAG_NAME

#define H5D_XFER_DIRECT_CHUNK_READ_FLAG_NAME   "direct_chunk_read_flag"

◆ H5D_XFER_DIRECT_CHUNK_READ_OFFSET_NAME

#define H5D_XFER_DIRECT_CHUNK_READ_OFFSET_NAME   "direct_chunk_read_offset"

◆ H5D_XFER_DIRECT_CHUNK_WRITE_DATASIZE_NAME

#define H5D_XFER_DIRECT_CHUNK_WRITE_DATASIZE_NAME   "direct_chunk_datasize"

◆ H5D_XFER_DIRECT_CHUNK_WRITE_FILTERS_NAME

#define H5D_XFER_DIRECT_CHUNK_WRITE_FILTERS_NAME   "direct_chunk_filters"

◆ H5D_XFER_DIRECT_CHUNK_WRITE_FLAG_NAME

#define H5D_XFER_DIRECT_CHUNK_WRITE_FLAG_NAME   "direct_chunk_flag"

◆ H5D_XFER_DIRECT_CHUNK_WRITE_OFFSET_NAME

#define H5D_XFER_DIRECT_CHUNK_WRITE_OFFSET_NAME   "direct_chunk_offset"

Typedef Documentation

◆ H5D_append_cb_t

typedef herr_t(* H5D_append_cb_t) (hid_t dataset_id, hsize_t *cur_dims, void *op_data)

Callback for H5Pset_append_flush()

Parameters
[in]dataset_idDataset identifier
[in]cur_dimsThe current extent of the dataset's dimensions
[in,out]op_dataUser context
Returns
Returns a non-negative value if successful; otherwise, returns a negative value.

◆ H5D_chunk_iter_op_t

typedef int(* H5D_chunk_iter_op_t) (const hsize_t *offset, unsigned filter_mask, haddr_t addr, hsize_t size, void *op_data)

Callback for H5Dchunk_iter()

Parameters
[in]offsetLogical position of the chunk's first element in units of dataset elements
[in]filter_maskBitmask indicating the filters used when the chunk was written
[in]addrChunk address in the file, taking the user block (if any) into account
[in]sizeChunk size in bytes, 0 if the chunk does not exist
[in,out]op_dataPointer to any user-defined data associated with the operation.
Returns
  • Zero (H5_ITER_CONT) causes the iterator to continue, returning zero when all elements have been processed.
  • A positive value (H5_ITER_STOP) causes the iterator to immediately return that value, indicating short-circuit success.
  • A negative (H5_ITER_ERROR) causes the iterator to immediately return that value, indicating failure.

◆ H5D_gather_func_t

typedef herr_t(* H5D_gather_func_t) (const void *dst_buf, size_t dst_buf_bytes_used, void *op_data)

Callback for H5Dgather()

Parameters
[in]dst_bufPointer to the destination buffer which has been filled with the next set of elements gathered. This will always be identical to the dst_buf passed to H5Dgather()
[in]dst_buf_bytes_usedPointer to the number of valid bytes in dst_buf. This number must be a multiple of the datatype size.
[in,out]op_dataUser-defined pointer to data required by the callback function; a pass-through of the op_data pointer provided with the H5Dgather() function call.
Returns
Returns a non-negative value if successful; otherwise, returns a negative value.

The callback function should process, store, or otherwise make use of the data returned in dst_buf before it returns, because the buffer will be overwritten unless it is the last call to the callback. This function will be repeatedly called until all gathered elements have been passed to the callback in dst_buf. The callback function should return zero (0) to indicate success, and a negative value to indicate failure.

◆ H5D_operator_t

typedef herr_t(* H5D_operator_t) (void *elem, hid_t type_id, unsigned ndim, const hsize_t *point, void *operator_data)

Callback for H5Diterate()

Parameters
[in,out]elemPointer to the memory buffer containing the current dataset element
[in]type_idDatatype identifier of the elements stored in elem
[in]ndimNumber of dimensions for the point array
[in]pointArray containing the location of the element within the original dataspace
[in,out]operator_dataPointer to any user-defined data associated with the operation
Returns
  • Zero causes the iterator to continue, returning zero when the iteration is complete.
  • A positive value causes the iterator to immediately return that positive value, indicating short-circuit success.
  • A negative value causes the iterator to immediately return that value, indicating failure.

◆ H5D_scatter_func_t

typedef herr_t(* H5D_scatter_func_t) (const void **src_buf, size_t *src_buf_bytes_used, void *op_data)

Callback for H5Dscatter()

Parameters
[out]src_bufPointer to the buffer holding the next set of elements to scatter. On entry, the value of where src_buf points to is undefined. The callback function should set src_buf to point to the next set of elements.
[out]src_buf_bytes_usedPointer to the number of valid bytes in src_buf. On entry, the value where src_buf_bytes_used points to is undefined. The callback function should set src_buf_bytes_used to the of valid bytes in src_buf. This number must be a multiple of the datatype size.
[in,out]op_dataUser-defined pointer to data required by the callback function. A pass-through of the op_data pointer provided with the H5Dscatter() function call.
Returns
herr_t

The callback function should always return at least one element in src_buf, and must not return more elements than are remaining to be scattered. This function will be repeatedly called until all elements to be scattered have been returned. The callback function should return zero (0) to indicate success, and a negative value to indicate failure.

Enumeration Type Documentation

◆ H5D_alloc_time_t

Values for the space allocation time property

Enumerator
H5D_ALLOC_TIME_ERROR 

Error

H5D_ALLOC_TIME_DEFAULT 

Default (layout dependent)

H5D_ALLOC_TIME_EARLY 

Allocate on creation

H5D_ALLOC_TIME_LATE 

Allocate on first write

H5D_ALLOC_TIME_INCR 

Allocate incrementally (by chunk)

◆ H5D_chunk_index_t

Types of chunk index data structures

Enumerator
H5D_CHUNK_IDX_BTREE 

v1 B-tree index (default)

H5D_CHUNK_IDX_SINGLE 

Single Chunk index (cur dims[]=max dims[]=chunk dims[]; filtered & non-filtered)

H5D_CHUNK_IDX_NONE 

Implicit: No Index (H5D_ALLOC_TIME_EARLY, non-filtered, fixed dims)

H5D_CHUNK_IDX_FARRAY 

Fixed array (for 0 unlimited dims)

H5D_CHUNK_IDX_EARRAY 

Extensible array (for 1 unlimited dim)

H5D_CHUNK_IDX_BT2 

v2 B-tree index (for >1 unlimited dims)

H5D_CHUNK_IDX_NTYPES 

This one must be last!

◆ H5D_fill_time_t

Values for time of writing fill value property

Enumerator
H5D_FILL_TIME_ERROR 

Error

H5D_FILL_TIME_ALLOC 

Fill on allocation

H5D_FILL_TIME_NEVER 

Never write fill values

H5D_FILL_TIME_IFSET 

Fill if fill-value was set

◆ H5D_fill_value_t

Values for fill value status

Enumerator
H5D_FILL_VALUE_ERROR 

Error

H5D_FILL_VALUE_UNDEFINED 

No fill value defined

H5D_FILL_VALUE_DEFAULT 

Default fill-value

H5D_FILL_VALUE_USER_DEFINED 

User-defined fill-value

◆ H5D_layout_t

Values for the H5D_LAYOUT property

Enumerator
H5D_LAYOUT_ERROR 

error

H5D_COMPACT 

raw data is small (< 64KB)

H5D_CONTIGUOUS 

contiguous layout

H5D_CHUNKED 

chunked or tiled layout

H5D_VIRTUAL 

actual data is stored in other datasets

H5D_NLAYOUTS 

this one must be last!

◆ H5D_space_status_t

Values for the status of space allocation

Enumerator
H5D_SPACE_STATUS_ERROR 

Error

H5D_SPACE_STATUS_NOT_ALLOCATED 

Space has not been allocated for this dataset.

H5D_SPACE_STATUS_PART_ALLOCATED 

Space has been partially allocated for this dataset. (Used only for datasets with chunked storage.)

H5D_SPACE_STATUS_ALLOCATED 

Space has been allocated for this dataset.

◆ H5D_vds_view_t

Values for VDS bounds option

Enumerator
H5D_VDS_ERROR 

Error

H5D_VDS_FIRST_MISSING 

Include all data before the first missing mapped data

H5D_VDS_LAST_AVAILABLE 

Include all available mapped data