/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * Copyright by The HDF Group. * * Copyright by the Board of Trustees of the University of Illinois. * * All rights reserved. * * * * This file is part of HDF5. The full HDF5 copyright notice, including * * terms governing use, modification, and redistribution, is contained in * * the COPYING file, which can be found at the root of the source code * * distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases. * * If you do not have access to either file, you may request a copy from * * help@hdfgroup.org. * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ #ifdef OLD_HEADER_FILENAME #include #else #include #endif #include #include "H5private.h" // for HDfree #include "H5Include.h" #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" #include "H5FaccProp.h" #include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" #include "H5LaccProp.h" #include "H5Location.h" #include "H5Object.h" #include "H5AbstractDs.h" #include "H5DataType.h" #include "H5DataSpace.h" #include "H5Attribute.h" namespace H5 { using std::cerr; using std::endl; class H5_DLLCPP H5Object; // forward declaration for UserData4Aiterate //-------------------------------------------------------------------------- // Function: Attribute default constructor ///\brief Default constructor: Creates a stub attribute // Programmer Binh-Minh Ribler - May, 2004 //-------------------------------------------------------------------------- Attribute::Attribute() : AbstractDs(), H5Location(), id(H5I_INVALID_HID) {} //-------------------------------------------------------------------------- // Function: Attribute copy constructor ///\brief Copy constructor: makes a copy of the original Attribute object. ///\param original - IN: Original Attribute object to copy // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- Attribute::Attribute(const Attribute& original) : AbstractDs(), H5Location(), id(original.id) { incRefCount(); // increment number of references to this id } //-------------------------------------------------------------------------- // Function: Attribute overloaded constructor ///\brief Creates an Attribute object using the id of an existing /// attribute. ///\param existing_id - IN: Id of an existing attribute ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- Attribute::Attribute(const hid_t existing_id) : AbstractDs(), H5Location(), id(existing_id) { incRefCount(); // increment number of references to this id } //-------------------------------------------------------------------------- // Function: Attribute::write ///\brief Writes data to this attribute. ///\param mem_type - IN: Attribute datatype (in memory) ///\param buf - IN: Data to be written ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- void Attribute::write(const DataType& mem_type, const void *buf) const { herr_t ret_value = H5Awrite(id, mem_type.getId(), buf); if (ret_value < 0) { throw AttributeIException("Attribute::write", "H5Awrite failed"); } } //-------------------------------------------------------------------------- // Function: Attribute::write ///\brief This is an overloaded member function, provided for convenience. /// It writes a \a H5std_string to this attribute. ///\param mem_type - IN: Attribute datatype (in memory) ///\param strg - IN: Data to be written ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - Apr, 2003 //-------------------------------------------------------------------------- void Attribute::write(const DataType& mem_type, const H5std_string& strg) const { // Check if this attribute has variable-len string or fixed-len string and // proceed appropriately. htri_t is_variable_len = H5Tis_variable_str(mem_type.getId()); if (is_variable_len < 0) { throw AttributeIException("Attribute::write", "H5Tis_variable_str failed"); } // Convert string to C-string const char* strg_C; strg_C = strg.c_str(); // strg_C refers to the contents of strg as a C-str herr_t ret_value = 0; // Pass string in differently depends on variable or fixed length if (!is_variable_len) { ret_value = H5Awrite(id, mem_type.getId(), strg_C); } else { // passing third argument by address ret_value = H5Awrite(id, mem_type.getId(), &strg_C); } if (ret_value < 0) { throw AttributeIException("Attribute::write", "H5Awrite failed"); } } //-------------------------------------------------------------------------- // Function: Attribute::read ///\brief Reads data from this attribute. ///\param mem_type - IN: Attribute datatype (in memory) ///\param buf - OUT: Buffer for read data ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- void Attribute::read(const DataType& mem_type, void *buf) const { herr_t ret_value = H5Aread(id, mem_type.getId(), buf); if (ret_value < 0) { throw AttributeIException("Attribute::read", "H5Aread failed"); } } //-------------------------------------------------------------------------- // Function: Attribute::read ///\brief This is an overloaded member function, provided for convenience. /// It reads a \a H5std_string from this attribute. ///\param mem_type - IN: Attribute datatype (in memory) ///\param strg - IN: Buffer for read string ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - Apr, 2003 // Modification // Mar 2008 // Corrected a misunderstanding that H5Aread would allocate // space for the buffer. Obtained the attribute size and // allocated memory properly. -BMR // Apr 2009 // Used getInMemDataSize to get attribute data size. -BMR // Jul 2009 // Divided into specific private functions for fixed- and // variable-len string data: p_read_fixed_len and // p_read_variable_len. This should improve readability. -BMR //-------------------------------------------------------------------------- void Attribute::read(const DataType& mem_type, H5std_string& strg) const { // Check if this attribute has variable-len string or fixed-len string and // proceed appropriately. htri_t is_variable_len = H5Tis_variable_str(mem_type.getId()); if (is_variable_len < 0) { throw AttributeIException("Attribute::read", "H5Tis_variable_str failed"); } if (!is_variable_len) // only allocate for fixed-len string { p_read_fixed_len(mem_type, strg); } else { p_read_variable_len(mem_type, strg); } } //-------------------------------------------------------------------------- // Function: Attribute::getInMemDataSize ///\brief Gets the size in memory of the attribute's data. ///\return Size of data (in memory) ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - Apr 2009 //-------------------------------------------------------------------------- size_t Attribute::getInMemDataSize() const { const char *func = "Attribute::getInMemDataSize"; // Get the data type of this attribute hid_t mem_type_id = H5Aget_type(id); if (mem_type_id < 0) { throw AttributeIException(func, "H5Aget_type failed"); } // Get the data type's size by first getting its native type then getting // the native type's size. hid_t native_type = H5Tget_native_type(mem_type_id, H5T_DIR_DEFAULT); if (native_type < 0) { throw AttributeIException(func, "H5Tget_native_type failed"); } size_t type_size = H5Tget_size(native_type); if (type_size == 0) { throw AttributeIException(func, "H5Tget_size failed"); } // Close the native type and the datatype of this attribute. if (H5Tclose(native_type) < 0) { throw DataSetIException(func, "H5Tclose(native_type) failed"); } if (H5Tclose(mem_type_id) < 0) { throw DataSetIException(func, "H5Tclose(mem_type_id) failed"); } // Get number of elements of the attribute by first getting its dataspace // then getting the number of elements in the dataspace hid_t space_id = H5Aget_space(id); if (space_id < 0) { throw AttributeIException(func, "H5Aget_space failed"); } hssize_t num_elements = H5Sget_simple_extent_npoints(space_id); if (num_elements < 0) { throw AttributeIException(func, "H5Sget_simple_extent_npoints failed"); } // Close the dataspace if (H5Sclose(space_id) < 0) { throw DataSetIException(func, "H5Sclose failed"); } // Calculate and return the size of the data size_t data_size = type_size * num_elements; return(data_size); } //-------------------------------------------------------------------------- // Function: Attribute::getSpace ///\brief Gets a copy of the dataspace for this attribute. ///\return Dataspace instance ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- DataSpace Attribute::getSpace() const { // Calls C function H5Aget_space to get the id of the dataspace hid_t dataspace_id = H5Aget_space(id); // If the dataspace id is valid, create and return the DataSpace object if (dataspace_id > 0) { DataSpace dataspace; f_DataSpace_setId(&dataspace, dataspace_id); return(dataspace); } else { throw AttributeIException("Attribute::getSpace", "H5Aget_space failed"); } } //-------------------------------------------------------------------------- // Function: Attribute::getName ///\brief Gets the name of this attribute, returning its length. ///\param attr_name - OUT: Buffer for the name string as char* ///\param buf_size - IN: Length of the buffer, default to 0 ///\return Actual length of the attribute name ///\exception H5::AttributeIException ///\par Description /// This function retrieves \a buf_size chars of the attribute's /// name including null termination. Thus, if the actual length /// of the name is more than buf_size-1, the retrieved name will /// be truncated to accommodate the null terminator. /// To get length of the attribute's name for buffer allocation, /// an application can call this function passing in NULL for the /// first argument and ignore the second argument. // Programmer Binh-Minh Ribler - Mar, 2014 //-------------------------------------------------------------------------- ssize_t Attribute::getName(char* attr_name, size_t buf_size) const { // H5Aget_name will get buf_size-1 chars of the name to null terminate it ssize_t name_size = H5Aget_name(id, buf_size, attr_name); // If H5Aget_name returns a negative value, raise an exception if (name_size < 0) { throw AttributeIException("Attribute::getName", "H5Aget_name failed"); } else if (name_size == 0) { throw AttributeIException("Attribute::getName", "Attribute must have a name, name length is 0"); } // Return length of the name return(name_size); } //-------------------------------------------------------------------------- // Function: Attribute::getName ///\brief Returns the name of this attribute as an \a H5std_string. ///\return Name of the attribute ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - May, 2004 // Modification // Mar 2014 - BMR // Revised to use the modified getName() above //-------------------------------------------------------------------------- H5std_string Attribute::getName() const { H5std_string attr_name(""); // attribute name to return // Preliminary call to get the size of the attribute name ssize_t name_size = H5Aget_name(id, static_cast(0), NULL); // If H5Aget_name failed, throw exception if (name_size < 0) { throw AttributeIException("Attribute::getName", "H5Aget_name failed"); } else if (name_size == 0) { throw AttributeIException("Attribute::getName", "Attribute must have a name, name length is 0"); } // Attribute's name exists, retrieve it else if (name_size > 0) { char* name_C = new char[name_size+1]; // temporary C-string HDmemset(name_C, 0, name_size+1); // clear buffer // Use overloaded function name_size = getName(name_C, name_size+1); // Convert the C attribute name to return attr_name = name_C; // Clean up resource delete []name_C; } // Return attribute's name return(attr_name); } //-------------------------------------------------------------------------- // Function: Attribute::getName ///\brief This is an overloaded member function, provided for convenience. /// It differs from the above function in that it takes an integer /// specifying a desired length to be retrieved of the name. ///\return Name (or part of name) of the attribute ///\param len - IN: Desired length of the name ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - 2000 // Modification // Mar 2014 - BMR // Revised to use the new getName() below //-------------------------------------------------------------------------- H5std_string Attribute::getName(size_t len) const { H5std_string attr_name; ssize_t name_size = getName(attr_name, len); if (name_size < 0) return(""); else return(attr_name); } //-------------------------------------------------------------------------- // Function: Attribute::getName ///\brief Gets the name of this attribute, returning its length. ///\param attr_name - OUT: Buffer for the name string as \a H5std_string ///\param len - IN: Desired length of the name, default to 0 ///\return Actual length of the attribute name ///\exception H5::AttributeIException ///\par Description /// This function retrieves the attribute's name as a string. The /// buf_size can specify a specific length or default to 0, in /// which case the entire name will be retrieved. // Programmer Binh-Minh Ribler - Nov, 2001 // Modification // Mar 2014 - BMR // Added to replace getName(size_t, H5std_string&) so that it'll // allow the argument "len" to be skipped. //-------------------------------------------------------------------------- ssize_t Attribute::getName(H5std_string& attr_name, size_t len) const { ssize_t name_size = 0; // If no length is provided, get the entire attribute name if (len == 0) { attr_name = getName(); name_size = attr_name.length(); } // If length is provided, get that number of characters in name else { char* name_C = new char[len+1]; // temporary C-string HDmemset(name_C, 0, len+1); // clear buffer // Use overloaded function name_size = getName(name_C, len+1); // Convert the C attribute name to return attr_name = name_C; // Clean up resource delete []name_C; } // Otherwise, keep attr_name intact // Return name size return(name_size); } //-------------------------------------------------------------------------- // Function: Attribute::getName // Purpose This function is replaced by the previous function, which // provides more convenient prototype. It will be removed // in future release. // Param len - IN: Desired length of the name // Param attr_name - OUT: Buffer for the name string // Return Actual length of the attribute name // Exception H5::AttributeIException // Programmer Binh-Minh Ribler - Nov, 2001 // Modification // Modified to call its replacement. -BMR, 2014/04/16 // Removed from documentation. -BMR, 2016/03/07 1.8.17 and 1.10.0 // Removed from code. -BMR, 2016/08/11 1.8.18 and 1.10.1 //-------------------------------------------------------------------------- //ssize_t Attribute::getName(size_t len, H5std_string& attr_name) const //{ // return (getName(attr_name, len)); //} //-------------------------------------------------------------------------- // Function: Attribute::getStorageSize ///\brief Returns the amount of storage size required for this attribute. ///\return Size of the storage or 0, for no data ///\exception H5::AttributeIException // Note: H5Dget_storage_size returns 0 when there is no data. This // function should have no failure. (from SLU) // Programmer Binh-Minh Ribler - Mar, 2005 //-------------------------------------------------------------------------- hsize_t Attribute::getStorageSize() const { hsize_t storage_size = H5Aget_storage_size(id); return (storage_size); } //-------------------------------------------------------------------------- // Function: Attribute::getId ///\brief Get the id of this attribute ///\return Attribute identifier // Description: // Class hierarchy is revised to address bugzilla 1068. Class // AbstractDS and Attribute are moved out of H5Object. In // addition, member IdComponent::id is moved into subclasses, and // IdComponent::getId now becomes pure virtual function. // Programmer Binh-Minh Ribler - May, 2008 // Modification // Aug 2016 - BMR // Note that Attribute is now inheriting from H5Location, because // an attribute id can be used to specify a location in HDF5 // library. //-------------------------------------------------------------------------- hid_t Attribute::getId() const { return(id); } //-------------------------------------------------------------------------- // Function: Attribute::p_get_type (private) // Purpose Gets the datatype of this attribute. // Return Id of the datatype // Exception H5::AttributeIException // Description // This private function is used in AbstractDs. // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- hid_t Attribute::p_get_type() const { hid_t type_id = H5Aget_type(id); if (type_id > 0) return(type_id); else { throw AttributeIException("", "H5Aget_type failed"); } } //-------------------------------------------------------------------------- // Function: Attribute::p_read_fixed_len (private) // brief Reads a fixed length \a H5std_string from an attribute. // param mem_type - IN: Attribute datatype (in memory) // param strg - IN: Buffer for read string // exception H5::AttributeIException // Programmer Binh-Minh Ribler - Jul, 2009 // Modification // Jul 2009 // Separated the fixed length case from the original // Attribute::read //-------------------------------------------------------------------------- void Attribute::p_read_fixed_len(const DataType& mem_type, H5std_string& strg) const { // Only allocate for fixed-len string. // Get the size of the attribute's data size_t attr_size = getInMemDataSize(); // If there is data, allocate buffer and read it. if (attr_size > 0) { char *strg_C = new char[attr_size+1]; herr_t ret_value = H5Aread(id, mem_type.getId(), strg_C); if (ret_value < 0) { delete []strg_C; // de-allocate for fixed-len string throw AttributeIException("Attribute::read", "H5Aread failed"); } // Get string from the C char* and release resource allocated locally strg_C[attr_size] = '\0'; strg = strg_C; delete []strg_C; } } //-------------------------------------------------------------------------- // Function: Attribute::p_read_variable_len (private) // brief Reads a variable length \a H5std_string from an attribute. // param mem_type - IN: Attribute datatype (in memory) // param strg - IN: Buffer for read string // exception H5::AttributeIException // Programmer Binh-Minh Ribler - Jul, 2009 // Modification // Jul 2009 // Separated the variable length case from the original // Attribute::read. -BMR //-------------------------------------------------------------------------- void Attribute::p_read_variable_len(const DataType& mem_type, H5std_string& strg) const { // Prepare and call C API to read attribute. char *strg_C; // Read attribute, no allocation for variable-len string; C library will herr_t ret_value = H5Aread(id, mem_type.getId(), &strg_C); if (ret_value < 0) { throw AttributeIException("Attribute::read", "H5Aread failed"); } // Get string from the C char* and release resource allocated by C API strg = strg_C; HDfree(strg_C); } #ifndef DOXYGEN_SHOULD_SKIP_THIS //-------------------------------------------------------------------------- // Function: Attribute::p_setId ///\brief Sets the identifier of this object to a new value. /// ///\exception H5::IdComponentException when the attempt to close the HDF5 /// object fails // Description: // The underlaying reference counting in the C library ensures // that the current valid id of this object is properly closed. // Then the object's id is reset to the new id. // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- void Attribute::p_setId(const hid_t new_id) { // handling references to this old id try { close(); } catch (Exception& close_error) { throw AttributeIException("Attribute::p_setId", close_error.getDetailMsg()); } // reset object's id to the given id id = new_id; } #endif // DOXYGEN_SHOULD_SKIP_THIS //-------------------------------------------------------------------------- // Function: Attribute::close ///\brief Closes this attribute. /// ///\exception H5::AttributeIException // Programmer Binh-Minh Ribler - Mar 9, 2005 //-------------------------------------------------------------------------- void Attribute::close() { if (p_valid_id(id)) { herr_t ret_value = H5Aclose(id); if (ret_value < 0) { throw AttributeIException("Attribute::close", "H5Aclose failed"); } // reset the id id = H5I_INVALID_HID; } } //-------------------------------------------------------------------------- // Function: Attribute destructor ///\brief Properly terminates access to this attribute. // Programmer Binh-Minh Ribler - 2000 // Modification // - Replaced resetIdComponent() with decRefCount() to use C // library ID reference counting mechanism - BMR, Jun 1, 2004 // - Replaced decRefCount with close() to let the C library // handle the reference counting - BMR, Jun 1, 2006 //-------------------------------------------------------------------------- Attribute::~Attribute() { try { close(); } catch (Exception& close_error) { cerr << "Attribute::~Attribute - " << close_error.getDetailMsg() << endl; } } } // end namespace