HDF5 C++ Interfaces
===================
// HDF5 dataset and attribute have some common characteristics, so the
// term abstract dataset is used to name the element that can represent
// both objects, dataset and attribute.
//
// Class AbstractDs is an abstract base class, from which Attribute and
// DataSet inherit. It provides the services that are common to both
// Attribute and DataSet. It also inherits from H5Object and passes down
// the services that H5Object provides.
class AbstractDs : public H5Object
// Gets the dataspace of this abstract dataset - pure virtual
virtual DataSpace getSpace() const = 0;
// Gets the class of the datatype that is used by this abstract
// dataset
H5T_class_t getTypeClass() const;
// Gets a copy of the datatype that this abstract dataset uses.
// Note that this datatype is a generic one and can only be accessed
// via generic member functions, i.e., member functions belong to
// DataType. To get specific datatype, i.e. EnumType, FloatType,
// etc..., use the specific functions, that follow, instead.
DataType getDataType() const;
// Gets a copy of the specific datatype of this abstract dataset
EnumType getEnumType() const;
CompType getCompType() const;
IntType getIntType() const;
FloatType getFloatType() const;
StrType getStrType() const;
// Copy constructor
AbstractDs( const AbstractDs& original );
virtual ~AbstractDs();
// end of class AbstractDs
// Atomic datatype can be an integer, float, string, or predefined datatype.
//
// Class AtomType is a base class, from which IntType, FloatType, StrType,
// and PredType inherit. It provides the services that are common to these
// subclasses. It also inherits from DataType and passes down the
// services that are common to all the datatypes.
class AtomType : public DataType
// Sets the total size for an atomic datatype.
void setSize( size_t size ) const;
// Returns the byte order of an atomic datatype.
H5T_order_t getOrder( string& order_string ) const;
// Sets the byte ordering of an atomic datatype.
void setOrder( H5T_order_t order ) const;
// Returns the precision of an atomic datatype.
size_t getPrecision() const;
// Sets the precision of an atomic datatype.
void setPrecision( size_t precision ) const;
// Gets the bit offset of the first significant bit.
int getOffset() const;
// Sets the bit offset of the first significant bit.
void setOffset( size_t offset ) const;
// Copy constructor
AtomType( const AtomType& original );
virtual ~AtomType();
// end of class AtomType
// An attribute is an abstract dataset because it has some characteristics
// that a dataset also has, but not all.
//
// Class Attribute inherits from AbstractDs and provides accesses to an
// attribute.
class Attribute : public AbstractDs
// Writes data to this attribute.
void write(const DataType& mem_type, void *buf ) const;
// Reads data from this attribute.
void read( const DataType& mem_type, void *buf ) const;
// Gets a copy of the dataspace for this attribute.
virtual DataSpace getSpace() const;
// Gets the name of this attribute.
string getName( size_t buf_size ) const;
// An attribute doesn't have the ability to iterate, simply because
// it doesn't have any attributes associated with it. Thus, the
// implementation of this member which is inherited from H5Object
// is overwritten to do nothing here.
int iterateAttrs() const;
// Creates a copy of an existing attribute using the attribute id
Attribute( const hid_t attr_id );
// Copy constructor
Attribute( const Attribute& original );
virtual ~Attribute();
// CommonFG is a protocol class. Its existence is simply to provide the
// common services that are provided by H5File and Group. The file or
// group in the context of this class is referred to as 'location'.
class CommonFG
// Creates a new group at this location.
Group createGroup( const string& name, size_t size_hint = 0 ) const;
Group createGroup( const char* name, size_t size_hint = 0 ) const;
// Opens an existing group in a location.
Group openGroup( const string& name ) const;
Group openGroup( const char* name ) const;
// Creates a new dataset at this location.
DataSet createDataSet( const string& name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist = DSetCreatPropList::DEFAULT ) const;
DataSet createDataSet( const char* name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist = DSetCreatPropList::DEFAULT ) const;
// Opens an existing dataset at this location.
DataSet openDataSet( const string& name ) const;
DataSet openDataSet( const char* name ) const;
// Creates a link of the specified type from new_name to current_name;
// both names are interpreted relative to this location.
void link( H5G_link_t link_type, const string& curr_name, const string& new_name ) const;
void link( H5G_link_t link_type, const char* curr_name, const char* new_name ) const;
// Removes the specified name at this location.
void unlink( const string& name ) const;
void unlink( const char* name ) const;
// Renames an HDF5 object at this location.
void move( const string& src, const string& dst ) const;
void move( const char* src, const char* dst ) const;
// Returns information about an HDF5 object, given by its name, at this location.
void getObjinfo( const string& name, hbool_t follow_link, H5G_stat_t& statbuf ) const;
void getObjinfo( const char* name, hbool_t follow_link, H5G_stat_t& statbuf ) const;
// Returns the name of the HDF5 object that the symbolic link points to.
string getLinkval( const string& name, size_t size ) const;
string getLinkval( const char* name, size_t size ) const;
// Sets the comment for the HDF5 object specified by its name.
void setComment( const string& name, const string& comment ) const;
void setComment( const char* name, const char* comment ) const;
// Retrieves comment for the HDF5 object specified by its name.
string getComment( const string& name, size_t bufsize ) const;
string getComment( const char* name, size_t bufsize ) const;
// Mounts the file 'child' onto this location.
void mount( const string& name, H5File& child, PropList& plist ) const;
void mount( const char* name, H5File& child, PropList& plist) const;
// Unmounts the file named 'name' from this location.
void unmount( const string& name ) const;
void unmount( const char* name ) const;
// Iterates over the elements of this location - not implemented in
// C++ style yet
int iterateElems( const string& name, int *idx, H5G_iterate_t op, void *op_data );
int iterateElems( const char* name, int *idx, H5G_iterate_t op, void *op_data );
// Opens a generic named datatype at this location
DataType openDataType( const string& name ) const;
DataType openDataType( const char* name ) const;
// Opens a named enumeration datatype at this location
EnumType openEnumType( const string& name ) const;
EnumType openEnumType( const char* name ) const;
// Opens a named compound datatype at this location
CompType openCompType( const string& name ) const;
CompType openCompType( const char* name ) const;
// Opens a named integer datatype at this location
IntType openIntType( const string& name ) const;
IntType openIntType( const char* name ) const;
// Opens a named floating-point datatype at this location
FloatType openFloatType( const string& name ) const;
FloatType openFloatType( const char* name ) const;
// Opens a named string datatype at this location
StrType openStrType( const string& name ) const;
StrType openStrType( const char* name ) const;
// For H5File and Group to throw appropriate exception - pure virtual
virtual void throwException() const = 0;
// Get id of the location, either group or file - pure virtual
virtual hid_t getLocId() const = 0;
CommonFG();
virtual ~CommonFG();
// end of CommonFG declaration
// Class CompType inherits from DataType and provides accesses to a compound
// datatype.
class CompType : public DataType
// Creates a new compound datatype, given the type's size.
CompType( size_t size );
// Creates a compound datatype using an existing id.
CompType( const hid_t existing_id );
// Gets the compound datatype of the specified dataset.
CompType( const DataSet& dataset );
// Returns the number of members in this compound datatype.
int getNmembers() const;
// Returns the name of a member of this compound datatype.
string getMemberName( int member_num ) const;
// Returns the offset of a member of this compound datatype.
size_t getMemberOffset( int memb_no ) const;
// Returns the dimensionality of the specified member of this compound datatype.
int getMemberDims( int member_num, size_t* dims, int* perm ) const;
// Returns the type class of the specified member of this compound
// datatype. It provides to the user a way of knowing what type
// to create another datatype of the same class.
H5T_class_t getMemberClass( int member_num ) const;
// Returns the generic datatype of the specified member in
// this compound datatype.
DataType getMemberDataType( int member_num ) const;
// Returns the enumeration datatype of the specified member in
// this compound datatype.
EnumType getMemberEnumType( int member_num ) const;
// Returns the compound datatype of the specified member in
// this compound datatype.
CompType getMemberCompType( int member_num ) const;
// Returns the integer datatype of the specified member in
// this compound datatype.
IntType getMemberIntType( int member_num ) const;
// Returns the floating-point datatype of the specified member in
// this compound datatype.
FloatType getMemberFloatType( int member_num ) const;
// Returns the string datatype of the specified member in
// this compound datatype.
StrType getMemberStrType( int member_num ) const;
// Adds a new member to this compound datatype.
void insertMember( const string name, size_t offset, const DataType& new_member ) const;
// Recursively removes padding from within this compound datatype.
void pack() const;
// Default constructor
CompType();
// Copy constructor
CompType( const CompType& original );
virtual ~CompType();
// end of class CompType
// Class DataSet inherits from AbstractDs and provides accesses to a dataset.
class DataSet : public AbstractDs
// Gets the dataspace of this dataset.
virtual DataSpace getSpace() const;
// Gets the creation property list of this dataset.
DSetCreatPropList getCreatePlist() const;
// Gets the storage size of this dataset.
hsize_t getStorageSize() const;
// Reads the data of this dataset and stores it in the provided buffer.
// The memory and file dataspaces and the transferring property list
// can be defaults.
void read( void* buf, const DataType& mem_type, const DataSpace& mem_space = DataSpace::ALL, const DataSpace& file_space = DataSpace::ALL, const DSetMemXferPropList& xfer_plist = DSetMemXferPropList::DEFAULT ) const;
// Writes the buffered data to this dataset.
// The memory and file dataspaces and the transferring property list
// can be defaults.
void write( const void* buf, const DataType& mem_type, const DataSpace& mem_space = DataSpace::ALL, const DataSpace& file_space = DataSpace::ALL, const DSetMemXferPropList& xfer_plist = DSetMemXferPropList::DEFAULT ) const;
// Extends the dataset with unlimited dimension.
void extend( const hsize_t* size ) const;
// Default constructor
DataSet();
// Copy constructor
DataSet( const DataSet& original );
virtual ~DataSet();
// end of class DataSet
// Class DataSpace provides accesses to the dataspace.
class DataSpace : public IdComponent
// Default DataSpace objects
static const DataSpace ALL;
// Creates a dataspace object given the space type.
DataSpace( H5S_class_t type );
// Creates a simple dataspace.
DataSpace( int rank, const hsize_t * dims, const hsize_t * maxdims = NULL);
// Makes copy of an existing dataspace.
void copy( const DataSpace& like_space );
// Determines if this dataspace is a simple one.
bool isSimple () const;
// Sets the offset of this simple dataspace.
void offsetSimple ( const hssize_t* offset ) const;
// Retrieves dataspace dimension size and maximum size.
int getSimpleExtentDims ( hsize_t *dims, hsize_t *maxdims = NULL ) const;
// Gets the dimensionality of this dataspace.
int getSimpleExtentNdims () const;
// Gets the number of elements in this dataspace.
hssize_t getSimpleExtentNpoints () const;
// Gets the current class of this dataspace.
H5S_class_t getSimpleExtentType () const;
// Copies the extent of this dataspace.
void extentCopy ( DataSpace& dest_space ) const;
// Sets or resets the size of this dataspace.
void setExtentSimple( int rank, const hsize_t *current_size, const hsize_t *maximum_size = NULL ) const;
// Removes the extent from this dataspace.
void setExtentNone () const;
// Gets the number of elements in this dataspace selection.
hssize_t getSelectNpoints () const;
// Get number of hyperslab blocks.
hssize_t getSelectHyperNblocks () const;
// Gets the list of hyperslab blocks currently selected.
void getSelectHyperBlocklist( hsize_t startblock, hsize_t numblocks, hsize_t *buf ) const;
// Gets the number of element points in the current selection.
hssize_t getSelectElemNpoints () const;
// Retrieves the list of element points currently selected.
void getSelectElemPointlist ( hsize_t startpoint, hsize_t numpoints, hsize_t *buf ) const;
// Gets the bounding box containing the current selection.
void getSelectBounds ( hsize_t* start, hsize_t* end ) const;
// Selects array elements to be included in the selection for
// this dataspace.
void selectElements ( H5S_seloper_t op, const size_t num_elements, const hssize_t* coord[ ] ) const;
// Selects the entire dataspace.
void selectAll () const;
// Resets the selection region to include no elements.
void selectNone () const;
// Verifies that the selection is within the extent of the dataspace.
bool selectValid () const;
// Selects a hyperslab region to add to the current selected region.
void selectHyperslab( H5S_seloper_t op, const hsize_t *count, const hssize_t *start, const hsize_t *stride = NULL, const hsize_t *block = NULL ) const;
// Default constructor
DataSpace();
// Create a dataspace object from a dataspace identifier
DataSpace( const hid_t space_id );
// Copy constructor
DataSpace( const DataSpace& original );
virtual ~DataSpace();
// end of class DataSpace
// HDF5 datatype can be an atom datatype, a compound datatype, or an
// enumeration datatype. A datatype is itself a kind of HDF5 object.
//
// Class DataType provides accesses to a generic HDF5 datatype. It has
// characteristics which AtomType, CompType, and EnumType inherit. It also
// inherits from H5Object and passes down the services to its subclasses.
class DataType : public H5Object
// Creates a datatype given its class and size.
DataType( const H5T_class_t type_class, size_t size );
// Copies an existing datatype to this datatype instance.
void copy( const DataType& like_type );
// Returns the datatype class identifier of this datatype.
H5T_class_t getClass() const;
// Commits a transient datatype to a file; this datatype becomes
// a named datatype which can be accessed from the location.
void commit( H5Object& loc, const string& name ) const;
void commit( H5Object& loc, const char* name ) const;
// Determines whether this datatype is a named datatype or
// a transient datatype.
bool committed() const;
// Finds a conversion function that can handle the conversion
// of this datatype to the given datatype, dest.
H5T_conv_t find( const DataType& dest, H5T_cdata_t **pcdata ) const;
// Converts data from this datatype into the specified datatype, dest.
void convert( const DataType& dest, size_t nelmts, void *buf, void *background, PropList& plist ) const;
// Sets the overflow handler to a specified function.
void setOverflow(H5T_overflow_t func) const;
// Returns a pointer to the current global overflow function.
H5T_overflow_t getOverflow(void) const;
// Locks a datatype.
void lock() const;
// Returns the size of this datatype.
size_t getSize() const;
// Returns the base datatype from which a datatype is derived.
// Not implemented yet
DataType getSuper() const;
// Registers a conversion function.
void registerFunc(H5T_pers_t pers, const string& name, const DataType& dest, H5T_conv_t func ) const;
void registerFunc(H5T_pers_t pers, const char* name, const DataType& dest, H5T_conv_t func ) const;
// Removes a conversion function from all conversion paths.
void unregister( H5T_pers_t pers, const string& name, const DataType& dest, H5T_conv_t func ) const;
void unregister( H5T_pers_t pers, const char* name, const DataType& dest, H5T_conv_t func ) const;
// Tags an opaque datatype.
void setTag( const string& tag ) const;
void setTag( const char* tag ) const;
// Gets the tag associated with an opaque datatype.
string getTag() const;
// Creates a DataType using an existing id - this datatype is
// not a predefined type
DataType( const hid_t type_id, bool predtype = false );
// Default constructor
DataType();
// Copy constructor
DataType( const DataType& original );
virtual ~DataType();
// end of class DataType
// Class DSetCreatPropList provides accesses to a dataset creation
// property list.
class DSetCreatPropList : public PropList
// Default DSetCreatPropList object
static const DSetCreatPropList DEFAULT;
// Copies a dataset creation property list using assignment statement.
DSetCreatPropList& operator=( const DSetCreatPropList& rhs );
// Sets the type of storage used to store the raw data for the
// dataset that uses this property list.
void setLayout( hid_t plist, H5D_layout_t layout ) const;
// Gets the layout of the raw data storage of the data that uses this
// property list.
H5D_layout_t getLayout() const;
// Sets the size of the chunks used to store a chunked layout dataset.
void setChunk( int ndims, const hsize_t* dim ) const;
// Retrieves the size of the chunks used to store a chunked layout dataset.
int getChunk( int max_ndims, hsize_t* dim ) const;
// Sets compression method and compression level
void setDeflate( int level ) const;
// Sets a dataset fill value.
void setFillValue( DataType& fvalue_type, const void* value ) const;
// Retrieves a dataset fill value.
void getFillValue( DataType& fvalue_type, void* value ) const;
// Adds a filter to the filter pipeline
void setFilter( H5Z_filter_t filter, unsigned int flags, size_t cd_nelmts, const unsigned int cd_values[] ) const;
// Returns the number of filters in the pipeline.
int getNfilters() const;
// Returns information about a filter in a pipeline.
H5Z_filter_t getFilter( int filter_number, unsigned int& flags, size_t& cd_nelmts, unsigned int* cd_values, size_t namelen, char name[] ) const;
// Adds an external file to the list of external files.
void setExternal( const char* name, off_t offset, hsize_t size ) const;
// Returns the number of external files for a dataset.
int getExternalCount() const;
// Returns information about an external file
void getExternal( int idx, size_t name_size, char* name, off_t& offset, hsize_t& size ) const;
// Creates a copy of an existing dataset creation property list
// using the property list id
DSetCreatPropList( const hid_t plist_id );
// Default constructor
DSetCreatPropList();
// Copy constructor
DSetCreatPropList( const DSetCreatPropList& original );
virtual ~DSetCreatPropList();
// end of class DSetCreatPropList
// Class DSetMemXferPropList provides accesses to a dataset memory and
// transfer property list.
class DSetMemXferPropList : public PropList
// Default object for dataset memory and transfer property list
static const DSetMemXferPropList DEFAULT;
// Copies a dataset memory and transfer property list using
// assignment statement
DSetMemXferPropList& operator=( const DSetMemXferPropList& rhs );
// Sets type conversion and background buffers
void setBuffer( size_t size, void* tconv, void* bkg ) const;
// Reads buffer settings
size_t getBuffer( void** tconv, void** bkg ) const;
// Sets the dataset transfer property list status to TRUE or FALSE
void setPreserve( bool status ) const;
// Checks status of the dataset transfer property list
bool getPreserve() const;
// Indicates whether to cache hyperslab blocks during I/O
void setHyperCache( bool cache, unsigned limit = 0 ) const;
// Returns information regarding the caching of hyperslab blocks during I/O
void getHyperCache( bool& cache, unsigned& limit ) const;
// Sets B-tree split ratios for a dataset transfer property list
void setBtreeRatios( double left, double middle, double right ) const;
// Gets B-tree split ratios for a dataset transfer property list
void getBtreeRatios( double& left, double& middle, double& right ) const;
// Sets the memory manager for variable-length datatype
// allocation in H5Dread and H5Dvlen_reclaim
void setVlenMemManager( H5MM_allocate_t alloc, void* alloc_info,
H5MM_free_t free, void* free_info ) const;
// alloc and free are set to NULL, indicating that system
// malloc and free are to be used
void setVlenMemManager() const;
// Gets the memory manager for variable-length datatype
// allocation in H5Dread and H5Tvlen_reclaim
void getVlenMemManager( H5MM_allocate_t& alloc, void** alloc_info,
H5MM_free_t& free, void** free_info ) const;
// Sets the transfer mode - parallel mode, not currently supported
//void setXfer( H5D_transfer_t data_xfer_mode = H5D_XFER_INDEPENDENT ) const;
// Gets the transfer mode - parallel mode, not currently supported
//H5D_transfer_t getXfer() const;
// Creates a copy of an existing dataset memory and transfer
// property list using the property list id
DSetMemXferPropList (const hid_t plist_id)
// Default constructor
DSetMemXferPropList();
// Copy constructor
DSetMemXferPropList( const DSetMemXferPropList& original );
// Default destructor
virtual ~DSetMemXferPropList();
// end of class DSetMemXferPropList
class EnumType : public DataType
// Creates an empty enumeration datatype based on a native signed
// integer type, whose size is given by size.
EnumType( size_t size );
// Gets the enum datatype of the specified dataset
EnumType( const DataSet& dataset ); // H5Dget_type
// Creates a new enum datatype based on an integer datatype
EnumType( const IntType& data_type ); // H5Tenum_create
// Inserts a new member to this enumeration type.
void insert( const string& name, void *value ) const;
void insert( const char* name, void *value ) const;
// Returns the symbol name corresponding to a specified member
// of this enumeration datatype.
string nameOf( void *value, size_t size ) const;
// Returns the value corresponding to a specified member of this
// enumeration datatype.
void valueOf( const string& name, void *value ) const;
void valueOf( const char* name, void *value ) const;
// Returns the value of an enumeration datatype member
void getMemberValue( int memb_no, void *value ) const;
// Default constructor
EnumType();
// Creates an enumeration datatype using an existing id
EnumType( const hid_t existing_id );
// Copy constructor
EnumType( const EnumType& original );
virtual ~EnumType();
// end of class EnumType
class Exception
// Creates an exception with a detailed message
Exception( const string& message );
Exception( const char* message);
// Returns the character string that describes an error specified by
// a major error number.
string getMajorString( H5E_major_t major_num ) const;
// Returns the character string that describes an error specified by
// a minor error number.
string getMinorString( H5E_minor_t minor_num ) const;
// Returns the detailed message set at the time the exception is thrown
string getDetailMesg() const;
// Turns on the automatic error printing.
void setAutoPrint( H5E_auto_t func,
void* client_data ) const;
// Turns off the automatic error printing.
static void dontPrint();
// Retrieves the current settings for the automatic error stack
// traversal function and its data.
void getAutoPrint( H5E_auto_t& func,
void** client_data ) const;
// Clears the error stack for the current thread.
void clearErrorStack() const;
// Walks the error stack for the current thread, calling the
// specified function.
void walkErrorStack( H5E_direction_t direction,
H5E_walk_t func, void* client_data ) const;
// Default error stack traversal callback function that prints
// error messages to the specified output stream.
void walkDefErrorStack( int n, H5E_error_t& err_desc,
void* client_data ) const;
// Prints the error stack in a default manner.
//void printError() const;
void printError( FILE* stream = NULL ) const;
// Creates an exception with no message
Exception();
// copy constructor
Exception( const Exception& original );
// end of class Exception
// Class FileIException inherits from Exception to provide exception
// handling for H5File.
class FileIException : public Exception
FileIException();
FileIException( string message );
// end of class FileIException
// Class GroupIException inherits from Exception to provide exception
// handling for Group.
class GroupIException : public Exception
GroupIException();
GroupIException( string message );
// end of class GroupIException
// Class DataSpaceIException inherits from Exception to provide exception
// handling for DataSpace.
class DataSpaceIException : public Exception
DataSpaceIException();
DataSpaceIException( string message );
// end of class DataSpaceIException
// Class DataTypeIException inherits from Exception to provide exception
// handling for DataType.
class DataTypeIException : public Exception
DataTypeIException();
DataTypeIException( string message );
// end of class DataTypeIException
// Class PropListIException inherits from Exception to provide exception
// handling for PropList.
class PropListIException : public Exception
PropListIException();
PropListIException( string message );
// end of class PropListIException
// Class DataSetIException inherits from Exception to provide exception
// handling for DataSet.
class DataSetIException : public Exception
DataSetIException();
DataSetIException( string message );
// end of class DataSetIException
// Class AttributeIException inherits from Exception to provide exception
// handling for Attribute.
class AttributeIException : public Exception
AttributeIException();
AttributeIException( string message );
// end of class AttributeIException
// Class LibraryIException inherits from Exception to provide exception
// handling for H5Library.
class LibraryIException : public Exception
LibraryIException();
LibraryIException( string message );
// end of class LibraryIException
// Class IdComponentException inherits from Exception to provide exception
// handling for IdComponent.
class IdComponentException : public Exception
IdComponentException();
IdComponentException( string message );
// end of class IdComponentException
// Class FileAccPropList provides accesses to a file access property list.
class FileAccPropList : public PropList
// Default file access property list object
static const FileAccPropList DEFAULT;
// Copies a file access property list using assignment statement.
FileAccPropList& operator=( const FileAccPropList& rhs );
// Sets alignment properties of this file access property list.
void setAlignment( hsize_t threshold = 1, hsize_t alignment = 1 ) const;
// Retrieves the current settings for alignment properties from
// this file access property list.
void getAlignment( hsize_t& threshold, hsize_t& alignment ) const;
// Sets the meta data cache and raw data chunk cache parameters.
void setCache( int mdc_nelmts, int rdcc_nelmts, size_t rdcc_nbytes, double rdcc_w0 ) const;
// Retrieves maximum sizes of data caches and the preemption
// policy value.
void getCache( int& mdc_nelmts, int& rdcc_nelmts, size_t& rdcc_nbytes, double& rdcc_w0 ) const;
// Sets garbage collecting references flag.
void setGcReferences( unsigned gc_ref = 0 ) const;
// Returns garbage collecting references setting.
unsigned getGcReferences() const;
// Creates a copy of an existing file access property list
// using the property list id.
FileAccPropList (const hid_t plist_id);
// Default constructor
FileAccPropList();
// Copy constructor
FileAccPropList( const FileAccPropList& original );
// Default destructor
virtual ~FileAccPropList();
// end of class FileAccPropList
// Class FileCreatPropList provides accesses to a file creation property list.
class FileCreatPropList : public PropList
// Default file creation property list object
static const FileCreatPropList DEFAULT;
// Copies a file creation property list using assignment statement.
FileCreatPropList& operator=( const FileCreatPropList& rhs );
// Retrieves version information for various parts of a file.
void getVersion( int& boot, int& freelist, int& stab, int& shhdr ) const;
// Sets the userblock size field of a file creation property list.
void setUserblock( hsize_t size ) const;
// Gets the size of a user block in this file creation property list.
hsize_t getUserblock() const;
// Sets file size-of addresses and sizes.
void setSizes( size_t sizeof_addr = 4, size_t sizeof_size = 4 ) const;
// Retrieves the size-of address and size quantities stored in a
// file according to this file creation property list.
void getSizes( size_t& sizeof_addr, size_t& sizeof_size ) const;
// Sets the size of parameters used to control the symbol table nodes.
void setSymk( int int_nodes_k, int leaf_nodes_k ) const;
// Retrieves the size of the symbol table B-tree 1/2 rank and the
// symbol table leaf node 1/2 size.
void getSymk( int& int_nodes_k, int& leaf_nodes_k ) const;
// Sets the size of parameter used to control the B-trees for
// indexing chunked datasets.
void setIstorek( int ik ) const;
// Returns the 1/2 rank of an indexed storage B-tree.
int getIstorek() const;
// Creates a copy of an existing file create property list
// using the property list id.
FileCreatPropList (const hid_t plist_id);
// Default constructor
FileCreatPropList();
// Copy constructor
FileCreatPropList( const FileCreatPropList& original );
// Default destructor
virtual ~FileCreatPropList();
// end of class FileCreatPropList
// Class H5File provides accesses to an HDF5 file. It uses the services
// provided by CommonFG beside inheriting the HDF5 id management from the
// IdComponent class.
class H5File : public IdComponent, public CommonFG
// Creates or opens an HDF5 file. The file creation and access
// property lists can be default.
H5File( const string& name, unsigned int flags, const FileCreatPropList& create_plist = FileCreatPropList::DEFAULT, const FileAccPropList& access_plist = FileAccPropList::DEFAULT );
H5File( const char* name, unsigned int flags, const FileCreatPropList& create_plist = FileCreatPropList::DEFAULT, const FileAccPropList& access_plist = FileAccPropList::DEFAULT );
// Throw file exception - used by CommonFG to specifically throw
// FileIException.
virtual void throwException() const;
// Determines if a file, specified by its name, is in HDF5 format.
static bool isHdf5(const string& name );
static bool isHdf5(const char* name );
// Reopens this file.
void reopen();
// Gets the creation property list of this file.
FileCreatPropList getCreatePlist() const;
// Gets the access property list of this file.
FileAccPropList getAccessPlist() const;
// Copy constructor
H5File(const H5File& original );
virtual ~H5File();
// end of class H5File
// Class FloatType inherits from AtomType and provides accesses to a
// floating-point datatype.
class FloatType : public AtomType
// Creates a floating-point type using a predefined type.
FloatType( const PredType& pred_type );
// Gets the floating-point datatype of the specified dataset.
FloatType( const DataSet& dataset );
// Retrieves floating point datatype bit field information.
void getFields( size_t& spos, size_t& epos, size_t& esize, size_t& mpos, size_t& msize ) const;
// Sets locations and sizes of floating point bit fields.
void setFields( size_t spos, size_t epos, size_t esize, size_t mpos, size_t msize ) const;
// Retrieves the exponent bias of a floating-point type.
size_t getEbias() const;
// Sets the exponent bias of a floating-point type.
void setEbias( size_t ebias ) const;
// Retrieves mantissa normalization of a floating-point datatype.
H5T_norm_t getNorm( string& norm_string ) const;
// Sets the mantissa normalization of a floating-point datatype.
void setNorm( H5T_norm_t norm ) const;
// Retrieves the internal padding type for unused bits in
// floating-point datatypes.
H5T_pad_t getInpad( string& pad_string ) const;
// Fills unused internal floating point bits.
void setInpad( H5T_pad_t inpad ) const;
// Default constructor
FloatType();
// Creates a floating-point datatype using an existing id.
FloatType( const hid_t existing_id );
// Copy constructor
FloatType( const FloatType& original );
virtual ~FloatType();
// end of class FloatType
// Class Group provides accesses to an HDF5 group. As H5File, it uses the
// services provided by CommonFG. This class also inherits from H5Object.
class Group : public H5Object, public CommonFG
public:
// Throw group exception - used by CommonFG to specifically throw
// GroupIException.
virtual void throwException() const;
// Default constructor
Group();
// Copy constructor
Group( const Group& original );
virtual ~Group();
// end of class Group
// Class IdComponent provides a mechanism to handle reference counting
// for an identifier of any HDF5 object.
class IdComponent
// Sets the identifier of this object to a new value.
void setId( hid_t new_id );
// Creates an object to hold an HDF5 identifier.
IdComponent( const hid_t h5_id );
// Gets the value of the current HDF5 object id which is held
// by this IdComponent object.
hid_t getId () const;
// Increment reference counter.
void incRefCount();
// Decrement reference counter.
void decRefCount();
// Get the reference counter to this identifier.
int getCounter();
// Decrements the reference counter then determines if there are
// no more reference to this object.
bool noReference();
// Reset this object by deleting its reference counter of the old id.
void reset();
// Copy constructor
IdComponent( const IdComponent& original );
// Destructor
virtual ~IdComponent();
}; // end class IdComponent
// Class IntType inherits from AtomType and provides accesses to
// integer datatypes.
class IntType : public AtomType
// Creates a integer type using a predefined type.
IntType( const PredType& pred_type );
// Gets the integer datatype of the specified dataset.
IntType( const DataSet& dataset );
// Retrieves the sign type for an integer type.
H5T_sign_t getSign() const;
// Sets the sign proprety for an integer type.
void setSign( H5T_sign_t sign ) const;
// Default constructor
IntType();
// Creates a integer datatype using an existing id.
IntType( const hid_t existing_id );
// Copy constructor
IntType( const IntType& original );
virtual ~IntType();
// end of class IntType
// Class H5Library provides accesses to the HDF5 library. All of its
// member functions are static.
class H5Library
// Initializes the HDF5 library.
static void open();
// Flushes all data to disk, closes files, and cleans up memory.
static void close();
// Instructs library not to install atexit cleanup routine
static void dontAtExit();
// Returns the HDF library release number.
static void getLibVersion( unsigned& majnum, unsigned& minnum, unsigned& relnum );
// Verifies that the arguments match the version numbers compiled
// into the library
static void checkVersion( unsigned majnum, unsigned minnum, unsigned relnum );
// end of class H5Library
// An HDF5 object can be a group, dataset, attribute, or named datatype.
//
// Class H5Object provides the services that are typical to an HDF5 object
// so Group, DataSet, Attribute, and DataType can use them. It also
// inherits the HDF5 id management from the class IdComponent.
class H5Object : public IdComponent
// Flushes all buffers associated with this HDF5 object to disk.
void flush( H5F_scope_t scope ) const;
// Creates an attribute for a group, dataset, or named datatype.
// PropList is currently not used, it should always be default.
Attribute createAttribute( const char* name, const DataType& type, const DataSpace& space, const PropList& create_plist = PropList::DEFAULT ) const;
Attribute createAttribute( const string& name, const DataType& type, const DataSpace& space, const PropList& create_plist = PropList::DEFAULT ) const;
// Opens an attribute that belongs to this object, given the
// attribute name.
Attribute openAttribute( const string& name ) const;
Attribute openAttribute( const char* name ) const;
// Opens an attribute that belongs to this object, given the
// attribute index.
Attribute openAttribute( const unsigned int idx ) const;
// Iterate user's function over the attributes of this HDF5 object
int iterateAttrs( attr_operator_t user_op, unsigned* idx = NULL, void* op_data = NULL );
// Determines the number of attributes attached to this HDF5 object.
int getNumAttrs() const;
// Removes an attribute from this HDF5 object, given the attribute
// name.
void removeAttr( const string& name ) const;
void removeAttr( const char* name ) const;
// Copy constructor
H5Object( const H5Object& original );
virtual ~H5Object();
// end of class H5Object
// Class PredType contains all the predefined datatype objects that are
// currently available.
class PredType : public AtomType
static const PredType STD_I8BE;
static const PredType STD_I8LE;
static const PredType STD_I16BE;
static const PredType STD_I16LE;
static const PredType STD_I32BE;
static const PredType STD_I32LE;
static const PredType STD_I64BE;
static const PredType STD_I64LE;
static const PredType STD_U8BE;
static const PredType STD_U8LE;
static const PredType STD_U16BE;
static const PredType STD_U16LE;
static const PredType STD_U32BE;
static const PredType STD_U32LE;
static const PredType STD_U64BE;
static const PredType STD_U64LE;
static const PredType STD_B8BE;
static const PredType STD_B8LE;
static const PredType STD_B16BE;
static const PredType STD_B16LE;
static const PredType STD_B32BE;
static const PredType STD_B32LE;
static const PredType STD_B64BE;
static const PredType STD_B64LE;
static const PredType STD_REF_OBJ;
static const PredType STD_REF_DSETREG;
static const PredType C_S1;
static const PredType FORTRAN_S1;
static const PredType IEEE_F32BE;
static const PredType IEEE_F32LE;
static const PredType IEEE_F64BE;
static const PredType IEEE_F64LE;
static const PredType UNIX_D32BE;
static const PredType UNIX_D32LE;
static const PredType UNIX_D64BE;
static const PredType UNIX_D64LE;
static const PredType INTEL_I8;
static const PredType INTEL_I16;
static const PredType INTEL_I32;
static const PredType INTEL_I64;
static const PredType INTEL_U8;
static const PredType INTEL_U16;
static const PredType INTEL_U32;
static const PredType INTEL_U64;
static const PredType INTEL_B8;
static const PredType INTEL_B16;
static const PredType INTEL_B32;
static const PredType INTEL_B64;
static const PredType INTEL_F32;
static const PredType INTEL_F64;
static const PredType ALPHA_I8;
static const PredType ALPHA_I16;
static const PredType ALPHA_I32;
static const PredType ALPHA_I64;
static const PredType ALPHA_U8;
static const PredType ALPHA_U16;
static const PredType ALPHA_U32;
static const PredType ALPHA_U64;
static const PredType ALPHA_B8;
static const PredType ALPHA_B16;
static const PredType ALPHA_B32;
static const PredType ALPHA_B64;
static const PredType ALPHA_F32;
static const PredType ALPHA_F64;
static const PredType MIPS_I8;
static const PredType MIPS_I16;
static const PredType MIPS_I32;
static const PredType MIPS_I64;
static const PredType MIPS_U8;
static const PredType MIPS_U16;
static const PredType MIPS_U32;
static const PredType MIPS_U64;
static const PredType MIPS_B8;
static const PredType MIPS_B16;
static const PredType MIPS_B32;
static const PredType MIPS_B64;
static const PredType MIPS_F32;
static const PredType MIPS_F64;
static const PredType NATIVE_CHAR;
static const PredType NATIVE_SCHAR;
static const PredType NATIVE_UCHAR;
static const PredType NATIVE_SHORT;
static const PredType NATIVE_USHORT;
static const PredType NATIVE_INT;
static const PredType NATIVE_UINT;
static const PredType NATIVE_LONG;
static const PredType NATIVE_ULONG;
static const PredType NATIVE_LLONG;
static const PredType NATIVE_ULLONG;
static const PredType NATIVE_FLOAT;
static const PredType NATIVE_DOUBLE;
static const PredType NATIVE_LDOUBLE;
static const PredType NATIVE_B8;
static const PredType NATIVE_B16;
static const PredType NATIVE_B32;
static const PredType NATIVE_B64;
static const PredType NATIVE_OPAQUE;
static const PredType NATIVE_HSIZE;
static const PredType NATIVE_HSSIZE;
static const PredType NATIVE_HERR;
static const PredType NATIVE_HBOOL;
static const PredType NATIVE_INT8;
static const PredType NATIVE_UINT8;
static const PredType NATIVE_INT_LEAST8;
static const PredType NATIVE_UINT_LEAST8;
static const PredType NATIVE_INT_FAST8;
static const PredType NATIVE_UINT_FAST8;
static const PredType NATIVE_INT16;
static const PredType NATIVE_UINT16;
static const PredType NATIVE_INT_LEAST16;
static const PredType NATIVE_UINT_LEAST16;
static const PredType NATIVE_INT_FAST16;
static const PredType NATIVE_UINT_FAST16;
static const PredType NATIVE_INT32;
static const PredType NATIVE_UINT32;
static const PredType NATIVE_INT_LEAST32;
static const PredType NATIVE_UINT_LEAST32;
static const PredType NATIVE_INT_FAST32;
static const PredType NATIVE_UINT_FAST32;
static const PredType NATIVE_INT64;
static const PredType NATIVE_UINT64;
static const PredType NATIVE_INT_LEAST64;
static const PredType NATIVE_UINT_LEAST64;
static const PredType NATIVE_INT_FAST64;
static const PredType NATIVE_UINT_FAST64;
// Copy constructor
PredType( const PredType& original );
// Default destructor
virtual ~PredType();
protected:
// Default constructor
PredType();
// Creates a pre-defined type using an HDF5 pre-defined constant
PredType( const hid_t predtype_id ); // used by the library only
// end of class PredType
// An HDF5 property list can be a file creation property list, a file
// access property list, a dataset creation property list, or a dataset
// memory and transfer property list.
//
// Class PropList provides accesses to an HDF5 property list. Its
// services are inherited by classes FileCreatPropList, FileAccPropList,
// DSetCreatPropList, and DSetMemXferPropList. It also inherits the HDF5
// id management from the class IdComponent.
class PropList : public IdComponent
// Default property list object
static const PropList DEFAULT;
// Creates a property list given the property list type.
PropList( H5P_class_t type );
// Makes a copy of the given property list.
void copy( const PropList& like_plist );
// Gets the class of this property list, i.e. H5P_FILE_CREATE,
// H5P_FILE_ACCESS, ...
H5P_class_t getClass() const;
// Default constructor
PropList();
// Copy constructor
PropList( const PropList& original );
// Creates a default property list or creates a copy of an
// existing property list giving the property list id
PropList( const hid_t plist_id );
virtual ~PropList();
// end of class PropList
// Class RefCounter provides a reference counting mechanism. It is used
// mainly by IdComponent to keep track of the references to an HDF5 object
// identifier.
class RefCounter
// Returns the value of the counter.
int getCounter () const;
// Increments and decrements the counter.
void increment();
void decrement();
// This bool function is used to determine whether to close an
// HDF5 object when there are no more reference to that object.
// It decrements the counter, then returns true if there are no
// other object references the associated identifier. When the
// function returns true, the associated identifier can be closed
// safely.
bool noReference();
// Default constructor
RefCounter();
~RefCounter();
// end of class RefCounter
// Class StrType inherits from AtomType and provides accesses to a
// string datatype.
class StrType : public AtomType
public:
// Creates a string type using a predefined type.
StrType( const PredType& pred_type );
// Gets the string datatype of the specified dataset.
StrType( const DataSet& dataset );
// Returns the character set type of this string datatype.
H5T_cset_t getCset() const;
// Sets character set to be used.
void setCset( H5T_cset_t cset ) const;
// Returns the string padding method for this string datatype.
H5T_str_t getStrpad() const;
// Defines the storage mechanism for character strings.
void setStrpad( H5T_str_t strpad ) const;
// Default constructor
StrType();
// Copy constructor
StrType( const StrType& original );
// Creates a string datatype using an existing id.
StrType( const hid_t existing_id );
virtual ~StrType();
// end of class StrType
// This template function, resetIdComponent, is used to reset an
// IdComponent object, which includes closing the associated HDF5
// identifier if it has no other references.
// 'Type' can be of the following classes: Attribute, DataSet, DataSpace,
// DataType, H5File, Group, and PropList.
template
void resetIdComponent(
Type* obj ) // pointer to object to be reset
Last modified: 17 December 2000
Describes HDF5 Release 1.4 Beta, December 2000