Describes HDF5 Release 1.10.
and the Board of Trustees of the University of Illinois
The C Interfaces:
| * Use of these functions is deprecated in Release 1.8.0. | ||||
H5Dclose(hid_t dataset_id
)
H5Dclose ends access to a dataset specified by
dataset_id and releases resources used by it.
Further use of the dataset identifier is illegal in calls to
the dataset API.
hid_t dataset_id |
IN: Identifier of the dataset to close access to. |
SUBROUTINE h5dclose_f(dset_id, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dclose_f
H5Dcreate(
hid_t loc_id,
const char *name,
hid_t type_id,
hid_t space_id,
hid_t dcpl_id
)
H5Dcreate(
hid_t loc_id,
const char *name,
hid_t dtype_id,
hid_t space_id,
hid_t lcpl_id,
hid_t dcpl_id,
hid_t dapl_id
)
H5Dcreate is a macro that is mapped to either
H5Dcreate1 or
H5Dcreate2,
depending on the needs of the application.
Such macros are provided to facilitate application compatibility. Their use and mappings are fully described in “API Compatibility Macros in HDF5”; we urge you to read that document closely.
When both the HDF5 Library and the application are built and
installed with no specific compatibility flags,
H5Dcreate is mapped to the most recent version of
the function, currently
H5Dcreate2.
If the library and/or application is compiled for Release 1.6
emulation, H5Dcreate will be mapped to
H5Dcreate1.
Function-specific flags are available to override these settings
on a function-by-function basis when the application is compiled.
Specific compile-time compatibility flags and the resulting mappings are as follows:
| Compatibility setting | H5Dcreate mapping |
|---|---|
Global settings |
|
| No compatibility flag | H5Dcreate2 |
| Enable deprecated symbols | H5Dcreate2 |
| Disable deprecated symbols | H5Dcreate2 |
Emulate Release 1.6 interface |
H5Dcreate1 |
Function-level macros |
|
H5Dcreate_vers = 2 |
H5Dcreate2 |
H5Dcreate_vers = 1 |
H5Dcreate1 |
A dataset created with this macro should be closed with
H5Dclose when the dataset is no longer needed so that
resource leaks will not develop.
SUBROUTINE h5dcreate_f(loc_id, name, type_id, space_id, dset_id, &
hdferr, dcpl_id, lcpl_id, dapl_id)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: loc_id ! File or group identifier
CHARACTER(LEN=*), INTENT(IN) :: name ! Name of the dataset
INTEGER(HID_T), INTENT(IN) :: type_id ! Datatype identifier
INTEGER(HID_T), INTENT(IN) :: space_id ! Dataspace identifier
INTEGER(HID_T), INTENT(OUT) :: dset_id ! Dataset identifier
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: dcpl_id
! Dataset creation property list
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: lcpl_id
! Link creation property list
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: dapl_id
! Dataset access property list
END SUBROUTINE h5dcreate_f
| Release | C |
| 1.8.0 | The function
H5Dcreate renamed to H5Dcreate1
and deprecated in this release.
The macro H5Dcreate
and the function H5Dcreate2
introduced in this release. |
H5Dcreate1(
hid_t loc_id,
const char *name,
hid_t type_id,
hid_t space_id,
hid_t dcpl_id
)
H5Dcreate2
or the macro
H5Dcreate.
H5Dcreate1 creates a data set with a name,
name, in the file or in the group specified by
the identifier loc_id.
name can be a relative path based at loc_id
or an absolute path from the root of the file.
Use of this function requires that any intermediate groups
specified in the path already exist.
The dataset’s datatype and dataspace are specified by
type_id and space_id, respectively.
These are the datatype and dataspace of the dataset as it will
exist in the file, which may differ from the datatype and dataspace
in application memory.
Names within a group are unique:
H5Dcreate1 will return an error if a link with
the name specified in name already exists at the
location specified in loc_id.
As is the case for any object in a group, the length of a dataset name is not limited.
dcpl_id is an H5P_DATASET_CREATE
property list created with H5Pcreate1 and
initialized with various property list functions described in
“H5P: Property List Interface.”
H5Dcreate and H5Dcreate_anon
return an error if the dataset’s datatype
includes a variable-length (VL) datatype and the fill value
is undefined, i.e., set to NULL in the
dataset creation property list.
Such a VL datatype may be directly included,
indirectly included as part of a compound or array datatype, or
indirectly included as part of a nested compound or array datatype.
H5Dcreate and H5Dcreate_anon return
a dataset identifier for success or a negative value for failure.
The dataset identifier should eventually be closed by
calling H5Dclose to release resources it uses.
See H5Dcreate_anon
for discussion of the differences between H5Dcreate
and H5Dcreate_anon.
Fill values and space allocation:
The HDF5 library provides flexible means
of specifying a fill value,
of specifying when space will be allocated for a dataset, and
of specifying when fill values will be written to a dataset.
For further information on these topics, see the document
Fill Value and Dataset Storage Allocation Issues in HDF5
and the descriptions of the following HDF5 functions in this
HDF5 Reference Manual:
H5DfillH5Pset_fill_valueH5Pget_fill_valueH5Pfill_value_defined
|
H5Pset_fill_timeH5Pget_fill_timeH5Pset_alloc_timeH5Pget_alloc_time
|
H5Dcreate and H5Dcreate_anon
can fail if there has been an error
in setting up an element of the dataset creation property list.
In such cases, each item in the property list must be examined
to ensure that the setup satisfies all required conditions.
This problem is most likely to occur with the use of filters.
For example, either function will fail without a meaningful explanation if the following conditions exist simultaneously:
pixels_per_block
is set to an inappropriate value.
In such a case, one would refer to the description of
H5Pset_szip,
looking for any conditions or requirements that might affect the
local computing environment.
hid_t loc_id |
IN: Identifier of the file or group within which to create the dataset. |
const char * name |
IN: The name of the dataset to create. |
hid_t type_id |
IN: Identifier of the datatype to use when creating the dataset. |
hid_t space_id |
IN: Identifier of the dataspace to use when creating the dataset. |
hid_t dcpl_id |
IN: Dataset creation property list identifier. |
H5Dcreate.
| Release | C |
| 1.8.0 |
Function H5Dcreate renamed to
H5Dcreate1 and deprecated
in this release. |
H5Dcreate2(
hid_t loc_id,
const char *name,
hid_t dtype_id,
hid_t space_id,
hid_t lcpl_id,
hid_t dcpl_id,
hid_t dapl_id
)
H5Dcreate2 creates a new dataset named
name at the location specified by
loc_id, and associates constant and initial
persistent properties with that dataset, including
dtype_id, the datatype of each data element
as stored in the file;
space_id, the dataspace of the dataset;
and other initial properties as defined in the dataset
creation property and access property lists,
dcpl_id and dapl_id, respectively.
Once created, the dataset is opened for access.
loc_id may be a file identifier,
or a group identifier within that file.
name may be either an absolute path in the file
or a relative path from loc_id naming the dataset.
If dtype_id is either a fixed-length or
variable-length string, it is important to set the string length
when defining the datatype.
String datatypes are derived from H5T_C_S1
(or H5T_FORTRAN_S1 for Fortran codes),
which defaults to 1 character in size.
See H5Tset_size
and “Creating
variable-length string datatypes.”
If dtype_id is a committed datatype, and if the file location
associated with the committed datatype is different from the file location
where the dataset will be created, the datatype is copied and converted to a
transient type.
The link creation property list, lcpl_id,
governs creation of the link(s) by which the new dataset
is accessed and the creation of any intermediate groups that
may be missing.
The datatype and dataspace properties and the dataset creation and access property lists are attached to the dataset, so the caller may derive new datatypes, dataspaces, and creation and access properties from the old ones and reuse them in calls to create additional datasets.
Once created, the dataset is ready to receive raw data. Immediately attempting to read raw data from the dataset will probably return the fill value.
To conserve and release resources, the dataset should be closed when access is no longer required.
hid_t loc_id
|
IN: Location identifier |
const char *name
|
IN: Dataset name |
hid_t dtype_id
|
IN: Datatype identifier |
hid_t space_id
|
IN: Dataspace identifier |
hid_t lcpl_id
|
IN: Link creation property list |
hid_t dcpl_id
|
IN: Dataset creation property list |
hid_t dapl_id
|
IN: Dataset access property list |
H5Dcreate.
H5Tset_size
| Release | Change |
| 1.8.0 | C function introduced in this release. |
H5Dcreate_anon(
hid_t loc_id,
hid_t type_id,
hid_t space_id,
hid_t dcpl_id,
hid_t dapl_id
)
H5Dcreate_anon creates a dataset in the file
specified by loc_id.
loc_id may be a file identifier or a group identifier
within that file.
The dataset’s datatype and dataspace are specified by
type_id and space_id, respectively.
These are the datatype and dataspace of the dataset as it will
exist in the file, which may differ from the datatype and dataspace
in application memory.
Dataset creation properties are specified in the
dataset creation property list dcpl_id.
Dataset access properties are specified in the
dataset access property list dapl_id.
H5Dcreate_anon returns a new dataset identifier.
Using this identifier, the new dataset must be linked
into the HDF5 file structure with
H5Olink
or it will be deleted from the file when the file is closed.
See H5Dcreate
for further details and considerations on the use of
H5Dcreate and H5Dcreate_anon.
The differences between this function and
H5Dcreate are as follows:
H5Dcreate_anon explicitly includes a dataset
access property list.
H5Dcreate always uses default dataset access
properties.
H5Dcreate_anon neither provides the new
dataset’s name nor links it into the HDF5 file structure;
those actions must be performed separately through a call to
H5Olink,
which offers greater control over linking.
A dataset created with this function should be closed with
H5Dclose when the dataset is no longer needed so that
resource leaks will not develop.
hid_t loc_id |
IN: Identifier of the file or group within which to create the dataset. |
hid_t type_id |
IN: Identifier of the datatype to use when creating the dataset. |
hid_t space_id |
IN: Identifier of the dataspace to use when creating the dataset. |
hid_t dcpl_id |
IN: Dataset creation property list identifier. |
hid_t dapl_id |
IN: Dataset access property list identifier. |
SUBROUTINE h5dcreate_anon_f(loc_id, type_id, space_id, dset_id, hdferr, &
dcpl_id, dapl_id)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: loc_id ! File or group identifier.
INTEGER(HID_T), INTENT(IN) :: type_id ! Datatype identifier.
INTEGER(HID_T), INTENT(IN) :: space_id ! Dataspace identifier.
INTEGER(HID_T), INTENT(OUT) :: dset_id ! Dataset identifier.
INTEGER, INTENT(OUT) :: hdferr ! Error code.
! 0 on success and -1 on failure
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: dcpl_id
! Dataset creation property list
! identifier.
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: dapl_id
! Dataset access property list
! identifier.
END SUBROUTINE h5dcreate_anon_f
H5OlinkH5Dcreate
| Release | C |
| 1.8.0 | Function introduced in this release. |
H5Dextend(
hid_t dataset_id,
const hsize_t size[]
)
H5Dset_extent.
H5Dextend verifies that the dataset is at least of size
size, extending it if necessary.
The dimensionality of size is the same as that of
the dataspace of the dataset being changed.
This function can be applied to the following datasets:
maxdims (see
H5Screate_simple)
Space on disk is immediately allocated for the new dataset extent
if the dataset’s space allocation time is set to
H5D_ALLOC_TIME_EARLY.
Fill values will be written to the dataset if the dataset’s
fill time is set to H5D_FILL_TIME_IFSET or
H5D_FILL_TIME_ALLOC.
(See
H5Pset_fill_time
and
H5Pset_alloc_time.)
This function ensures that the dataset dimensions are of
at least the sizes specified in size.
The function
H5Dset_extent
must be used if the dataset dimension sizes are are to be
reduced.
hid_t dataset_id |
IN: Identifier of the dataset. |
const hsize_t size[] |
IN: Array containing the new magnitude of each dimension. |
SUBROUTINE h5dextend_f(dataset_id, size, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dataset_id ! Dataset identifier
INTEGER(HSIZE_T), DIMENSION(*), INTENT(IN) :: size
! Array containing
! dimensions' sizes
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dextend_f
| Release | C |
| 1.8.0 | Function deprecated in this release. |
| 1.8.0 |
Parameter size syntax changed
to 'const hsize_t size[]'
in this release.
|
H5Dfill(
const void *fill,
hid_t fill_type_id,
void *buf,
hid_t buf_type_id,
hid_t space_id
)
H5Dfill explicitly fills
the dataspace selection in memory, space_id,
with the fill value specified in fill.
If fill is NULL,
a fill value of 0 (zero) is used.
fill_type_id specifies the datatype
of the fill value.
buf specifies the buffer in which
the dataspace elements will be written.
buf_type_id specifies the datatype of
those data elements.
Note that if the fill value datatype differs from the memory buffer datatype, the fill value will be converted to the memory buffer datatype before filling the selection.
const void *fill |
IN: Pointer to the fill value to be used. |
hid_t fill_type_id |
IN: Fill value datatype identifier. |
void *buf |
IN/OUT: Pointer to the memory buffer containing the selection to be filled. |
hid_t buf_type_id |
IN: Datatype of dataspace elements to be filled. |
hid_t space_id |
IN: Dataspace describing memory buffer and containing the selection to be filled. |
SUBROUTINE h5dfill_f(fill_value, space_id, buf, hdferr)
IMPLICIT NONE
TYPE, INTENET(IN) :: fill_value ! Fill value; may be have one of the
! following types:
! INTEGER, REAL, DOUBLE PRECISION,
! CHARACTER
INTEGER(HID_T), INTENT(IN) :: space_id ! Memory dataspace selection identifier
TYPE, DIMENSION(*) :: buf ! Memory buffer to fill in; must have
! the same datatype as fill value
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dfill_f
herr_t H5Dflush(hid_t dataset_id)
H5Dflush causes all buffers associated with a
dataset to be immediately flushed to disk without removing the
data from the cache.
H5Dflush flushes the internal HDF5 buffers and then
asks the operating system (the OS) to flush the system buffers for the
open files. After that, the OS is responsible for ensuring that
the data is actually flushed to disk.
hid_t dataset_id |
IN: Identifier of the dataset to be flushed. |
| Release | Change |
| 1.10.0 | C function introduced with this release. |
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,
)
H5Dgather retrieves data from a selection within the
supplied buffer src_buf and passes it to the supplied
callback function op in a contiguous form.
src_space_id is a dataspace which defines the extent
of src_buf and the selection within it to gather the
data from.
type_id is the datatype of the data to be gathered in
both the source and destination buffers.
src_buf must be at least as large as the number of
elements in the extent of src_space_id times the size
in bytes of type_id.
The data is gathered into dst_buf, which needs to be
large enough to hold all the data if the callback function
op is not provided.
If no callback function is provided, H5Dgather
simply gathers the data into dst_buf and returns.
If a callback function is provided, H5Dgather repeatedly
gathers up to dst_buf_size bytes op to
process the serialized data.
The prototype of the callback function op is as follows
(as defined in the source code file H5Dpublic.h):
(*H5D_gather_func_t)(
const void * dst_buf,
size_t dst_buf_bytes_used,
void *op_data)
The parameters of this callback function have the following values or meanings:
|
dst_buf
|
Pointer 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.
|
|
dst_buf_bytes_used
|
Pointer to the number of valid bytes in dst_buf.
This number must be a multiple of the datatype size.
|
|
op_data
|
User-defined pointer to data required by the callback function;
a pass-through of the op_data pointer provided
with the H5Dgather function call.
|
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.
If a C routine that takes a function pointer as an argument is called from within C++ code, the C routine should be returned from normally.
Examples of this kind of routine include callbacks such as
H5Pset_elink_cb and H5Pset_type_conv_cb
and functions such as H5Tconvert and
H5Ewalk2.
Exiting the routine in its normal fashion allows the HDF5 C Library to clean up its work properly. In other words, if the C++ application jumps out of the routine back to the C++ “catch” statement, the The HDF5 C Library is not given the opportunity to close any temporary data structures that were set up when the routine was called. The C++ application should save some state as the routine is started so that any problem that occurs might be diagnosed.
hid_t src_space_id
|
IN: Identifier for the dataspace describing both the dimensions of the source buffer and the selection within the source buffer to gather data from. |
const void *src_buf
|
IN: Source buffer which the data will be gathered from. |
hid_t type_id
|
IN: Identifier for the datatype describing the data in both the source and definition buffers. This is only used to calculate the element size. |
size_t dst_buf_size
|
IN: Size in bytes of dst_buf.
|
void *dst_buf
|
OUT: Destination buffer where the gathered data will be placed. |
H5D_gather_func_t op
|
IN: Callback function which handles the gathered
data.
Optional if dst_buf is large enough to hold all of
the gathered data; required otherwise.
|
void * op_data
|
IN: User-defined pointer to data required by
op.
|
H5Dscatter
| Release | Change |
| 1.8.11 | C function introduced. |
H5Dget_access_plist(
hid_t dataset_id
)
H5Dget_access_plist
returns a copy of the dataset access property list used to open the
specified dataset. Modifications to the returned property list will have
no effect on the dataset it was retrieved from.
The chunk cache parameters in the returned property lists will be those used by the dataset. If the properties in the file access property list were used to determine the dataset's chunk cache configuration, then those properties will be present in the returned dataset access property list. If the dataset does not use a chunked layout, then the chunk cache properties will be set to the default. The chunk cache properties in the returned list are considered to be “set”, and any use of this list will override the corresponding properties in the file’s file access property list.
All link access properties in the returned list will be set to the default values.
The access property list identifier should be released with
H5Pclose when the identifier is no longer needed
so that resource leaks will not develop.
hid_t dataset_id
| IN: Identifier of the dataset to get access property list of. |
dataset_id into dapl_id:
dapl_id = H5Dget_access_plist(dataset_id);
| Release | Change |
| 1.8.3 | C function introduced in this release. |
H5Dget_create_plist(hid_t dataset_id
)H5Dget_create_plist returns an identifier for a
copy of the dataset creation property list associated
with the dataset specified by dataset_id.
The creation property list identifier should be released with
H5Pclose.
hid_t dataset_id |
IN: Identifier of the dataset to query. |
SUBROUTINE h5dget_create_plist_f(dataset_id, creation_id, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dataset_id ! Dataset identifier
INTEGER(HID_T), INTENT(OUT) :: creation_id ! Dataset creation
! property list identifier
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dget_create_plist_f
H5Dget_offset(
hid_t dset_id
)
H5Dget_offset returns the address in the file
of the dataset dset_id.
That address is expressed as the offset in bytes from
the beginning of the file.
hid_t dset_id |
IN: Dataset identifier. |
HADDR_UNDEF, a negative value.
| Release | C |
| 1.6.0 | Function introduced in this release. |
H5Dget_space(
hid_t dataset_id
)
H5Dget_space makes a copy of the dataspace of the
dataset specified by dataset_id.
The function returns an identifier for the new copy of the dataspace.
A dataspace identifier returned from this function
should be released with H5Sclose when the identifier
is no longer needed so that resource leaks will not occur.
hid_t dataset_id |
IN: Identifier of the dataset to query. |
SUBROUTINE h5dget_space_f(dataset_id, dataspace_id, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dataset_id ! Dataset identifier
INTEGER(HID_T), INTENT(OUT) :: dataspace_id ! Dataspace identifier
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dget_space_f
H5Dget_space_status(hid_t dset_id,
H5D_space_status_t *status)
H5Dget_space_status determines whether space has been
allocated for the dataset dset_id.
Space allocation status is returned in status,
which will have one of the following values:
H5D_SPACE_STATUS_NOT_ALLOCATED
| Space has not been allocated for this dataset. | |
H5D_SPACE_STATUS_ALLOCATED
| Space has 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.) |
hid_t dset_id |
IN: Identifier of the dataset to query. |
H5D_space_status_t *status |
OUT: Space allocation status. |
SUBROUTINE h5dget_space_status_f(dset_id, flag, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER, INTENET(OUT) :: flag ! Status flag ; possible values:
! H5D_SPACE_STS_ERROR_F
! H5D_SPACE_STS_NOT_ALLOCATED_F
! H5D_SPACE_STS_PART_ALLOCATED_F
! H5D_SPACE_STS_ALLOCATED_F
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dget_space_status_f
| Release | C |
| 1.6.0 | Function introduced in this release. |
H5Dget_storage_size(
hid_t dataset_id
)
H5Dget_storage_size returns the amount of storage,
in bytes, that is allocated in the file for the raw data of the
dataset specified by dataset_id.
Note that the amount of storage in this case is the storage allocated in the written file, which will typically differ from the space required to hold a dataset in working memory.
H5Dget_storage_size returns the total space required
to store the compressed chunks.
H5Dget_storage_size reports only the space required
to store the data; the report does not include any metadata.
The return value may be zero if no data has been stored.
H5Dget_storage_size is not generally
an appropriate function to use when
determining the amount of memory required to work with a dataset.
In such circumstances, you must determine the number of data points
in a dataset and the size of an individual data element.
H5Sget_simple_extent_npoints and
H5Tget_size
can be used to get that information.
hid_t dataset_id |
IN: Identifier of the dataset to query. |
Note that H5Dget_storage_size does not differentiate between
0 (zero), the value returned for the storage size of a
dataset with no stored values, and
0 (zero), the value returned to indicate an error.
SUBROUTINE h5dget_storage_size_f(dset_id, size, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER(HSIZE_T), INTENT(OUT) :: size ! Amount of storage required
! for dataset
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dget_storage_size_f
| Release | Fortran90 |
| 1.4.5 | Function introduced in this release. |
H5Dget_type(hid_t dataset_id
)
H5Dget_type returns an identifier for a copy of the
datatype for a dataset.
The datatype should be released with the H5Tclose function.
If a dataset has a named datatype, then an identifier to the opened datatype is returned. Otherwise, the returned datatype is read-only. If atomization of the datatype fails, then the datatype is closed.
A datatype identifier returned from this function
should be released with H5Tclose when the identifier
is no longer needed so that resource leaks will not occur.
hid_t dataset_id |
IN: Identifier of the dataset to query. |
SUBROUTINE h5dget_type_f(dataset_id, datatype_id, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dataset_id ! Dataset identifier
INTEGER(HID_T), INTENT(OUT) :: datatype_id ! Datatype identifier
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dget_type_f
H5Diterate(
void *buf,
hid_t type_id,
hid_t space_id,
H5D_operator_t operator,
void *operator_data
)
H5Diterate iterates over all the data elements in the
memory buffer buf, executing the callback function
operator once for each such data element.
The protoype of the callback function operator
is as follows
(as defined in the source code file H5Lpublic.h):
herr_t (*H5D_operator_t)(void elem,
hid_t type_id,
unsigned ndim,
const hsize_t *point,
void *operator_data)
The parameters of this callback function have the following values or meanings:
|
void *elem |
IN/OUT: Pointer to the memory buffer containing the current data element | |
hid_t type_id |
IN: Datatype identifier for the elements stored in
elem |
||
unsigned ndim |
IN: Number of dimensions for the point
array |
||
const hsize_t *point |
IN: Array containing the location of the element within the original dataspace | ||
void *operator_data |
IN/OUT: Pointer to any user-defined data associated with the operation |
The possible return values from the callback function, and the effect of each, are as follows:
The H5Diterate operator_data parameter
is a user-defined pointer to the data required to process
dataset elements in the course of the iteration.
If operator needs to pass data back to the application,
such data can be returned in this same buffer.
This pointer is passed back to each step of the iteration in the
operator callback function’s
operator_data parameter.
Unlike other HDF5 iterators, this iteration operation cannot
be restarted at the point of exit;
a second H5Diterate call will always restart
at the beginning.
void *buf |
IN/OUT: Pointer to the buffer in memory containing the elements to iterate over |
hid_t type_id |
IN: Datatype identifier for the elements stored
in buf |
hid_t space_id |
IN: Dataspace identifier for buf
|
H5D_operator_t operator |
IN: Function pointer to the routine to be called
for each element in buf iterated over |
void *operator_data |
IN/OUT: Pointer to any user-defined data associated with the operation |
| Release | C |
| 1.6.4 |
The following changes occured in the
H5D_operator_t function in this release:ndim parameter type was changed to
unsignedpoint parameter type was changed to
const hsize_t |
H5Dopen(
hid_t loc_id,
const char *name
)
H5Dopen(
hid_t loc_id,
const char *name,
hid_t dapl_id
)
H5Dopen is a macro that is mapped to either
H5Dopen1 or
H5Dopen2,
depending on the needs of the application.
Such macros are provided to facilitate application compatibility. Their use and mappings are fully described in “API Compatibility Macros in HDF5”; we urge you to read that document closely.
When both the HDF5 Library and the application are built and
installed with no specific compatibility flags,
H5Dopen is mapped to the most recent version of
the function, currently
H5Dopen2.
If the library and/or application is compiled for Release 1.6
emulation, H5Dopen will be mapped to
H5Dopen1.
Function-specific flags are available to override these settings
on a function-by-function basis when the application is compiled.
Specific compile-time compatibility flags and the resulting mappings are as follows:
| Compatibility setting | H5Dopen mapping |
|---|---|
Global settings |
|
| No compatibility flag | H5Dopen2 |
| Enable deprecated symbols | H5Dopen2 |
| Disable deprecated symbols | H5Dopen2 |
Emulate Release 1.6 interface |
H5Dopen1 |
Function-level macros |
|
H5Dopen_vers = 2 |
H5Dopen2 |
H5Dopen_vers = 1 |
H5Dopen1 |
A dataset opened with this macro should be closed with
H5Dclose when the dataset is no longer needed
so that resource leaks will not develop.
SUBROUTINE h5dopen_f(loc_id, name, dset_id, hdferr, dapl_id)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: loc_id ! File or group identifier
CHARACTER(LEN=*), INTENT(IN) :: name ! Name of the dataset
INTEGER(HID_T), INTENT(OUT) :: dset_id ! Dataset identifier
INTEGER, INTENT(OUT) :: hdferr ! Error code:
! 0 on success and -1 on failure
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: dapl_id
! Dataset access property list
END SUBROUTINE h5dopen_f
| Release | C |
| 1.8.0 | The function
H5Dopen renamed to H5Dopen1
and deprecated in this release.
The macro H5Dopen
and the function H5Dopen2
introduced in this release. |
H5Dopen1(
hid_t loc_id,
const char *name
)
H5Dopen2
or the macro
H5Dopen.
H5Dopen1 opens an existing dataset for access in the file
or group specified in loc_id. name is
a dataset name and is used to identify the dataset in the file.
A dataset opened with this function should be closed with
H5Dclose when the dataset is no longer needed
so that resource leaks will not develop.
hid_t loc_id |
IN: Identifier of the file or group within which the dataset to be accessed will be found. |
const char * name |
IN: The name of the dataset to access. |
H5Dopen.
| Release | C |
| 1.8.0 |
Function H5Dopen renamed to
H5Dopen1 and deprecated
in this release. |
H5Dopen2(
hid_t loc_id,
const char *name,
hid_t dapl_id
)
H5Dopen2 opens the existing dataset specified by
a location identifier and name, loc_id
and name, respectively.
The dataset access property list, dapl_id,
provides information regarding access to the dataset.
To conserve and release resources, the dataset should be closed when access is no longer required.
hid_t loc_id
|
IN: Location identifier |
const char *name
|
IN: Dataset name |
hid_t dapl_id
|
IN: Dataset access property list |
H5Dopen.
| Release | C |
| 1.8.0 | Function introduced in this release. |
H5Dread(
hid_t dataset_id,
hid_t mem_type_id,
hid_t mem_space_id,
hid_t file_space_id,
hid_t xfer_plist_id,
void * buf
)
H5Dread reads a (partial) dataset, specified by its
identifier dataset_id, from the
file into an application memory buffer buf.
Data transfer properties are defined by the argument
xfer_plist_id.
The memory datatype of the (partial) dataset is identified by
the identifier mem_type_id.
The part of the dataset to read is defined by
mem_space_id and file_space_id.
file_space_id is used to specify only the selection within
the file dataset's dataspace.
Any dataspace specified in file_space_id
is ignored by the library and the dataset's dataspace is always used.
file_space_id can be the constant H5S_ALL.
which indicates that the entire file dataspace, as defined by the
current dimensions of the dataset, is to be selected.
mem_space_id is used to specify both the memory dataspace
and the selection within that dataspace.
mem_space_id can be the constant H5S_ALL,
in which case the file dataspace is used for the memory dataspace and
the selection defined with file_space_id is used for the
selection within that dataspace.
If raw data storage space has not been allocated for the dataset
and a fill value has been defined, the returned buffer buf
is filled with the fill value.
The behavior of the library for the various combinations of valid
dataspace identifiers and H5S_ALL for the mem_space_id
and the file_space_id parameters is described below:
mem_space_id
|
file_space_id
|
Behavior |
|---|---|---|
| valid dataspace identifier | valid dataspace identifier |
mem_space_id specifies the memory dataspace and the
selection within it.
file_space_id specifies the selection within the file
dataset's dataspace.
|
H5S_ALL
|
valid dataspace identifier |
The file dataset's dataspace is used for the memory dataspace and the
selection specified with file_space_id specifies the
selection within it.
The combination of the file dataset's dataspace and the selection from
file_space_id is used for memory also.
|
| valid dataspace identifier |
H5S_ALL
|
mem_space_id specifies the memory dataspace and the
selection within it.
The selection within the file dataset's dataspace is set to the "all"
selection.
|
H5S_ALL
|
H5S_ALL
|
The file dataset's dataspace is used for the memory dataspace and the selection within the memory dataspace is set to the "all" selection. The selection within the file dataset's dataspace is set to the "all" selection. |
Setting an H5S_ALL selection indicates that the entire dataspace, as
defined by the current dimensions of a dataspace, will be selected.
The number of elements selected in the memory dataspace must match the
number of elements selected in the file dataspace.
xfer_plist_id can be the constant H5P_DEFAULT.
in which case the default data transfer properties are used.
Datatype conversion takes place at the time of a read or write and is automatic. See the “Data Transfer: Datatype Conversion and Selection” section in the “HDF5 Datatypes” chapter of the HDF5 User’s Guide for a discussion of data conversion.
hid_t dataset_id |
IN: Identifier of the dataset read from. |
hid_t mem_type_id |
IN: Identifier of the memory datatype. |
hid_t mem_space_id |
IN: Identifier of the memory dataspace. |
hid_t file_space_id |
IN: Identifier of the dataset's dataspace in the file. |
hid_t xfer_plist_id |
IN: Identifier of a transfer property list for this I/O operation. |
void * buf |
OUT: Buffer to receive data read from file. |
H5Dread.
Instead, that functionality is provided by two Fortran90 subroutines:
h5dread_f
|
Purpose: Reads data other than variable-length data. | |
h5dread_vl_f
| Purpose: Reads variable-length data. |
SUBROUTINE h5dread_f(dset_id, mem_type_id, buf, dims, hdferr, &
mem_space_id, file_space_id, xfer_prp)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER(HID_T), INTENT(IN) :: mem_type_id ! Memory datatype identifier
TYPE, INTENT(INOUT) :: buf ! Data buffer; may be a scalar
! or an array
DIMENSION(*), INTEGER(HSIZE_T), INTENT(IN) :: dims
! Array to hold corresponding
! dimension sizes of data
! buffer buf
! dim(k) has value of the k-th
! dimension of buffer buf
! Values are ignored if buf is
! a scalar
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: mem_space_id
! Memory dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: file_space_id
! File dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: xfer_prp
! Transfer property list identifier
! Default value is H5P_DEFAULT_F
END SUBROUTINE h5dread_f
SUBROUTINE h5dread_vl_f(dset_id, mem_type_id, buf, dims, len, hdferr, &
mem_space_id, file_space_id, xfer_prp)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER(HID_T), INTENT(IN) :: mem_type_id ! Memory datatype identifier
TYPE, INTENT(INOUT), & DIMENSION(dims(1),dims(2)) :: buf
! Data buffer; may be a scalar
! or an array
! TYPE must be one of the following
! INTEGER
! REAL
! CHARACTER
INTEGER(HSIZE_T), INTENT(IN), DIMENSION(2) :: dims
! Array to hold corresponding
! dimension sizes of data
! buffer buf
! dim(k) has value of the k-th
! dimension of buffer buf
! Values are ignored if buf is
! a scalar
INTEGER(SIZE_T), INTENT(INOUT), DIMENSION(*) :: len
! Array to store length of
! each element
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: mem_space_id
! Memory dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: file_space_id
! File dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: xfer_prp
! Transfer property list identifier
! Default value is H5P_DEFAULT_F
END SUBROUTINE h5dread_vl_f
SUBROUTINE h5dread_f(dset_id, mem_type_id, buf, hdferr, &
mem_space_id, file_space_id, xfer_prp)
INTEGER(HID_T), INTENT(IN) :: dset_id
INTEGER(HID_T), INTENT(IN) :: mem_type_id
TYPE(C_PTR) , INTENT(INOUT) :: buf
INTEGER , INTENT(OUT) :: hdferr
INTEGER(HID_T), INTENT(IN) , OPTIONAL :: mem_space_id
INTEGER(HID_T), INTENT(IN) , OPTIONAL :: file_space_id
INTEGER(HID_T), INTENT(IN) , OPTIONAL :: xfer_prp
Inputs:
dset_id - Identifier of the dataset read from. mem_type_id - Identifier of the memory datatype.
Outputs:
buf - Buffer to receive data read from file. hdferr - Returns 0 if successful and -1 if fails
Optional parameters:
mem_space_id - Identifier of the memory dataspace. file_space_id - Identifier of the dataset's dataspace in the file. xfer_prp - Identifier of a transfer property list for this I/O operation.
| Release | Change |
| 1.8.8 | Fortran updated to Fortran2003. |
| 1.4.2 |
dims parameter added in Fortran interface. |
herr_t H5Drefresh(hid_t dataset_id)
H5Drefresh causes all buffers associated with a
dataset to be cleared and immediately re-loaded with updated
contents from disk.
hid_t dataset_id |
IN: Identifier of the dataset to be refreshed. |
| Release | Change |
| 1.10.0 | C function introduced with this release. |
H5Dscatter(
H5D_scatter_func_t op,
void * op_data,
hid_t type_id,
hid_t dst_space_id,
void *dst_buf
)
H5Dscatter retrieves data from the supplied callback
op and scatters it to the supplied buffer
dst_buf in a manner similar to data being written to a
dataset.
dst_space_id is a dataspace which defines the extent of
dst_buf and the selection within it to scatter the data
to.
type_id is the datatype of the data to be scattered in
both the source and destination buffers.
dst_buf must be at least as large as the number of
elements in the extent of dst_space_id times the size
in bytes of type_id.
To retrieve the data to be scattered, H5Dscatter
repeatedly calls op, which should return a valid source
buffer, until enough data to fill the selection has been retrieved.
The prototype of the callback function op is as follows
(as defined in the source code file H5Dpublic.h):
(*H5D_scatter_func_t)(
const void ** src_buf/*out*/,
size_t *src_buf_bytes_used/*out*/,
void *op_data)
The parameters of this callback function have the following values or meanings:
|
src_buf
|
Pointer to the buffer holding the next set of elements
to scatter.
On entry, the value of *src_buf is undefined.
The callback function should set *src_buf
to point to the next set of elements.
|
|
src_buf_bytes_used
|
Pointer to the number of valid bytes in src_buf.
On entry, the value of *src_buf_bytes_used is
undefined.
The callback function should set *src_buf_bytes_used
to the number of valid bytes in src_buf.
This number must be a multiple of the datatype size.
|
|
op_data
|
User-defined pointer to data required by the callback function;
a pass-through of the op_data pointer provided
with the H5Dscatter function call.
|
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.
If a C routine that takes a function pointer as an argument is called from within C++ code, the C routine should be returned from normally.
Examples of this kind of routine include callbacks such as
H5Pset_elink_cb and H5Pset_type_conv_cb
and functions such as H5Tconvert and
H5Ewalk2.
Exiting the routine in its normal fashion allows the HDF5 C Library to clean up its work properly. In other words, if the C++ application jumps out of the routine back to the C++ “catch” statement, the HDF5 C Library is not given the opportunity to close any temporary data structures that were set up when the routine was called. The C++ application should save some state as the routine is started so that any problem that occurs might be diagnosed.
H5D_scatter_func_t op
|
IN: Callback function which provides data to be scattered. |
void *op_data
|
IN: User-defined pointer to data required by
op.
|
hid_t type_id
|
IN: Identifier for the datatype describing the data in both the source and definition buffers. This is only used to calculate the element size. |
hid_t dst_space_id
|
IN: Identifier for the dataspace describing both the dimensions of the destination buffer and the selection within the destination buffer that data will be scattered to. |
void *dst_buf
|
OUT: Destination buffer which the data will be scattered to. |
H5Dgather
| Release | Change |
| 1.8.11 | C function introduced. |
H5Dset_extent(
hid_t dset_id,
const hsize_t size[]
)
H5Dset_extent sets the current dimensions of the
chunked dataset dset_id to the sizes specified in
size.
size is a 1-dimensional array with n elements,
where n is the rank of the dataset’s current dataspace.
This function can be applied to the following datasets:
maxdims
(see
H5Screate_simple)
maxdims
Note that external datasets are always contiguous and can be extended only along the first dimension.
Space on disk is immediately allocated for the new dataset extent
if the dataset’s space allocation time is set to
H5D_ALLOC_TIME_EARLY.
Fill values will be written to the dataset in either of the following situations, but not otherwise:
H5D_FILL_TIME_IFSET and a fill value is defined
(see
H5Pset_fill_time and
H5Pset_fill_value)
H5D_FILL_TIME_ALLOC
(see
H5Pset_alloc_time)
size are smaller than
the dataset’s current dimension sizes,
H5Dset_extent will reduce the dataset’s
dimension sizes to the specified values.
It is the user application’s responsibility to ensure
that valuable data is not lost as
H5Dset_extent does not check.
H5Dset_extent is for use
with chunked datasets only, not contiguous datasets.
H5Dset_extent is called, the dataset’s dataspace
must be refreshed before more data is written to the dataset and
should be refreshed before any further data is read.
This can be accomplished with a call to
H5Dget_space.hid_t dset_id
|
IN: Dataset identifier |
const hsize_t size[]
|
IN: Array containing the new magnitude of each dimension of the dataset. |
SUBROUTINE h5dset_extent_f(dataset_id, size, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dataset_id ! Dataset identifier
INTEGER(HSIZE_T), DIMENSION(*), INTENT(IN) :: size
! Array containing
! dimensions’ sizes
INTEGER, INTENT(OUT) :: hdferr ! Error code:
! 0 on success and -1 on failure
END SUBROUTINE h5dset_extent_f
H5Pset_alloc_time
H5Pset_fill_time
H5Pset_fill_value
| |
H5Screate_simple
H5Dget_space
|
| Release | Change |
| 1.6.0 | Function implemented but not supported in this release. |
| 1.8.0 | Function supported in this release. |
H5Dvlen_get_buf_size(hid_t dataset_id,
hid_t type_id,
hid_t space_id,
hsize_t *size
)
H5Dvlen_get_buf_size determines the number of bytes
required to store the VL data from the dataset, using the
space_id for the selection in the dataset on
disk and the type_id for the memory representation
of the VL data in memory.
*size is returned with the number of bytes
required to store the VL data in memory.
hid_t dataset_id |
IN: Identifier of the dataset to query. |
hid_t type_id |
IN: Datatype identifier. |
hid_t space_id |
IN: Dataspace identifier. |
hsize_t *size |
OUT: The size in bytes of the memory buffer required to store the VL data. |
H5Dvlen_get_buf_size;
corresponding functionality is provided by the FORTRAN function
h5dvlen_get_max_len_f.
SUBROUTINE h5dvlen_get_max_len_f(dset_id, size, hdferr)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER(HID_T), INTENT(IN) :: type_id ! Datatype identifier
INTEGER(HID_T), INTENT(IN) :: space_id ! Dataspace identifier
INTEGER(SIZE_T), INTENT(OUT) :: elem_len ! Maximum length of the element
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
END SUBROUTINE h5dvlen_get_max_len_f
| Release | C | Fortran90 | |
| 1.4.5 | Function introduced in this release. | ||
| 1.4.0 | Function introduced in this release. |
H5Dvlen_reclaim(
hid_t type_id,
hid_t space_id,
hid_t plist_id,
void *buf
)
H5Dvlen_reclaim reclaims memory buffers created to
store VL datatypes.
The type_id must be the datatype stored in the buffer.
The space_id describes the selection for the memory buffer
to free the VL datatypes within.
The plist_id is the dataset transfer property list which
was used for the I/O transfer to create the buffer.
And buf is the pointer to the buffer to be reclaimed.
The VL structures (hvl_t) in the user's buffer are
modified to zero out the VL information after the memory has been
reclaimed.
If nested VL datatypes were used to create the buffer, this routine frees them from the bottom up, releasing all the memory without creating memory leaks.
hid_t type_id |
IN: Identifier of the datatype. |
hid_t space_id |
IN: Identifier of the dataspace. |
hid_t plist_id |
IN: Identifier of the property list used to create the buffer. |
void *buf |
IN: Pointer to the buffer to be reclaimed. |
SUBROUTINE h5dvlen_reclaim_f(type_id, space_id, plist_id, buf, hdferr)
INTEGER(HID_T), INTENT(IN) :: type_id
INTEGER(HID_T), INTENT(IN) :: space_id
INTEGER(HID_T), INTENT(IN) :: plist_id
TYPE(C_PTR) , INTENT(INOUT) :: buf
INTEGER , INTENT(OUT) :: hdferr
Inputs:
type_id - Identifier of the datatype. space_id - Identifier of the dataspace. plist_id - Identifier of the property list used to create the buffer. buf - Pointer to the buffer to be reclaimed.
Outputs:
hdferr - Returns 0 if successful and -1 if fails
| Release | Change |
| 1.8.8 | Fortran interface added. |
H5Dwrite(
hid_t dataset_id,
hid_t mem_type_id,
hid_t mem_space_id,
hid_t file_space_id,
hid_t xfer_plist_id,
const void * buf
)
H5Dwrite writes a (partial) dataset, specified by its
identifier dataset_id, from the
application memory buffer buf into the file.
Data transfer properties are defined by the argument
xfer_plist_id.
The memory datatype of the (partial) dataset is identified by
the identifier mem_type_id.
The part of the dataset to write is defined by
mem_space_id and file_space_id.
If mem_type_id is either a fixed-length or
variable-length string, it is important to set the string length
when defining the datatype.
String datatypes are derived from H5T_C_S1
(or H5T_FORTRAN_S1 for Fortran codes),
which defaults to 1 character in size.
See H5Tset_size
and “Creating
variable-length string datatypes.”
file_space_id is used to specify only the selection within
the file dataset's dataspace.
Any dataspace specified in file_space_id
is ignored by the library and the dataset's dataspace is always used.
file_space_id can be the constant H5S_ALL.
which indicates that the entire file dataspace, as defined by the
current dimensions of the dataset, is to be selected.
mem_space_id is used to specify both the memory dataspace
and the selection within that dataspace.
mem_space_id can be the constant H5S_ALL,
in which case the file dataspace is used for the memory dataspace and
the selection defined with file_space_id is used for the
selection within that dataspace.
The behavior of the library for the various combinations of valid
dataspace IDs and H5S_ALL for the mem_space_id and the
file_space_id parameters is described below:
mem_space_id
|
file_space_id
|
Behavior |
|---|---|---|
| valid dataspace identifier | valid dataspace identifier |
mem_space_id specifies the memory dataspace and the
selection within it.
file_space_id specifies the selection within the file
dataset's dataspace.
|
| H5S_ALL | valid dataspace identifier |
The file dataset's dataspace is used for the memory dataspace and the
selection specified with file_space_id specifies the
selection within it.
The combination of the file dataset's dataspace and the selection from
file_space_id is used for memory also.
|
| valid dataspace identifier | H5S_ALL |
mem_space_id specifies the memory dataspace and the
selection within it.
The selection within the file dataset's dataspace is set to the "all"
selection.
|
| H5S_ALL | H5S_ALL | The file dataset's dataspace is used for the memory dataspace and the selection within the memory dataspace is set to the "all" selection. The selection within the file dataset's dataspace is set to the "all" selection. |
Setting an "all" selection indicates that the entire dataspace, as defined by the current dimensions of a dataspace, will be selected. The number of elements selected in the memory dataspace must match the number of elements selected in the file dataspace.
xfer_plist_id can be the constant H5P_DEFAULT.
in which case the default data transfer properties are used.
Writing to an dataset will fail if the HDF5 file was not opened with write access permissions.
Datatype conversion takes place at the time of a read or write and is automatic. See the “Data Transfer: Datatype Conversion and Selection” section in the “HDF5 Datatypes” chapter of the HDF5 User’s Guide for a discussion of data conversion.
If the dataset's space allocation time is set to
H5D_ALLOC_TIME_LATE or H5D_ALLOC_TIME_INCR
and the space for the dataset has not yet been allocated,
that space is allocated when the first raw data is written to the
dataset.
Unused space in the dataset will be written with fill values at the
same time if the dataset's fill time is set to
H5D_FILL_TIME_IFSET or H5D_FILL_TIME_ALLOC.
(Also see
H5Pset_fill_time
and
H5Pset_alloc_time.)
If a dataset's storage layout is 'compact', care must be taken when writing data to the dataset in parallel. A compact dataset's raw data is cached in memory and may be flushed to the file from any of the parallel processes, so parallel applications should always attempt to write identical data to the dataset from all processes.
hid_t dataset_id |
IN: Identifier of the dataset to write to. |
hid_t mem_type_id |
IN: Identifier of the memory datatype. |
hid_t mem_space_id |
IN: Identifier of the memory dataspace. |
hid_t file_space_id |
IN: Identifier of the dataset's dataspace in the file. |
hid_t xfer_plist_id |
IN: Identifier of a transfer property list for this I/O operation. |
const void * buf |
IN: Buffer with data to be written to the file. |
H5Dwrite.
Instead, that functionality is provided by two Fortran90 subroutines:
h5dwrite_f
|
Purpose: Writes data other than variable-length data. | |
h5dwrite_vl_f
| Purpose: Writes variable-length data. |
SUBROUTINE h5dwrite_f(dset_id, mem_type_id, buf, dims, hdferr, &
mem_space_id, file_space_id, xfer_prp)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER(HID_T), INTENT(IN) :: mem_type_id ! Memory datatype identifier
TYPE, INTENT(IN) :: buf ! Data buffer; may be a scalar
! or an array
DIMENSION(*), INTEGER(HSIZE_T), INTENT(IN) :: dims
! Array to hold corresponding
! dimension sizes of data
! buffer buf; dim(k) has value
! of the k-th dimension of
! buffer buf; values are
! ignored if buf is a scalar
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: mem_space_id
! Memory dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: file_space_id
! File dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: xfer_prp
! Transfer property list
! identifier; default value
! is H5P_DEFAULT_F
END SUBROUTINE h5dwrite_f
SUBROUTINE h5dwrite_vl_f(dset_id, mem_type_id, buf, dims, len, hdferr, &
mem_space_id, file_space_id, xfer_prp)
IMPLICIT NONE
INTEGER(HID_T), INTENT(IN) :: dset_id ! Dataset identifier
INTEGER(HID_T), INTENT(IN) :: mem_type_id ! Memory datatype identifier
TYPE, INTENT(IN), & DIMENSION(dims(1),dims(2)) :: buf
! Data buffer; may be a scalar
! or an array
! TYPE must be one of the following
! INTEGER
! REAL
! CHARACTER
INTEGER(HSIZE_T), INTENT(IN), DIMENSION(2) :: dims
! Array to hold corresponding
! dimension sizes of data
! buffer buf
! dim(k) has value of the k-th
! dimension of buffer buf
! Values are ignored if buf is
! a scalar
INTEGER(SIZE_T), INTENT(IN), DIMENSION(*) :: len
! Array to store length of
! each element
INTEGER, INTENT(OUT) :: hdferr ! Error code
! 0 on success and -1 on failure
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: mem_space_id
! Memory dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: file_space_id
! File dataspace identfier
! Default value is H5S_ALL_F
INTEGER(HID_T), OPTIONAL, INTENT(IN) :: xfer_prp
! Transfer property list identifier
! Default value is H5P_DEFAULT_F
END SUBROUTINE h5dwrite_vl_f
SUBROUTINE h5dwrite_f(dset_id, mem_type_id, buf, hdferr, &
mem_space_id, file_space_id, xfer_prp)
INTEGER(HID_T), INTENT(IN) :: dset_id
INTEGER(HID_T), INTENT(IN) :: mem_type_id
TYPE(C_PTR) , INTENT(IN) :: buf
INTEGER , INTENT(OUT) :: hdferr
INTEGER(HID_T), INTENT(IN) , OPTIONAL :: mem_space_id
INTEGER(HID_T), INTENT(IN) , OPTIONAL :: file_space_id
INTEGER(HID_T), INTENT(IN) , OPTIONAL :: xfer_prp
Inputs:
dset_id - Identifier of the dataset to write to. mem_type_id - Identifier of the memory datatype. buf - Buffer with data to be written to the file.
Outputs:
hdferr - Returns 0 if successful and -1 if fails
Optional parameters:
mem_space_id - Identifier of the memory dataspace. file_space_id - Identifier of the dataset's dataspace in the file. xfer_prp - Identifier of a transfer property list for this I/O operation.
H5Tset_size
| Release | Change |
| 1.8.8 | Fortran updated to Fortran2003. |
| 1.4.2 |
dims parameter added in Fortran interface. |
|
The HDF Group Help Desk:
Describes HDF5 Release 1.10. |
Copyright by
The HDF Group
and the Board of Trustees of the University of Illinois |