H5public.h File Reference

#include "H5pubconf.h"
#include "H5version.h"
#include <inttypes.h>
#include <limits.h>
#include <stdarg.h>
#include <stdbool.h>
#include <stddef.h>
#include <stdint.h>
#include <sys/types.h>
#include <mpi.h>
#include <mpio.h>
#include "H5api_adpt.h"

Data Structures
struct	H5_ih_info_t
struct	H5O_token_t

Macros
#define	H5_ITER_CONT   (0)
#define	H5_ITER_ERROR   (-1)
#define	H5_ITER_STOP   (1)
#define	H5_LIKELY(expression)
#define	H5_NO_EXPAND(x)
#define	H5_PRINTF_HADDR_FMT   "%" PRIuHADDR
#define	H5_SIZEOF_HADDR_T   8
#define	H5_SIZEOF_HSIZE_T   8
#define	H5_SIZEOF_HSSIZE_T   8
#define	H5_UNLIKELY(expression)
#define	H5_VERS_INFO   "HDF5 library version: " H5_VERS_STR
#define	H5_VERS_MAJOR   2
#define	H5_VERS_MINOR   1
#define	H5_VERS_RELEASE   0
#define	H5_VERS_STR   H5_VERS_STR_CONCAT(H5_VERS_MAJOR, H5_VERS_MINOR, H5_VERS_RELEASE, H5_VERS_SUBRELEASE)
#define	H5_VERS_STR_CONCAT(major, minor, release, sub)
#define	H5_VERS_STR_HELPER(major, minor, release)
#define	H5_VERS_SUBRELEASE   "-9af6db1"
#define	H5_VERSION_GE(Maj, Min, Rel)
	Determines whether the version of the library being used is greater than or equal to the specified version.
#define	H5_VERSION_LE(Maj, Min, Rel)
	Determines whether the version of the library being used is less than or equal to the specified version.
#define	H5check()
#define	H5O_MAX_TOKEN_SIZE   (16)
#define	H5OPEN   (H5_UNLIKELY(!H5_libinit_g && !H5_libterm_g) ? H5open() : 0),
#define	HADDR_AS_MPI_TYPE   MPI_UINT64_T
#define	HADDR_MAX   (HADDR_UNDEF - 1)
#define	HADDR_UNDEF   UINT64_MAX
#define	HDF5_DRIVER   "HDF5_DRIVER"
#define	HDF5_DRIVER_CONFIG   "HDF5_DRIVER_CONFIG"
#define	HDF5_NOCLEANUP   "HDF5_NOCLEANUP"
#define	HDF5_PLUGIN_PATH   "HDF5_PLUGIN_PATH"
#define	HDF5_PLUGIN_PRELOAD   "HDF5_PLUGIN_PRELOAD"
#define	HDF5_PREFER_WINDOWS_CODE_PAGE   "HDF5_PREFER_WINDOWS_CODE_PAGE"
#define	HDF5_USE_FILE_LOCKING   "HDF5_USE_FILE_LOCKING"
#define	HDF5_VOL_CONNECTOR   "HDF5_VOL_CONNECTOR"
#define	HSIZE_AS_MPI_TYPE   MPI_UINT64_T
#define	HSIZE_UNDEF   UINT64_MAX
#define	MPICH_SKIP_MPICXX   1
#define	OMPI_SKIP_MPICXX   1
#define	PRIdHADDR   PRId64
#define	PRIdHSIZE   PRId64
#define	PRIiHSIZE   PRIi64
#define	PRIoHADDR   PRIo64
#define	PRIoHSIZE   PRIo64
#define	PRIuHADDR   PRIu64
#define	PRIuHSIZE   PRIu64
#define	PRIXHADDR   PRIX64
#define	PRIxHADDR   PRIx64
#define	PRIXHSIZE   PRIX64
#define	PRIxHSIZE   PRIx64

Typedefs
typedef void(*	H5_atclose_func_t) (void *ctx)
typedef uint64_t	haddr_t
typedef bool	hbool_t
typedef off_t	HDoff_t
typedef int	herr_t
typedef uint64_t	hsize_t
typedef int64_t	hssize_t
typedef int	htri_t

Enumerations
enum	H5_index_t { H5_INDEX_UNKNOWN = -1 , H5_INDEX_NAME , H5_INDEX_CRT_ORDER , H5_INDEX_N }
enum	H5_iter_order_t {   H5_ITER_UNKNOWN = -1 , H5_ITER_INC , H5_ITER_DEC , H5_ITER_NATIVE ,   H5_ITER_N }

Functions
void *	H5allocate_memory (size_t size, bool clear)
	Allocates memory that will be freed later internally.
herr_t	H5atclose (H5_atclose_func_t func, void *ctx)
	Registers a callback for the library to invoke when it's closing.
herr_t	H5check_version (unsigned majnum, unsigned minnum, unsigned relnum)
	Verifies that HDF5 library versions are consistent.
herr_t	H5close (void)
	Flushes all data to disk, closes all open objects, and releases memory.
herr_t	H5dont_atexit (void)
	Instructs library not to install atexit() cleanup routine.
herr_t	H5free_memory (void *mem)
	Frees memory allocated by the HDF5 library.
herr_t	H5garbage_collect (void)
	Garbage collects on all free-lists of all types.
herr_t	H5get_free_list_sizes (size_t *reg_size, size_t *arr_size, size_t *blk_size, size_t *fac_size)
	Gets the current size of the free lists used to manage memory.
herr_t	H5get_libversion (unsigned *majnum, unsigned *minnum, unsigned *relnum)
	Returns the HDF library release number.
herr_t	H5is_library_terminating (bool *is_terminating)
	Checks whether the HDF5 library is closing.
herr_t	H5is_library_threadsafe (bool *is_ts)
	Determines whether the HDF5 library was built with the thread-safety feature enabled.
herr_t	H5open (void)
	Initializes the HDF5 library.
void *	H5resize_memory (void *mem, size_t size)
	Resizes and, if required, re-allocates memory that will later be freed internally by the HDF5 library.
herr_t	H5set_free_list_limits (int reg_global_lim, int reg_list_lim, int arr_global_lim, int arr_list_lim, int blk_global_lim, int blk_list_lim)
	Sets free-list size limits.

Variables
bool	H5_libterm_g

Macro Definition Documentation

H5_ITER_CONT

#define H5_ITER_CONT   (0)

Continue iteration

H5_ITER_ERROR

#define H5_ITER_ERROR   (-1)

Error, stop iteration

H5_ITER_STOP

#define H5_ITER_STOP   (1)

Stop iteration, short-circuit success

H5_LIKELY

#define H5_LIKELY

(

expression

)

Value:

(expression)

H5_NO_EXPAND

#define H5_NO_EXPAND

(

x

)

Value:

(x)

H5_PRINTF_HADDR_FMT

#define H5_PRINTF_HADDR_FMT   "%" PRIuHADDR

H5_SIZEOF_HADDR_T

#define H5_SIZEOF_HADDR_T   8

H5_SIZEOF_HSIZE_T

#define H5_SIZEOF_HSIZE_T   8

H5_SIZEOF_HSSIZE_T

#define H5_SIZEOF_HSSIZE_T   8

H5_UNLIKELY

#define H5_UNLIKELY

(

expression

)

Value:

(expression)

H5_VERS_INFO

#define H5_VERS_INFO   "HDF5 library version: " H5_VERS_STR

Full version string - automatically derived from H5_VERS_STR

H5_VERS_MAJOR

#define H5_VERS_MAJOR   2

For major interface/format changes

H5_VERS_MINOR

#define H5_VERS_MINOR   1

For minor interface/format changes

H5_VERS_RELEASE

#define H5_VERS_RELEASE   0

For tweaks, bug-fixes, or development

H5_VERS_STR

#define H5_VERS_STR   H5_VERS_STR_CONCAT(H5_VERS_MAJOR, H5_VERS_MINOR, H5_VERS_RELEASE, H5_VERS_SUBRELEASE)

H5_VERS_STR_CONCAT

#define H5_VERS_STR_CONCAT	(		major,
			minor,
			release,
			sub )

Value:

H5_VERS_STR_HELPER(major, minor, release) sub

H5_VERS_STR_HELPER

#define H5_VERS_STR_HELPER	(		major,
			minor,
			release )

Value:

#major "." #minor "." #release

Short version string - automatically derived from H5_VERS_MAJOR/MINOR/RELEASE/SUBRELEASE

This macro uses C preprocessor string concatenation. The H5_VERS_MAJOR, H5_VERS_MINOR, and H5_VERS_RELEASE values are stringified and concatenated with dots, then concatenated with H5_VERS_SUBRELEASE (which must already be a string literal).

H5_VERS_SUBRELEASE

#define H5_VERS_SUBRELEASE   "-9af6db1"

For pre-releases like snap0. Empty string for official releases.

H5_VERSION_GE

#define H5_VERSION_GE	(		Maj,
			Min,
			Rel )

Value:

    (((H5_VERS_MAJOR == Maj) && (H5_VERS_MINOR == Min) && (H5_VERS_RELEASE >= Rel)) ||                       \
     ((H5_VERS_MAJOR == Maj) && (H5_VERS_MINOR > Min)) || (H5_VERS_MAJOR > Maj))

Determines whether the version of the library being used is greater than or equal to the specified version.

Parameters

[in]	Maj	Major version number - A non-negative integer value
[in]	Min	Minor version number - A non-negative integer value
[in]	Rel	Release version number - A non-negative integer value

Returns

A value of 1 is returned if the library version is greater than or equal to the version number specified.
A value of 0 is returned if the library version is less than the version number specified.
A library version is greater than the specified version number if its major version is larger than the specified major version number. If the major version numbers are the same, it is greater than the specified version number if its minor version is larger than the specified minor version number. If the minor version numbers are the same, then a library version would be greater than the specified version number if its release number is larger than the specified release number.

The H5_VERSION_GE and H5_VERSION_LE macros are used at compile time to conditionally include or exclude code based on the version of the HDF5 library against which an application will be linked.

The H5_VERSION_GE macro compares the version of the HDF5 library being used against the version number specified in the parameters.

For more information about release versioning, see HDF5 Library Release Version Numbers.

Since

1.8.7

H5_VERSION_LE

#define H5_VERSION_LE	(		Maj,
			Min,
			Rel )

Value:

    (((H5_VERS_MAJOR == Maj) && (H5_VERS_MINOR == Min) && (H5_VERS_RELEASE <= Rel)) ||                       \
     ((H5_VERS_MAJOR == Maj) && (H5_VERS_MINOR < Min)) || (H5_VERS_MAJOR < Maj))

Determines whether the version of the library being used is less than or equal to the specified version.

Parameters

[in]	Maj	Major version number - A non-negative integer value
[in]	Min	Minor version number - A non-negative integer value
[in]	Rel	Release version number - A non-negative integer value

Returns

A value of 1 is returned if the library version is less than or equal to the version number specified.
A value of 0 is returned if the library version is greater than the version number specified.
A library version is less than the specified version number if its major version is smaller than the specified major version number. If the major version numbers are the same, it is smaller than the specified version number if its minor version is smaller than the specified minor version number. If the minor version numbers are the same, then a library version would be smaller than the specified version number if its release number is smaller than the specified release number.

The H5_VERSION_GE and H5_VERSION_LE macros are used at compile time to conditionally include or exclude code based on the version of the HDF5 library against which an application will be linked.

The H5_VERSION_LE macro compares the version of the HDF5 library being used against the version number specified in the parameters.

For more information about release versioning, see HDF5 Library Release Version Numbers.

Since

1.8.7

H5check

#define H5check

(

)

Value:

H5check_version(H5_VERS_MAJOR, H5_VERS_MINOR, H5_VERS_RELEASE)

H5O_MAX_TOKEN_SIZE

#define H5O_MAX_TOKEN_SIZE   (16)

The maximum size allowed for tokens

Tokens are unique and permanent identifiers that are used to reference HDF5 objects in a container. This allows for 128-bit tokens

Since

1.12.0

H5OPEN

#define H5OPEN   (H5_UNLIKELY(!H5_libinit_g && !H5_libterm_g) ? H5open() : 0),

HADDR_AS_MPI_TYPE

#define HADDR_AS_MPI_TYPE   MPI_UINT64_T

HADDR_MAX

#define HADDR_MAX   (HADDR_UNDEF - 1)

HADDR_UNDEF

#define HADDR_UNDEF   UINT64_MAX

HDF5_DRIVER

#define HDF5_DRIVER   "HDF5_DRIVER"

Used to specify the name of an HDF5 Virtual File Driver to use as the default file driver for file access. Setting this environment variable overrides the default file driver for File Access Property Lists.

Since

1.14.0

HDF5_DRIVER_CONFIG

#define HDF5_DRIVER_CONFIG   "HDF5_DRIVER_CONFIG"

Used to specify a configuration string for the HDF5 Virtual File Driver being used for file access.

Since

1.14.0

HDF5_NOCLEANUP

#define HDF5_NOCLEANUP   "HDF5_NOCLEANUP"

Used to instruct HDF5 not to cleanup files created during testing.

Since

1.14.0

HDF5_PLUGIN_PATH

#define HDF5_PLUGIN_PATH   "HDF5_PLUGIN_PATH"

Used to specify a delimiter-separated (currently, ';' for Windows and ':' for other systems) list of paths that HDF5 should search when loading plugins.

Since

1.14.0

HDF5_PLUGIN_PRELOAD

#define HDF5_PLUGIN_PRELOAD   "HDF5_PLUGIN_PRELOAD"

Used to control the loading of HDF5 plugins at runtime. If this environment variable is set to the special string "::" (defined in H5PLpublic.h as H5PL_NO_PLUGIN), then dynamic loading of any HDF5 plugins will be disabled. No other values are valid for this environment variable.

Since

1.14.0

HDF5_PREFER_WINDOWS_CODE_PAGE

#define HDF5_PREFER_WINDOWS_CODE_PAGE   "HDF5_PREFER_WINDOWS_CODE_PAGE"

Macro for environment variable used to instruct HDF5 to prefer Windows code pages over UTF-8 for functions that accept 'char *' parameters. Valid values for this environment variable are as follows (case-insensitive):

"TRUE" or "1" - Request that Windows code pages be preferred
"FALSE" or "0" - Request that UTF-8 be preferred

Since

2.0.0

HDF5_USE_FILE_LOCKING

#define HDF5_USE_FILE_LOCKING   "HDF5_USE_FILE_LOCKING"

Used to control whether HDF5 uses file locking when creating or opening a file. Valid values for this environment variable are as follows:

"TRUE" or "1" - Request that file locks should be used
"FALSE" or "0" - Request that file locks should NOT be used
"BEST_EFFORT" - Request that file locks should be used and that any locking errors caused by file locking being disabled on the system should be ignored

Since

1.14.0

HDF5_VOL_CONNECTOR

#define HDF5_VOL_CONNECTOR   "HDF5_VOL_CONNECTOR"

Used to specify the name of an HDF5 Virtual Object Layer Connector to use as the default VOL connector for file access. Setting this environment variable overrides the default VOL connector for File Access Property Lists.

Since

1.14.0

HSIZE_AS_MPI_TYPE

#define HSIZE_AS_MPI_TYPE   MPI_UINT64_T

HSIZE_UNDEF

#define HSIZE_UNDEF   UINT64_MAX

Represents the largest possible value of uint64_t

Since

1.10.0

MPICH_SKIP_MPICXX

#define MPICH_SKIP_MPICXX   1

OMPI_SKIP_MPICXX

#define OMPI_SKIP_MPICXX   1

PRIdHADDR

#define PRIdHADDR   PRId64

d print conversion specifier for unsigned integer type

Since

1.8.23

PRIdHSIZE

#define PRIdHSIZE   PRId64

d print conversion specifier for signed integer type

Since

1.10.8

PRIiHSIZE

#define PRIiHSIZE   PRIi64

i print conversion specifier for signed integer type

Since

1.10.8

PRIoHADDR

#define PRIoHADDR   PRIo64

o print conversion specifier for unsigned integer type

Since

1.8.23

PRIoHSIZE

#define PRIoHSIZE   PRIo64

o print conversion specifier for signed integer type

Since

1.10.8

PRIuHADDR

#define PRIuHADDR   PRIu64

u print conversion specifier for unsigned integer type

Since

1.8.23

PRIuHSIZE

#define PRIuHSIZE   PRIu64

u print conversion specifier for signed integer type

Since

1.10.8

PRIXHADDR

#define PRIXHADDR   PRIX64

X print conversion specifier for unsigned integer type

Since

1.8.23

PRIxHADDR

#define PRIxHADDR   PRIx64

x print conversion specifier for unsigned integer type

Since

1.8.23

PRIXHSIZE

#define PRIXHSIZE   PRIX64

X print conversion specifier for signed integer type

Since

1.10.8

PRIxHSIZE

#define PRIxHSIZE   PRIx64

x print conversion specifier for signed integer type

Since

1.10.8

Typedef Documentation

H5_atclose_func_t

typedef void(* H5_atclose_func_t) (void *ctx)

Library shutdown callback, used by H5atclose().

haddr_t

typedef uint64_t haddr_t

The address of an object in the file.

hbool_t

typedef bool hbool_t

C99-style Boolean type. Successful return values are zero (false) or positive (true). The typical true value is 1 but don't bet on it.

Deprecated

Now that we require C99, hbool_t is typedef'd to C99's bool and hbool_t is considered deprecated. Due to its long-standing, widespread use, we have no plans to remove the hbool_t typedef from the public API, though it is otherwise unused in the library.

Attention

Boolean functions cannot fail.

HDoff_t

typedef off_t HDoff_t

Platform-independent offset

herr_t

typedef int herr_t

Status return values. Failed integer functions in HDF5 result almost always in a negative value (unsigned failing functions sometimes return zero for failure) while successful return is non-negative (often zero). The negative failure value is most commonly -1, but don't bet on it.

The proper way to detect failure is something like:

if((dset = H5Dopen2(file, name)) < 0)
   fprintf(stderr, "unable to open the requested dataset\n");

hsize_t

typedef uint64_t hsize_t

The size of file objects.

hssize_t

typedef int64_t hssize_t

The size of file objects. Used when negative values are needed to indicate errors.

htri_t

typedef int htri_t

Three-valued Boolean type. Functions that return htri_t however return zero (false), positive (true), or negative (failure).

The proper way to test for truth from a htri_t function is:

if ((retval = H5Tcommitted(type)) > 0) {
    printf("data type is committed\n");
} else if (!retval) {
    printf("data type is not committed\n");
} else {
    printf("error determining whether data type is committed\n");
}

Enumeration Type Documentation

H5_index_t

enum H5_index_t

The types of indices on links in groups/attributes on objects. Primarily used for "<do> <foo> by index" routines and for iterating over links in groups/attributes on objects.

Enumerator
H5_INDEX_UNKNOWN	Unknown index type
H5_INDEX_NAME	Index on names
H5_INDEX_CRT_ORDER	Index on creation order
H5_INDEX_N	Number of indices defined

H5_iter_order_t

enum H5_iter_order_t

Common iteration orders

Enumerator
H5_ITER_UNKNOWN	Unknown order
H5_ITER_INC	Increasing order
H5_ITER_DEC	Decreasing order
H5_ITER_NATIVE	No particular order, whatever is fastest
H5_ITER_N	Number of iteration orders

Variable Documentation

H5_libterm_g

bool H5_libterm_g

extern