diff options
31 files changed, 2070 insertions, 1469 deletions
diff --git a/c++/src/H5AbstractDs.cpp b/c++/src/H5AbstractDs.cpp index f0579fc..ac10bf8 100644 --- a/c++/src/H5AbstractDs.cpp +++ b/c++/src/H5AbstractDs.cpp @@ -19,12 +19,15 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" +#include "H5FaccProp.h" +#include "H5FcreatProp.h" +#include "H5OcreatProp.h" +#include "H5DcreatProp.h" +#include "H5DxferProp.h" #include "H5Location.h" #include "H5Object.h" -#include "H5AbstractDs.h" #include "H5DataSpace.h" -#include "H5OcreatProp.h" -#include "H5DcreatProp.h" +#include "H5AbstractDs.h" #include "H5Alltypes.h" #ifndef H5_NO_NAMESPACE diff --git a/c++/src/H5ArrayType.cpp b/c++/src/H5ArrayType.cpp index d7d1a35..9646a6f 100644 --- a/c++/src/H5ArrayType.cpp +++ b/c++/src/H5ArrayType.cpp @@ -19,10 +19,10 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5ArrayType.h" diff --git a/c++/src/H5AtomType.cpp b/c++/src/H5AtomType.cpp index 6308821..7871455 100644 --- a/c++/src/H5AtomType.cpp +++ b/c++/src/H5AtomType.cpp @@ -19,10 +19,10 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5AtomType.h" diff --git a/c++/src/H5Attribute.cpp b/c++/src/H5Attribute.cpp index 5454583..0a8ec52 100644 --- a/c++/src/H5Attribute.cpp +++ b/c++/src/H5Attribute.cpp @@ -24,13 +24,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" -#include "H5AbstractDs.h" #include "H5FaccProp.h" #include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" +#include "H5AbstractDs.h" #include "H5DataType.h" #include "H5DataSpace.h" #include "H5Group.h" diff --git a/c++/src/H5CommonFG.cpp b/c++/src/H5CommonFG.cpp index 0c18293..f79a048 100644 --- a/c++/src/H5CommonFG.cpp +++ b/c++/src/H5CommonFG.cpp @@ -19,13 +19,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5FaccProp.h" #include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DxferProp.h" #include "H5DcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5CommonFG.h" #include "H5Group.h" #include "H5AbstractDs.h" @@ -73,4 +73,3 @@ CommonFG::~CommonFG() {} #ifndef H5_NO_NAMESPACE } #endif - diff --git a/c++/src/H5CompType.cpp b/c++/src/H5CompType.cpp index 6105273..b7c5687 100644 --- a/c++/src/H5CompType.cpp +++ b/c++/src/H5CompType.cpp @@ -19,13 +19,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5DxferProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5Alltypes.h" #include "H5AbstractDs.h" -#include "H5DxferProp.h" #include "H5DataSpace.h" #include "H5DataSet.h" #include "H5private.h" diff --git a/c++/src/H5Cpp.h b/c++/src/H5Cpp.h index 4e82ee3..56b2f7f 100644 --- a/c++/src/H5Cpp.h +++ b/c++/src/H5Cpp.h @@ -22,17 +22,17 @@ #include "H5IdComponent.h" #include "H5DataSpace.h" #include "H5PropList.h" +#include "H5FaccProp.h" +#include "H5FcreatProp.h" +#include "H5OcreatProp.h" +#include "H5DcreatProp.h" +#include "H5DxferProp.h" #include "H5Location.h" #include "H5Object.h" #include "H5AbstractDs.h" #include "H5Attribute.h" -#include "H5OcreatProp.h" -#include "H5DcreatProp.h" -#include "H5CommonFG.h" +//#include "H5CommonFG.h" #include "H5DataType.h" -#include "H5DxferProp.h" -#include "H5FaccProp.h" -#include "H5FcreatProp.h" #include "H5AtomType.h" #include "H5PredType.h" #include "H5EnumType.h" diff --git a/c++/src/H5DataSet.cpp b/c++/src/H5DataSet.cpp index 4b5d0b7..e4d6665 100644 --- a/c++/src/H5DataSet.cpp +++ b/c++/src/H5DataSet.cpp @@ -24,14 +24,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" -#include "H5PropList.h" +#include "H5FaccProp.h" +#include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DxferProp.h" #include "H5DcreatProp.h" -#include "H5FaccProp.h" -#include "H5FcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5DataSpace.h" #include "H5AbstractDs.h" diff --git a/c++/src/H5DataType.cpp b/c++/src/H5DataType.cpp index b784dd4..a36dc60 100644 --- a/c++/src/H5DataType.cpp +++ b/c++/src/H5DataType.cpp @@ -24,14 +24,14 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5DataSpace.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5FaccProp.h" #include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" #include "H5DxferProp.h" +#include "H5DataSpace.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5AtomType.h" #include "H5PredType.h" diff --git a/c++/src/H5DcreatProp.cpp b/c++/src/H5DcreatProp.cpp index 06b5024..d540c72 100644 --- a/c++/src/H5DcreatProp.cpp +++ b/c++/src/H5DcreatProp.cpp @@ -20,9 +20,9 @@ #include "H5IdComponent.h" #include "H5PropList.h" #include "H5OcreatProp.h" +#include "H5DcreatProp.h" #include "H5Location.h" #include "H5Object.h" -#include "H5DcreatProp.h" #include "H5DataType.h" #ifndef H5_NO_NAMESPACE diff --git a/c++/src/H5DcreatProp.h b/c++/src/H5DcreatProp.h index fed41b4..fa7b1c1 100644 --- a/c++/src/H5DcreatProp.h +++ b/c++/src/H5DcreatProp.h @@ -24,6 +24,8 @@ namespace H5 { #endif +class DataType; + /*! \class DSetCreatPropList \brief Class DSetCreatPropList represents the dataset creation property list. diff --git a/c++/src/H5EnumType.cpp b/c++/src/H5EnumType.cpp index f0a2138..32cb1ac 100644 --- a/c++/src/H5EnumType.cpp +++ b/c++/src/H5EnumType.cpp @@ -19,13 +19,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" +#include "H5OcreatProp.h" +#include "H5DcreatProp.h" +#include "H5DxferProp.h" +#include "H5DataSpace.h" #include "H5Location.h" #include "H5Object.h" #include "H5AbstractDs.h" -#include "H5DxferProp.h" -#include "H5DataSpace.h" -#include "H5OcreatProp.h" -#include "H5DcreatProp.h" #include "H5DataType.h" #include "H5DataSet.h" #include "H5AtomType.h" diff --git a/c++/src/H5File.cpp b/c++/src/H5File.cpp index a81efd8..246da9f 100644 --- a/c++/src/H5File.cpp +++ b/c++/src/H5File.cpp @@ -24,13 +24,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5FaccProp.h" #include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DxferProp.h" #include "H5DcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5Group.h" #include "H5AbstractDs.h" #include "H5DataSpace.h" @@ -563,6 +563,9 @@ void H5File::reopen() // This function is a redefinition of CommonFG::getLocId. It // is used by CommonFG member functions to get the file id. // Programmer Binh-Minh Ribler - 2000 +// Deprecated: +// After HDFFV-9920, the Group's methods can use getId() and getLocId() +// is kept for backward compatibility. Aug 18, 2016 -BMR //-------------------------------------------------------------------------- hid_t H5File::getLocId() const { @@ -623,11 +626,10 @@ void H5File::close() ///\param msg - Message describing the failure ///\exception H5::FileIException // Description -// This function is used in CommonFG implementation so that +// This function is also used in H5Location implementation so that // proper exception can be thrown for file or group. The -// argument func_name is a member of CommonFG and "H5File::" -// will be inserted to indicate the function called is an -// implementation of H5File. +// "H5File::" will be inserted to indicate the function called is +// an implementation of H5File. // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- void H5File::throwException(const H5std_string& func_name, const H5std_string& msg) const diff --git a/c++/src/H5FloatType.cpp b/c++/src/H5FloatType.cpp index ed17aeb..c019ae4 100644 --- a/c++/src/H5FloatType.cpp +++ b/c++/src/H5FloatType.cpp @@ -19,13 +19,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5DxferProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5AbstractDs.h" -#include "H5DxferProp.h" #include "H5DataSpace.h" #include "H5AtomType.h" #include "H5FloatType.h" diff --git a/c++/src/H5Group.cpp b/c++/src/H5Group.cpp index d93d3a1..0e19e6f 100644 --- a/c++/src/H5Group.cpp +++ b/c++/src/H5Group.cpp @@ -24,14 +24,14 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" -#include "H5AbstractDs.h" #include "H5FaccProp.h" #include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" #include "H5DxferProp.h" +#include "H5Location.h" +#include "H5Object.h" +#include "H5AbstractDs.h" #include "H5DataSpace.h" #include "H5DataSet.h" #include "H5Attribute.h" @@ -68,9 +68,11 @@ Group::Group(const Group& original) : H5Object(), id(original.id) //-------------------------------------------------------------------------- // Function: Group::getLocId -///\brief Returns the id of this group. -///\return Id of this group +// Purpose: Get the id of this group // Programmer Binh-Minh Ribler - 2000 +// Description +// This function is a redefinition of CommonFG::getLocId. It +// is used by CommonFG member functions to get the file id. // Deprecated: // After HDFFV-9920, the Group's methods can use getId() and getLocId() // is kept for backward compatibility. Aug 18, 2016 -BMR @@ -196,11 +198,10 @@ void Group::close() ///\param msg - Message describing the failure ///\exception H5::GroupIException // Description -// This function is used in CommonFG implementation so that +// This function is also used in H5Location's methods so that // proper exception can be thrown for file or group. The -// argument func_name is a member of CommonFG and "Group::" -// will be inserted to indicate the function called is an -// implementation of Group. +// "Group::" will be inserted to indicate the function called is +// an implementation of Group. // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- void Group::throwException(const H5std_string& func_name, const H5std_string& msg) const @@ -230,1269 +231,6 @@ Group::~Group() } } - -// From H5CommonFG.cpp -// Notes with "***Updated" are new and for Group.cpp -// Original notes are from December 2000 -// -// There are a few comments that are common to most of the functions -// defined in this file so they are listed here. -// - getLocId is called by all functions, that call a C API, to get -// the location id, which can be either a file id or a group id. -// This function is pure virtual and it's up to H5File and Group -// to call the right getId() - although, as the structure of the -// library at this time, getId() is basically the IdComponent::getId() -// ***Updated: after the classes are rearranged (HDFFV-9920), functions -// in CommonFG are moved to Group, and they can call getId() -// instead of getLocId(). getLocId() is kept for backward -// compatibility on user applications. Aug 18, 2016 -BMR -// - when a failure returned by the C API, the functions will call -// throwException, which is a pure virtual function and is implemented -// by H5File to throw a FileIException and by Group to throw a -// GroupIException. -// ***Updated: after HDFFV-9920, methods in class Group use throwException -// to distinguish the FileIException and GroupIException. CommonFG is no -// longer used in the library. Aug 18, 2016 -BMR - -//-------------------------------------------------------------------------- -// Function: Group::createGroup -///\brief Creates a new group at this location which can be a file -/// or another group. -///\param name - IN: Name of the group to create -///\param size_hint - IN: Indicates the number of bytes to reserve for -/// the names that will appear in the group -///\return Group instance -///\exception H5::FileIException or H5::GroupIException -///\par Description -/// The optional \a size_hint specifies how much file space to -/// reserve for storing the names that will appear in this new -/// group. If a non-positive value is provided for the \a size_hint -/// then a default size is chosen. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -Group Group::createGroup( const char* name, size_t size_hint ) const -{ - // Group creation property list for size hint - hid_t gcpl_id = 0; - - // Set the local heap size hint - if (size_hint > 0) - { - // If the creation of the property list failed, throw an exception - if ((gcpl_id = H5Pcreate(H5P_GROUP_CREATE)) < 0) - throwException("createGroup", "H5Pcreate failed"); - - if (H5Pset_local_heap_size_hint(gcpl_id, size_hint) < 0) { - H5Pclose(gcpl_id); - throwException("createGroup", "H5Pset_local_heap_size_hint failed"); - } - } - - // Call C routine H5Gcreate2 to create the named group, giving the - // location id which can be a file id or a group id - hid_t group_id = H5Gcreate2(getId(), name, H5P_DEFAULT, gcpl_id, H5P_DEFAULT ); - - // Close the group creation property list, if necessary - if(gcpl_id > 0) - H5Pclose(gcpl_id); - - // If the creation of the group failed, throw an exception - if( group_id < 0 ) - throwException("createGroup", "H5Gcreate2 failed"); - - // No failure, create and return the Group object - Group group; - group.p_setId(group_id); - // CommonFG *ptr = &group; - // ptr->p_setId(group_id); - return( group ); -} - -//-------------------------------------------------------------------------- -// Function: Group::createGroup -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -Group Group::createGroup( const H5std_string& name, size_t size_hint ) const -{ - return( createGroup( name.c_str(), size_hint )); -} - -//-------------------------------------------------------------------------- -// Function: Group::openGroup -///\brief Opens an existing group in a location which can be a file -/// or another group. -///\param name - IN: Name of the group to open -///\return Group instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -Group Group::openGroup( const char* name ) const -{ - // Call C routine H5Gopen2 to open the named group, giving the - // location id which can be a file id or a group id - hid_t group_id = H5Gopen2(getId(), name, H5P_DEFAULT ); - - // If the opening of the group failed, throw an exception - if( group_id < 0 ) - throwException("openGroup", "H5Gopen2 failed"); - - // No failure, create and return the Group object - Group group; - group.p_setId(group_id); - // CommonFG *ptr = &group; - // ptr->p_setId(group_id); - return( group ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openGroup -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -Group Group::openGroup( const H5std_string& name ) const -{ - return( openGroup( name.c_str() )); -} - -//-------------------------------------------------------------------------- -// Function: Group::createDataSet -///\brief Creates a new dataset at this location. -///\param name - IN: Name of the dataset to create -///\param data_type - IN: Datatype of the dataset -///\param data_space - IN: Dataspace for the dataset -///\param create_plist - IN: Creation properly list for the dataset -///\return DataSet instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -DataSet Group::createDataSet( const char* name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist ) const -{ - //cerr << "createDataSet( const char* name" << endl; - // Obtain identifiers for C API - hid_t type_id = data_type.getId(); - hid_t space_id = data_space.getId(); - hid_t create_plist_id = create_plist.getId(); - - // Call C routine H5Dcreate2 to create the named dataset - hid_t dataset_id = H5Dcreate2(getId(), name, type_id, space_id, H5P_DEFAULT, create_plist_id, H5P_DEFAULT ); - //cerr << " H5Dcreate2 returns dataset_id " << dataset_id << endl; - - // If the creation of the dataset failed, throw an exception - if( dataset_id < 0 ) - throwException("createDataSet", "H5Dcreate2 failed"); - - // No failure, create and return the DataSet object - DataSet dataset; - f_DataSet_setId(&dataset, dataset_id); - return( dataset ); -} - -//-------------------------------------------------------------------------- -// Function: Group::createDataSet -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -DataSet Group::createDataSet( const H5std_string& name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist ) const -{ - //cerr << "createDataSet( const H5std_string& name" << endl; - return( createDataSet( name.c_str(), data_type, data_space, create_plist )); -} - -//-------------------------------------------------------------------------- -// Function: Group::openDataSet -///\brief Opens an existing dataset at this location. -///\param name - IN: Name of the dataset to open -///\return DataSet instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -DataSet Group::openDataSet( const char* name ) const -{ - // Call C function H5Dopen2 to open the specified dataset, giving - // the location id and the dataset's name - hid_t dataset_id = H5Dopen2(getId(), name, H5P_DEFAULT ); - - // If the dataset's opening failed, throw an exception - if(dataset_id < 0) - throwException("openDataSet", "H5Dopen2 failed"); - - // No failure, create and return the DataSet object - DataSet dataset; - f_DataSet_setId(&dataset, dataset_id); - return( dataset ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openDataSet -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -DataSet Group::openDataSet( const H5std_string& name ) const -{ - return( openDataSet( name.c_str() )); -} - -//-------------------------------------------------------------------------- -// Function: Group::link -///\brief Creates a link of the specified type from \a new_name to -/// \a curr_name. -///\param link_type - IN: Link type; possible values are -/// \li \c H5G_LINK_HARD -/// \li \c H5G_LINK_SOFT -///\param curr_name - IN: Name of the existing object if link is a hard -/// link; can be anything for the soft link -///\param new_name - IN: New name for the object -///\exception H5::FileIException or H5::GroupIException -///\par Description -/// Note that both names are interpreted relative to the -/// specified location. -/// For information on creating hard link and soft link, please -/// refer to the C layer Reference Manual at: -/// http://hdfgroup.org/HDF5/doc/RM/RM_H5L.html#Link-CreateHard and -/// http://hdfgroup.org/HDF5/doc/RM/RM_H5L.html#Link-CreateSoft -// Programmer Binh-Minh Ribler - 2000 -// Modification -// 2007: QAK modified to use H5L APIs - BMR -//-------------------------------------------------------------------------- -void Group::link( H5L_type_t link_type, const char* curr_name, const char* new_name ) const -{ - herr_t ret_value = -1; - - switch(link_type) { - case H5L_TYPE_HARD: - ret_value = H5Lcreate_hard(getId(), curr_name, H5L_SAME_LOC, new_name, H5P_DEFAULT, H5P_DEFAULT ); - break; - - case H5L_TYPE_SOFT: - ret_value = H5Lcreate_soft( curr_name,getId(), new_name, H5P_DEFAULT, H5P_DEFAULT ); - break; - - case H5L_TYPE_ERROR: - case H5L_TYPE_EXTERNAL: - case H5L_TYPE_MAX: - default: - throwException("link", "unknown link type"); - break; - } /* end switch */ - - if( ret_value < 0 ) - throwException("link", "creating link failed"); -} - -//-------------------------------------------------------------------------- -// Function: Group::link -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a curr_name and \a new_name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::link( H5L_type_t link_type, const H5std_string& curr_name, const H5std_string& new_name ) const -{ - link( link_type, curr_name.c_str(), new_name.c_str() ); -} - -//-------------------------------------------------------------------------- -// Function: Group::unlink -///\brief Removes the specified name at this location. -///\param name - IN: Name of the object to be removed -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -// Modification -// 2007: QAK modified to use H5L APIs - BMR -//-------------------------------------------------------------------------- -void Group::unlink( const char* name ) const -{ - herr_t ret_value = H5Ldelete(getId(), name, H5P_DEFAULT ); - if( ret_value < 0 ) - throwException("unlink", "H5Ldelete failed"); -} - -//-------------------------------------------------------------------------- -// Function: Group::unlink -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::unlink( const H5std_string& name ) const -{ - unlink( name.c_str() ); -} - -//-------------------------------------------------------------------------- -// Function: Group::move -///\brief Renames an object at this location. -///\param src - IN: Object's original name -///\param dst - IN: Object's new name -///\exception H5::FileIException or H5::GroupIException -///\note -/// Exercise care in moving groups as it is possible to render -/// data in a file inaccessible with Group::move. Please refer -/// to the Group Interface in the HDF5 User's Guide for details at: -/// https://www.hdfgroup.org/HDF5/doc/UG/HDF5_Users_Guide-Responsive%20HTML5/index.html#t=HDF5_Users_Guide%2FGroups%2FHDF5_Groups.htm -// Programmer Binh-Minh Ribler - 2000 -// Modification -// 2007: QAK modified to use H5L APIs - BMR -//-------------------------------------------------------------------------- -void Group::move( const char* src, const char* dst ) const -{ - herr_t ret_value = H5Lmove(getId(), src, H5L_SAME_LOC, dst, H5P_DEFAULT, H5P_DEFAULT ); - if( ret_value < 0 ) - throwException("move", "H5Lmove failed"); -} - -//-------------------------------------------------------------------------- -// Function: Group::move -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a src and \a dst. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::move( const H5std_string& src, const H5std_string& dst ) const -{ - move( src.c_str(), dst.c_str() ); -} - -#ifndef H5_NO_DEPRECATED_SYMBOLS -//-------------------------------------------------------------------------- -// Function: Group::getObjinfo -///\brief Returns information about an object. -///\param name - IN: Name of the object -///\param follow_link - IN: Link flag -///\param statbuf - OUT: Buffer to return information about the object -///\exception H5::FileIException or H5::GroupIException -///\par Description -/// For more information, please refer to the C layer Reference -/// Manual at: -/// http://www.hdfgroup.org/HDF5/doc/RM/RM_H5G.html#Group-GetObjinfo -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::getObjinfo( const char* name, hbool_t follow_link, H5G_stat_t& statbuf ) const -{ - herr_t ret_value = H5Gget_objinfo(getId(), name, follow_link, &statbuf ); - if( ret_value < 0 ) - throwException("getObjinfo", "H5Gget_objinfo failed"); -} - -//-------------------------------------------------------------------------- -// Function: Group::getObjinfo -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::getObjinfo( const H5std_string& name, hbool_t follow_link, H5G_stat_t& statbuf ) const -{ - getObjinfo( name.c_str(), follow_link, statbuf ); -} - -//-------------------------------------------------------------------------- -// Function: Group::getObjinfo -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above functions in that it doesn't have -/// the paramemter \a follow_link. -// Programmer Binh-Minh Ribler - Nov, 2005 -// Note: need to modify to use H5Oget_info and H5Lget_info - BMR -//-------------------------------------------------------------------------- -void Group::getObjinfo( const char* name, H5G_stat_t& statbuf ) const -{ - herr_t ret_value = H5Gget_objinfo(getId(), name, 0, &statbuf ); - if( ret_value < 0 ) - throwException("getObjinfo", "H5Gget_objinfo failed"); -} - -//-------------------------------------------------------------------------- -// Function: Group::getObjinfo -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - Nov, 2005 -//-------------------------------------------------------------------------- -void Group::getObjinfo( const H5std_string& name, H5G_stat_t& statbuf ) const -{ - getObjinfo( name.c_str(), statbuf ); -} -#endif /* H5_NO_DEPRECATED_SYMBOLS */ - -//-------------------------------------------------------------------------- -// Function: Group::getLinkval -///\brief Returns the name of the object that the symbolic link points to. -///\param name - IN: Symbolic link to the object -///\param size - IN: Maximum number of characters of value to be returned -///\return Name of the object -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -H5std_string Group::getLinkval( const char* name, size_t size ) const -{ - H5L_info_t linkinfo; - char *value_C; // value in C string - size_t val_size = size; - H5std_string value = ""; - herr_t ret_value; - - // if user doesn't provide buffer size, determine it - if (size == 0) - { - ret_value = H5Lget_info(getLocId(), name, &linkinfo, H5P_DEFAULT); - if( ret_value < 0 ) - throwException("getLinkval", "H5Lget_info to find buffer size failed"); - - val_size = linkinfo.u.val_size; - } - - // if link has value, retrieve the value, otherwise, return null string - if (val_size > 0) - { - value_C = new char[val_size+1]; // temporary C-string for C API - HDmemset(value_C, 0, val_size+1); // clear buffer - - ret_value = H5Lget_val(getLocId(), name, value_C, val_size, H5P_DEFAULT); - if( ret_value < 0 ) - { - delete []value_C; - throwException("getLinkval", "H5Lget_val failed"); - } - - value = H5std_string(value_C); - delete []value_C; - } - return(value); -} - -//-------------------------------------------------------------------------- -// Function: Group::getLinkval -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -H5std_string Group::getLinkval( const H5std_string& name, size_t size ) const -{ - return( getLinkval( name.c_str(), size )); -} - -//-------------------------------------------------------------------------- -// Function: Group::mount -///\brief Mounts the file \a child onto this group. -///\param name - IN: Name of the group -///\param child - IN: File to mount -///\param plist - IN: Property list to use -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2014 (original 2000) -//-------------------------------------------------------------------------- -void Group::mount(const char* name, const H5File& child, const PropList& plist ) const -{ - // Obtain identifiers for C API - hid_t plist_id = plist.getId(); - hid_t child_id = child.getId(); - - // Call C routine H5Fmount to do the mouting - herr_t ret_value = H5Fmount(getId(), name, child_id, plist_id ); - - // Raise exception if H5Fmount returns negative value - if( ret_value < 0 ) - throwException("mount", "H5Fmount failed"); -} - -//-------------------------------------------------------------------------- -// Function: Group::mount -// Purpose This is an overloaded member function, kept for backward -// compatibility. It differs from the above function in that it -// misses const's. This wrapper will be removed in future release. -// Param name - IN: Name of the group -// Param child - IN: File to mount -// Param plist - IN: Property list to use -// Exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -// 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 -//-------------------------------------------------------------------------- -//void Group::mount(const char* name, H5File& child, PropList& plist) const -//{ -// mount(name, child, plist); -//} - -//-------------------------------------------------------------------------- -// Function: Group::mount -///\brief This is an overloaded member function, provided for convenience. -/// It takes an \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::mount(const H5std_string& name, const H5File& child, const PropList& plist) const -{ - mount(name.c_str(), child, plist); -} - -//-------------------------------------------------------------------------- -// Function: Group::mount -// Purpose This is an overloaded member function, kept for backward -// compatibility. It differs from the above function in that it -// misses const's. This wrapper will be removed in future release. -// Programmer Binh-Minh Ribler - 2014 -// 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 -//-------------------------------------------------------------------------- -//void Group::mount(const H5std_string& name, H5File& child, PropList& plist) const -//{ -// mount(name.c_str(), child, plist); -//} - -//-------------------------------------------------------------------------- -// Function: Group::unmount -///\brief Unmounts the specified file. -///\param name - IN: Name of the file to unmount -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::unmount( const char* name ) const -{ - // Call C routine H5Fmount to do the mouting - herr_t ret_value = H5Funmount(getId(), name ); - - // Raise exception if H5Funmount returns negative value - if( ret_value < 0 ) - throwException("unmount", "H5Funmount failed"); -} - -//-------------------------------------------------------------------------- -// Function: Group::unmount -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -void Group::unmount( const H5std_string& name ) const -{ - unmount( name.c_str() ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openDataType -///\brief Opens the named generic datatype at this location. -///\param name - IN: Name of the datatype to open -///\return DataType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -DataType Group::openDataType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openDataType", "H5Topen2 failed"); - - // No failure, create and return the DataType object - DataType data_type; - f_DataType_setId(&data_type, type_id); - return(data_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openDataType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -DataType Group::openDataType( const H5std_string& name ) const -{ - return( openDataType( name.c_str()) ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openArrayType -///\brief Opens the named array datatype at this location. -///\param name - IN: Name of the array datatype to open -///\return ArrayType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - Jul, 2005 -//-------------------------------------------------------------------------- -ArrayType Group::openArrayType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openArrayType", "H5Topen2 failed"); - - // No failure, create and return the ArrayType object - ArrayType array_type; - f_DataType_setId(&array_type, type_id); - return(array_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openArrayType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - Jul, 2005 -//-------------------------------------------------------------------------- -ArrayType Group::openArrayType( const H5std_string& name ) const -{ - return( openArrayType( name.c_str()) ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openCompType -///\brief Opens the named compound datatype at this location. -///\param name - IN: Name of the compound datatype to open -///\return CompType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -CompType Group::openCompType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openCompType", "H5Topen2 failed"); - - // No failure, create and return the CompType object - CompType comp_type; - f_DataType_setId(&comp_type, type_id); - return(comp_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openCompType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -CompType Group::openCompType( const H5std_string& name ) const -{ - return( openCompType( name.c_str()) ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openEnumType -///\brief Opens the named enumeration datatype at this location. -///\param name - IN: Name of the enumeration datatype to open -///\return EnumType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -EnumType Group::openEnumType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openEnumType", "H5Topen2 failed"); - - // No failure, create and return the EnumType object - EnumType enum_type; - f_DataType_setId(&enum_type, type_id); - return(enum_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openEnumType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -EnumType Group::openEnumType( const H5std_string& name ) const -{ - return( openEnumType( name.c_str()) ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openIntType -///\brief Opens the named integer datatype at this location. -///\param name - IN: Name of the integer datatype to open -///\return IntType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -IntType Group::openIntType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openIntType", "H5Topen2 failed"); - - // No failure, create and return the IntType object - IntType int_type; - f_DataType_setId(&int_type, type_id); - return(int_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openIntType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -IntType Group::openIntType( const H5std_string& name ) const -{ - return( openIntType( name.c_str()) ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openFloatType -///\brief Opens the named floating-point datatype at this location. -///\param name - IN: Name of the floating-point datatype to open -///\return FloatType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -FloatType Group::openFloatType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openFloatType", "H5Topen2 failed"); - - // No failure, create and return the FloatType object - FloatType float_type; - f_DataType_setId(&float_type, type_id); - return(float_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openFloatType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -FloatType Group::openFloatType( const H5std_string& name ) const -{ - return( openFloatType( name.c_str()) ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openStrType -///\brief Opens the named string datatype at this location. -///\param name - IN: Name of the string datatype to open -///\return StrType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -StrType Group::openStrType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openStrType", "H5Topen2 failed"); - - // No failure, create and return the StrType object - StrType str_type; - f_DataType_setId(&str_type, type_id); - return(str_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openStrType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -StrType Group::openStrType( const H5std_string& name ) const -{ - return( openStrType( name.c_str()) ); -} - -//-------------------------------------------------------------------------- -// Function: Group::openVarLenType -///\brief Opens the named variable length datatype at this location. -///\param name - IN: Name of the variable length datatype to open -///\return VarLenType instance -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - Jul, 2005 -//-------------------------------------------------------------------------- -VarLenType Group::openVarLenType( const char* name ) const -{ - // Call C function H5Topen2 to open the named datatype in this group, - // given either the file or group id - hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); - - // If the datatype's opening failed, throw an exception - if( type_id < 0 ) - throwException("openVarLenType", "H5Topen2 failed"); - - // No failure, create and return the VarLenType object - VarLenType varlen_type; - f_DataType_setId(&varlen_type, type_id); - return(varlen_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::openVarLenType -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - Jul, 2005 -//-------------------------------------------------------------------------- -VarLenType Group::openVarLenType( const H5std_string& name ) const -{ - return( openVarLenType( name.c_str()) ); -} - -#ifndef H5_NO_DEPRECATED_SYMBOLS -//-------------------------------------------------------------------------- -// Function: Group::iterateElems -///\brief Iterates a user's function over the entries of a group. -///\param name - IN : Name of group to iterate over -///\param idx - IN/OUT: Starting (IN) and ending (OUT) entry indices -///\param op - IN : User's function to operate on each entry -///\param op_data - IN/OUT: Data associated with the operation -///\return The return value of the first operator that returns non-zero, -/// or zero if all members were processed with no operator -/// returning non-zero. -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -int Group::iterateElems( const char* name, int *idx, H5G_iterate_t op , void* op_data ) -{ - int ret_value = H5Giterate(getId(), name, idx, op, op_data ); - if( ret_value < 0 ) - { - throwException("iterateElems", "H5Giterate failed"); - } - return( ret_value ); -} - -//-------------------------------------------------------------------------- -// Function: Group::iterateElems -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - 2000 -//-------------------------------------------------------------------------- -int Group::iterateElems( const H5std_string& name, int *idx, H5G_iterate_t op , void* op_data ) -{ - return( iterateElems( name.c_str(), idx, op, op_data )); -} -#endif /* H5_NO_DEPRECATED_SYMBOLS */ - -//-------------------------------------------------------------------------- -// Function: Group::getNumObjs -///\brief Returns the number of objects in this group. -///\return Number of objects -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - January, 2003 -//-------------------------------------------------------------------------- -hsize_t Group::getNumObjs() const -{ - H5G_info_t ginfo; /* Group information */ - - herr_t ret_value = H5Gget_info(getLocId(), &ginfo); - if(ret_value < 0) - throwException("getNumObjs", "H5Gget_info failed"); - return (ginfo.nlinks); -} - -//-------------------------------------------------------------------------- -// Function: Group::getObjnameByIdx -///\brief Returns the name of an object in this group, given the -/// object's index. -///\param idx - IN: Transient index of the object -///\return Object name -///\exception H5::FileIException or H5::GroupIException -///\par Description -/// The value of idx can be any nonnegative number less than the -/// total number of objects in the group, which is returned by -/// the function \c Group::getNumObjs. Note that this is a -/// transient index; thus, an object may have a different index -/// each time the group is opened. -// Programmer Binh-Minh Ribler - Mar, 2005 -//-------------------------------------------------------------------------- -H5std_string Group::getObjnameByIdx(hsize_t idx) const -{ - // call H5Lget_name_by_idx with name as NULL to get its length - ssize_t name_len = H5Lget_name_by_idx(getLocId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, NULL, 0, H5P_DEFAULT); - if(name_len < 0) - throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); - - // now, allocate C buffer to get the name - char* name_C = new char[name_len+1]; - HDmemset(name_C, 0, name_len+1); // clear buffer - - name_len = H5Lget_name_by_idx(getLocId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, name_C, name_len+1, H5P_DEFAULT); - - if (name_len < 0) - { - delete []name_C; - throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); - } - - // clean up and return the string - H5std_string name = H5std_string(name_C); - delete []name_C; - return (name); -} - -//-------------------------------------------------------------------------- -// Function: Group::getObjnameByIdx -///\brief Retrieves the name of an object in this group, given the -/// object's index. -///\param idx - IN: Transient index of the object -///\param name - IN/OUT: Retrieved name of the object -///\param size - IN: Length to retrieve -///\return Actual size of the object name or 0, if object has no name -///\exception H5::FileIException or H5::GroupIException -///\par Description -/// The value of idx can be any nonnegative number less than the -/// total number of objects in the group, which is returned by -/// the function \c Group::getNumObjs. Note that this is a -/// transient index; thus, an object may have a different index -/// each time the group is opened. -// Programmer Binh-Minh Ribler - January, 2003 -//-------------------------------------------------------------------------- -ssize_t Group::getObjnameByIdx(hsize_t idx, char* name, size_t size) const -{ - ssize_t name_len = H5Lget_name_by_idx(getLocId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, name, size, H5P_DEFAULT); - if(name_len < 0) - throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); - - return (name_len); -} - -//-------------------------------------------------------------------------- -// Function: Group::getObjnameByIdx -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function in that it takes an -/// \c H5std_string for \a name. -// Programmer Binh-Minh Ribler - January, 2003 -//-------------------------------------------------------------------------- -ssize_t Group::getObjnameByIdx(hsize_t idx, H5std_string& name, size_t size) const -{ - char* name_C = new char[size+1]; // temporary C-string for object name - HDmemset(name_C, 0, size+1); // clear buffer - - // call overloaded function to get the name - ssize_t name_len = getObjnameByIdx(idx, name_C, size+1); - if(name_len < 0) - { - delete []name_C; - throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); - } - - // clean up and return the string - name = H5std_string(name_C); - delete []name_C; - return (name_len); -} - -//-------------------------------------------------------------------------- -// Function: Group::childObjType -///\brief Returns the type of an object in this file/group, given the -/// object's name. -///\param objname - IN: Name of the object -///\return Object type, which can have the following values for group, -/// dataset, and named datatype -/// \li \c H5O_TYPE_GROUP -/// \li \c H5O_TYPE_DATASET -/// \li \c H5O_TYPE_NAMED_DATATYPE -/// Refer to the C API documentation for more details: -/// http://www.hdfgroup.org/HDF5/doc/RM/RM_H5O.html#Object-GetInfo -///\exception H5::FileIException or H5::GroupIException -/// Exception will be thrown when: -/// - an error returned by the C API -/// - object type is not one of the valid values above -// Programmer Binh-Minh Ribler - April, 2014 -//-------------------------------------------------------------------------- -H5O_type_t Group::childObjType(const char* objname) const -{ - H5O_info_t objinfo; - H5O_type_t objtype = H5O_TYPE_UNKNOWN; - - // Use C API to get information of the object - herr_t ret_value = H5Oget_info_by_name(getLocId(), objname, &objinfo, H5P_DEFAULT); - - // Throw exception if C API returns failure - if (ret_value < 0) - throwException("childObjType", "H5Oget_info_by_name failed"); - // Return a valid type or throw an exception for unknown type - else - switch (objinfo.type) - { - case H5O_TYPE_GROUP: - case H5O_TYPE_DATASET: - case H5O_TYPE_NAMED_DATATYPE: - objtype = objinfo.type; - break; - case H5O_TYPE_UNKNOWN: - case H5O_TYPE_NTYPES: - default: - throwException("childObjType", "Unknown type of object"); - } - return(objtype); -} - -//-------------------------------------------------------------------------- -// Function: Group::childObjType -///\brief This is an overloaded member function, provided for convenience. -/// It takes an \a H5std_string for the object's name. -///\brief Returns the type of an object in this group, given the -/// object's name. -///\param objname - IN: Name of the object (H5std_string&) -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - April, 2014 -//-------------------------------------------------------------------------- -H5O_type_t Group::childObjType(const H5std_string& objname) const -{ - // Use overloaded function - H5O_type_t objtype = childObjType(objname.c_str()); - return(objtype); -} - -//-------------------------------------------------------------------------- -// Function: Group::childObjType -///\brief Returns the type of an object in this file/group, given the -/// object's index and its type and order. -///\param index - IN: Position of the object -///\param index_type - IN: Type of the index, default to H5_INDEX_NAME -///\param order - IN: Traversing order, default to H5_ITER_INC -///\param objname - IN: Name of the object, default to "." -///\return Object type, which can have the following values for group, -/// dataset, and named datatype -/// \li \c H5O_TYPE_GROUP -/// \li \c H5O_TYPE_DATASET -/// \li \c H5O_TYPE_NAMED_DATATYPE -/// Refer to the C API documentation for more details: -/// http://www.hdfgroup.org/HDF5/doc/RM/RM_H5O.html#Object-GetInfo -///\exception H5::FileIException or H5::GroupIException -/// Exception will be thrown when: -/// - an error returned by the C API -/// - object type is not one of the valid values above -// Developer's Notes: -// - this overload uses H5Oget_info_by_idx instead of H5Oget_info_by_name -// like the previous childObjType() -// - index is the required argument so, first -// - objname is last because it's more likely the location is already -// fully specified -// - Leave property list out for now because C API is not using it, it -// can be added later when needed. -// Programmer Binh-Minh Ribler - April, 2014 -//-------------------------------------------------------------------------- -H5O_type_t Group::childObjType(hsize_t index, H5_index_t index_type, H5_iter_order_t order, const char* objname) const -{ - herr_t ret_value; - H5O_info_t objinfo; - H5O_type_t objtype = H5O_TYPE_UNKNOWN; - - // Use C API to get information of the object - ret_value = H5Oget_info_by_idx(getLocId(), objname, index_type, order, index, &objinfo, H5P_DEFAULT); - - // Throw exception if C API returns failure - if (ret_value < 0) - throwException("childObjType", "H5Oget_info_by_idx failed"); - // Return a valid type or throw an exception for unknown type - else - switch (objinfo.type) - { - case H5O_TYPE_GROUP: - case H5O_TYPE_DATASET: - case H5O_TYPE_NAMED_DATATYPE: - objtype = objinfo.type; - break; - case H5O_TYPE_UNKNOWN: - case H5O_TYPE_NTYPES: - default: - throwException("childObjType", "Unknown type of object"); - } - return(objtype); -} - -//-------------------------------------------------------------------------- -// Function: Group::childObjVersion -///\brief Returns the object header version of an object in this file/group, -/// given the object's name. -///\param objname - IN: Name of the object -///\return Object version, which can have the following values: -/// \li \c H5O_VERSION_1 -/// \li \c H5O_VERSION_2 -///\exception H5::FileIException or H5::GroupIException -/// Exception will be thrown when: -/// - an error returned by the C API -/// - version number is not one of the valid values above -// Programmer Binh-Minh Ribler - April, 2014 -//-------------------------------------------------------------------------- -unsigned Group::childObjVersion(const char* objname) const -{ - H5O_info_t objinfo; - unsigned version = 0; - - // Use C API to get information of the object - herr_t ret_value = H5Oget_info_by_name(getLocId(), objname, &objinfo, H5P_DEFAULT); - - // Throw exception if C API returns failure - if (ret_value < 0) - throwException("childObjVersion", "H5Oget_info_by_name failed"); - // Return a valid version or throw an exception for invalid value - else - { - version = objinfo.hdr.version; - if (version != H5O_VERSION_1 && version != H5O_VERSION_2) - throwException("childObjVersion", "Invalid version for object"); - } - return(version); -} - -//-------------------------------------------------------------------------- -// Function: Group::childObjVersion -///\brief This is an overloaded member function, provided for convenience. -/// It takes an \a H5std_string for the object's name. -///\brief Returns the type of an object in this group, given the -/// object's name. -///\param objname - IN: Name of the object (H5std_string&) -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - April, 2014 -//-------------------------------------------------------------------------- -unsigned Group::childObjVersion(const H5std_string& objname) const -{ - // Use overloaded function - unsigned version = childObjVersion(objname.c_str()); - return(version); -} - -#ifndef H5_NO_DEPRECATED_SYMBOLS -#ifndef DOXYGEN_SHOULD_SKIP_THIS -//-------------------------------------------------------------------------- -// Function: Group::getObjTypeByIdx -///\brief Returns the type of an object in this group, given the -/// object's index. -///\param idx - IN: Transient index of the object -///\return Object type -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - January, 2003 -//-------------------------------------------------------------------------- -H5G_obj_t Group::getObjTypeByIdx(hsize_t idx) const -{ - H5G_obj_t obj_type = H5Gget_objtype_by_idx(getLocId(), idx); - if (obj_type == H5G_UNKNOWN) - throwException("getObjTypeByIdx", "H5Gget_objtype_by_idx failed"); - - return (obj_type); -} - -//-------------------------------------------------------------------------- -// Function: Group::getObjTypeByIdx -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function because it also provides -/// the returned object type in text (char*) -///\param idx - IN: Transient index of the object -///\param type_name - OUT: Object type in text -///\return Object type -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - May, 2010 -// Modification -// Modified to use the other function. -BMR, 2016/03/07 -//-------------------------------------------------------------------------- -H5G_obj_t Group::getObjTypeByIdx(hsize_t idx, char* type_name) const -{ - H5std_string stype_name(type_name); - return(getObjTypeByIdx(idx, stype_name)); -} -//-------------------------------------------------------------------------- -// Function: Group::getObjTypeByIdx -///\brief This is an overloaded member function, provided for convenience. -/// It differs from the above function because it also provides -/// the returned object type in text (H5std_string&) -///\param idx - IN: Transient index of the object -///\param type_name - OUT: Object type in text -///\return Object type -///\exception H5::FileIException or H5::GroupIException -// Programmer Binh-Minh Ribler - January, 2003 -//-------------------------------------------------------------------------- -H5G_obj_t Group::getObjTypeByIdx(hsize_t idx, H5std_string& type_name) const -{ - H5G_obj_t obj_type = H5Gget_objtype_by_idx(getLocId(), idx); - switch (obj_type) - { - case H5G_LINK: type_name = H5std_string("symbolic link"); break; - case H5G_GROUP: type_name = H5std_string("group"); break; - case H5G_DATASET: type_name = H5std_string("dataset"); break; - case H5G_TYPE: type_name = H5std_string("datatype"); break; - case H5G_UNKNOWN: - case H5G_UDLINK: - case H5G_RESERVED_5: - case H5G_RESERVED_6: - case H5G_RESERVED_7: - default: - throwException("getObjTypeByIdx", "H5Gget_objtype_by_idx failed"); - } - return (obj_type); -} - -#endif // DOXYGEN_SHOULD_SKIP_THIS -#endif /* H5_NO_DEPRECATED_SYMBOLS */ - -#ifndef DOXYGEN_SHOULD_SKIP_THIS - -//-------------------------------------------------------------------------- -// Function: f_DataType_setId - friend -// Purpose: This function is friend to class H5::DataType so that it -// can set DataType::id in order to work around a problem -// described in the JIRA issue HDFFV-7947. -// Applications shouldn't need to use it. -// param dtype - IN/OUT: DataType object to be changed -// param new_id - IN: New id to set -// Programmer Binh-Minh Ribler - 2015 -//-------------------------------------------------------------------------- -void f_DataType_setId(DataType* dtype, hid_t new_id) -{ - dtype->p_setId(new_id); -} - -//-------------------------------------------------------------------------- -// Function: f_DataSet_setId - friend -// Purpose: This function is friend to class H5::DataSet so that it -// can set DataSet::id in order to work around a problem -// described in the JIRA issue HDFFV-7947. -// Applications shouldn't need to use it. -// param dset - IN/OUT: DataSet object to be changed -// param new_id - IN: New id to set -// Programmer Binh-Minh Ribler - 2015 -//-------------------------------------------------------------------------- -void f_DataSet_setId(DataSet* dset, hid_t new_id) -{ - dset->p_setId(new_id); -} - -#endif // DOXYGEN_SHOULD_SKIP_THIS - #ifndef H5_NO_NAMESPACE } // end namespace #endif diff --git a/c++/src/H5Group.h b/c++/src/H5Group.h index e8527d8..f1dfce1 100644 --- a/c++/src/H5Group.h +++ b/c++/src/H5Group.h @@ -47,126 +47,6 @@ class H5_DLLCPP Group : public H5Object { Group(const char* name); Group(const H5std_string& name); -// From CommonFG - // Creates a new group at this location which can be a file - // or another group. - Group createGroup(const char* name, size_t size_hint = 0) const; - Group createGroup(const H5std_string& name, size_t size_hint = 0) const; - - // Opens an existing group in a location which can be a file - // or another group. - Group openGroup(const char* name) const; - Group openGroup(const H5std_string& name) const; - - // Creates a new dataset in this group. - DataSet createDataSet(const char* name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist = DSetCreatPropList::DEFAULT) const; - DataSet createDataSet(const H5std_string& 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 char* name) const; - DataSet openDataSet(const H5std_string& name) const; - - // Returns the value of a symbolic link. - H5std_string getLinkval(const char* link_name, size_t size=0) const; - H5std_string getLinkval(const H5std_string& link_name, size_t size=0) const; - - // Returns the number of objects in this group. - hsize_t getNumObjs() const; - - // Retrieves the name of an object in this group, given the - // object's index. - H5std_string getObjnameByIdx(hsize_t idx) const; - ssize_t getObjnameByIdx(hsize_t idx, char* name, size_t size) const; - ssize_t getObjnameByIdx(hsize_t idx, H5std_string& name, size_t size) const; - - // Retrieves the type of an object in this file or group, given the - // object's name - H5O_type_t childObjType(const H5std_string& objname) const; - H5O_type_t childObjType(const char* objname) const; - H5O_type_t childObjType(hsize_t index, H5_index_t index_type=H5_INDEX_NAME, H5_iter_order_t order=H5_ITER_INC, const char* objname=".") const; - - // Returns the object header version of an object in this file or group, - // given the object's name. - unsigned childObjVersion(const char* objname) const; - unsigned childObjVersion(const H5std_string& objname) const; - -#ifndef H5_NO_DEPRECATED_SYMBOLS - // Returns the type of an object in this group, given the - // object's index. - H5G_obj_t getObjTypeByIdx(hsize_t idx) const; - H5G_obj_t getObjTypeByIdx(hsize_t idx, char* type_name) const; - H5G_obj_t getObjTypeByIdx(hsize_t idx, H5std_string& type_name) const; - - // Returns information about an HDF5 object, given by its name, - // at this location. - void getObjinfo(const char* name, hbool_t follow_link, H5G_stat_t& statbuf) const; - void getObjinfo(const H5std_string& name, hbool_t follow_link, H5G_stat_t& statbuf) const; - void getObjinfo(const char* name, H5G_stat_t& statbuf) const; - void getObjinfo(const H5std_string& name, H5G_stat_t& statbuf) const; - - // Iterates over the elements of this group - not implemented in - // C++ style yet. - int iterateElems(const char* name, int *idx, H5G_iterate_t op, void *op_data); - int iterateElems(const H5std_string& name, int *idx, H5G_iterate_t op, void *op_data); -#endif /* H5_NO_DEPRECATED_SYMBOLS */ - - // Creates a link of the specified type from new_name to current_name; - // both names are interpreted relative to the specified location id. - void link(H5L_type_t link_type, const char* curr_name, const char* new_name) const; - void link(H5L_type_t link_type, const H5std_string& curr_name, const H5std_string& new_name) const; - - // Removes the specified name at this location. - void unlink(const char* name) const; - void unlink(const H5std_string& name) const; - - // Mounts the file 'child' onto this location. - void mount(const char* name, const H5File& child, const PropList& plist) const; - //void mount(const char* name, H5File& child, PropList& plist) const; // removed from 1.8.18 and 1.10.1 - void mount(const H5std_string& name, const H5File& child, const PropList& plist) const; - //void mount(const H5std_string& name, H5File& child, PropList& plist) const; // removed from 1.8.18 and 1.10.1 - - // Unmounts the file named 'name' from this parent location. - void unmount(const char* name) const; - void unmount(const H5std_string& name) const; - - // Renames an object at this location. - void move(const char* src, const char* dst) const; - void move(const H5std_string& src, const H5std_string& dst) const; - - // Opens a generic named datatype in this location. - DataType openDataType(const char* name) const; - DataType openDataType(const H5std_string& name) const; - - // Opens a named array datatype in this location. - ArrayType openArrayType(const char* name) const; - ArrayType openArrayType(const H5std_string& name) const; - - // Opens a named compound datatype in this location. - CompType openCompType(const char* name) const; - CompType openCompType(const H5std_string& name) const; - - // Opens a named enumeration datatype in this location. - EnumType openEnumType(const char* name) const; - EnumType openEnumType(const H5std_string& name) const; - - // Opens a named integer datatype in this location. - IntType openIntType(const char* name) const; - IntType openIntType(const H5std_string& name) const; - - // Opens a named floating-point datatype in this location. - FloatType openFloatType(const char* name) const; - FloatType openFloatType(const H5std_string& name) const; - - // Opens a named string datatype in this location. - StrType openStrType(const char* name) const; - StrType openStrType(const H5std_string& name) const; - - // Opens a named variable length datatype in this location. - VarLenType openVarLenType(const char* name) const; - VarLenType openVarLenType(const H5std_string& name) const; - -// end from CommonFG - // Close this group. virtual void close(); diff --git a/c++/src/H5IntType.cpp b/c++/src/H5IntType.cpp index 780e44d..f934d26 100644 --- a/c++/src/H5IntType.cpp +++ b/c++/src/H5IntType.cpp @@ -19,13 +19,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5DxferProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5AbstractDs.h" -#include "H5DxferProp.h" #include "H5DataSpace.h" #include "H5AtomType.h" #include "H5IntType.h" diff --git a/c++/src/H5Library.cpp b/c++/src/H5Library.cpp index 30f68e2..09e0f7e 100644 --- a/c++/src/H5Library.cpp +++ b/c++/src/H5Library.cpp @@ -25,10 +25,10 @@ #include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DxferProp.h" +#include "H5DcreatProp.h" #include "H5Location.h" #include "H5Object.h" #include "H5DataType.h" -#include "H5DcreatProp.h" #include "H5AtomType.h" #include "H5PredType.h" #include "H5DataSpace.h" @@ -82,7 +82,7 @@ void H5Library::close() //-------------------------------------------------------------------------- void H5Library::dontAtExit() { - herr_t ret_value = H5dont_atexit(); + (void)H5dont_atexit(); } //-------------------------------------------------------------------------- diff --git a/c++/src/H5Location.cpp b/c++/src/H5Location.cpp index 4048d94..334389e 100644 --- a/c++/src/H5Location.cpp +++ b/c++/src/H5Location.cpp @@ -19,20 +19,20 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" +#include "H5FaccProp.h" +#include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" #include "H5DxferProp.h" -#include "H5FaccProp.h" -#include "H5FcreatProp.h" -#include "H5DataType.h" -#include "H5DataSpace.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5AbstractDs.h" -#include "H5Group.h" -#include "H5File.h" +#include "H5DataSpace.h" #include "H5DataSet.h" #include "H5Attribute.h" +#include "H5Group.h" +#include "H5File.h" +#include "H5Alltypes.h" #include "H5private.h" // for HDmemset #ifndef H5_NO_NAMESPACE @@ -658,12 +658,1280 @@ DataSpace H5Location::getRegion(void *ref, H5R_type_t ref_type) const } +// From H5CommonFG.cpp +// Notes with "***Updated" are new and for Group.cpp +// Original notes are from December 2000 +// +// There are a few comments that are common to most of the functions +// defined in this file so they are listed here. +// - getLocId is called by all functions, that call a C API, to get +// the location id, which can be either a file id or a group id. +// This function is pure virtual and it's up to H5File and Group +// to call the right getId() - although, as the structure of the +// library at this time, getId() is basically the IdComponent::getId() +// ***Updated: after the classes are rearranged (HDFFV-9920), functions +// in CommonFG are moved to Group, and they can call getId() +// instead of getLocId(). getLocId() is kept for backward +// compatibility on user applications. Aug 18, 2016 -BMR +// ***Updated: Moving to Group was a mistake, now to H5Location +// Aug 24, 2016 -BMR +// - when a failure returned by the C API, the functions will call +// throwException, which is a pure virtual function and is implemented +// by H5File to throw a FileIException and by Group to throw a +// GroupIException. +// ***Updated: after HDFFV-9920, methods in classes H5Location and Group +// use throwException to distinguish the FileIException and GroupIException. +// CommonFG is no longer used in the library. Aug 18, 2016 -BMR +// ***Note: following the changes in HDFFV-9920, some of the methods could +// throw different exceptions, but for backward-compatibility, throwException +// is kept in those methods as well. Sep 17, 2016 -BMR + //-------------------------------------------------------------------------- -// Function: H5Location destructor -///\brief Noop destructor. +// Function: H5Location::createGroup +///\brief Creates a new group at this location which can be a file +/// or another group. +///\param name - IN: Name of the group to create +///\param size_hint - IN: Indicates the number of bytes to reserve for +/// the names that will appear in the group +///\return Group instance +///\exception H5::FileIException or H5::GroupIException +///\par Description +/// The optional \a size_hint specifies how much file space to +/// reserve for storing the names that will appear in this new +/// group. If a non-positive value is provided for the \a size_hint +/// then a default size is chosen. // Programmer Binh-Minh Ribler - 2000 //-------------------------------------------------------------------------- -H5Location::~H5Location() {} +Group H5Location::createGroup( const char* name, size_t size_hint ) const +{ + // Group creation property list for size hint + hid_t gcpl_id = 0; + + // Set the local heap size hint + if (size_hint > 0) + { + // If the creation of the property list failed, throw an exception + if ((gcpl_id = H5Pcreate(H5P_GROUP_CREATE)) < 0) + throwException("createGroup", "H5Pcreate failed"); + + if (H5Pset_local_heap_size_hint(gcpl_id, size_hint) < 0) { + H5Pclose(gcpl_id); + throwException("createGroup", "H5Pset_local_heap_size_hint failed"); + } + } + + // Call C routine H5Gcreate2 to create the named group, giving the + // location id which can be a file id or a group id + hid_t group_id = H5Gcreate2(getId(), name, H5P_DEFAULT, gcpl_id, H5P_DEFAULT ); + + // Close the group creation property list, if necessary + if(gcpl_id > 0) + H5Pclose(gcpl_id); + + // If the creation of the group failed, throw an exception + if( group_id < 0 ) + throwException("createGroup", "H5Gcreate2 failed"); + + // No failure, create and return the Group object + Group group; + //group.p_setId(group_id); + H5Location *ptr = &group; + ptr->p_setId(group_id); + return( group ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::createGroup +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +Group H5Location::createGroup( const H5std_string& name, size_t size_hint ) const +{ + return( createGroup( name.c_str(), size_hint )); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openGroup +///\brief Opens an existing group in a location which can be a file +/// or another group. +///\param name - IN: Name of the group to open +///\return Group instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +Group H5Location::openGroup( const char* name ) const +{ + // Call C routine H5Gopen2 to open the named group, giving the + // location id which can be a file id or a group id + hid_t group_id = H5Gopen2(getId(), name, H5P_DEFAULT ); + + // If the opening of the group failed, throw an exception + if( group_id < 0 ) + throwException("openGroup", "H5Gopen2 failed"); + + // No failure, create and return the Group object + Group group; + //group.p_setId(group_id); + H5Location *ptr = &group; + ptr->p_setId(group_id); + return( group ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openGroup +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +Group H5Location::openGroup( const H5std_string& name ) const +{ + return( openGroup( name.c_str() )); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::createDataSet +///\brief Creates a new dataset at this location. +///\param name - IN: Name of the dataset to create +///\param data_type - IN: Datatype of the dataset +///\param data_space - IN: Dataspace for the dataset +///\param create_plist - IN: Creation properly list for the dataset +///\return DataSet instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +DataSet H5Location::createDataSet( const char* name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist ) const +{ + // Obtain identifiers for C API + hid_t type_id = data_type.getId(); + hid_t space_id = data_space.getId(); + hid_t create_plist_id = create_plist.getId(); + + // Call C routine H5Dcreate2 to create the named dataset + hid_t dataset_id = H5Dcreate2(getId(), name, type_id, space_id, H5P_DEFAULT, create_plist_id, H5P_DEFAULT ); + + // If the creation of the dataset failed, throw an exception + if( dataset_id < 0 ) + throwException("createDataSet", "H5Dcreate2 failed"); + + // No failure, create and return the DataSet object + DataSet dataset; + f_DataSet_setId(&dataset, dataset_id); + return( dataset ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::createDataSet +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +DataSet H5Location::createDataSet( const H5std_string& name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist ) const +{ + return( createDataSet( name.c_str(), data_type, data_space, create_plist )); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openDataSet +///\brief Opens an existing dataset at this location. +///\param name - IN: Name of the dataset to open +///\return DataSet instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +DataSet H5Location::openDataSet( const char* name ) const +{ + // Call C function H5Dopen2 to open the specified dataset, giving + // the location id and the dataset's name + hid_t dataset_id = H5Dopen2(getId(), name, H5P_DEFAULT ); + + // If the dataset's opening failed, throw an exception + if(dataset_id < 0) + throwException("openDataSet", "H5Dopen2 failed"); + + // No failure, create and return the DataSet object + DataSet dataset; + f_DataSet_setId(&dataset, dataset_id); + return( dataset ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openDataSet +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +DataSet H5Location::openDataSet( const H5std_string& name ) const +{ + return( openDataSet( name.c_str() )); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::link +///\brief Creates a link of the specified type from \a new_name to +/// \a curr_name. +///\param link_type - IN: Link type; possible values are +/// \li \c H5G_LINK_HARD +/// \li \c H5G_LINK_SOFT +///\param curr_name - IN: Name of the existing object if link is a hard +/// link; can be anything for the soft link +///\param new_name - IN: New name for the object +///\exception H5::FileIException or H5::GroupIException +///\par Description +/// Note that both names are interpreted relative to the +/// specified location. +/// For information on creating hard link and soft link, please +/// refer to the C layer Reference Manual at: +/// http://hdfgroup.org/HDF5/doc/RM/RM_H5L.html#Link-CreateHard and +/// http://hdfgroup.org/HDF5/doc/RM/RM_H5L.html#Link-CreateSoft +// Programmer Binh-Minh Ribler - 2000 +// Modification +// 2007: QAK modified to use H5L APIs - BMR +//-------------------------------------------------------------------------- +void H5Location::link( H5L_type_t link_type, const char* curr_name, const char* new_name ) const +{ + herr_t ret_value = -1; + + switch(link_type) { + case H5L_TYPE_HARD: + ret_value = H5Lcreate_hard(getId(), curr_name, H5L_SAME_LOC, new_name, H5P_DEFAULT, H5P_DEFAULT ); + break; + + case H5L_TYPE_SOFT: + ret_value = H5Lcreate_soft( curr_name,getId(), new_name, H5P_DEFAULT, H5P_DEFAULT ); + break; + + case H5L_TYPE_ERROR: + case H5L_TYPE_EXTERNAL: + case H5L_TYPE_MAX: + default: + throwException("link", "unknown link type"); + break; + } /* end switch */ + + if( ret_value < 0 ) + throwException("link", "creating link failed"); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::link +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a curr_name and \a new_name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::link( H5L_type_t link_type, const H5std_string& curr_name, const H5std_string& new_name ) const +{ + link( link_type, curr_name.c_str(), new_name.c_str() ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::unlink +///\brief Removes the specified name at this location. +///\param name - IN: Name of the object to be removed +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +// Modification +// 2007: QAK modified to use H5L APIs - BMR +//-------------------------------------------------------------------------- +void H5Location::unlink( const char* name ) const +{ + herr_t ret_value = H5Ldelete(getId(), name, H5P_DEFAULT ); + if( ret_value < 0 ) + throwException("unlink", "H5Ldelete failed"); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::unlink +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::unlink( const H5std_string& name ) const +{ + unlink( name.c_str() ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::move +///\brief Renames an object at this location. +///\param src - IN: Object's original name +///\param dst - IN: Object's new name +///\exception H5::FileIException or H5::GroupIException +///\note +/// Exercise care in moving groups as it is possible to render +/// data in a file inaccessible with H5Location::move. Please refer +/// to the Group Interface in the HDF5 User's Guide for details at: +/// https://www.hdfgroup.org/HDF5/doc/UG/HDF5_Users_Guide-Responsive%20HTML5/index.html#t=HDF5_Users_Guide%2FGroups%2FHDF5_Groups.htm +// Programmer Binh-Minh Ribler - 2000 +// Modification +// 2007: QAK modified to use H5L APIs - BMR +//-------------------------------------------------------------------------- +void H5Location::move( const char* src, const char* dst ) const +{ + herr_t ret_value = H5Lmove(getId(), src, H5L_SAME_LOC, dst, H5P_DEFAULT, H5P_DEFAULT ); + if( ret_value < 0 ) + throwException("move", "H5Lmove failed"); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::move +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a src and \a dst. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::move( const H5std_string& src, const H5std_string& dst ) const +{ + move( src.c_str(), dst.c_str() ); +} + +#ifndef H5_NO_DEPRECATED_SYMBOLS +//-------------------------------------------------------------------------- +// Function: H5Location::getObjinfo +///\brief Returns information about an object. +///\param name - IN: Name of the object +///\param follow_link - IN: Link flag +///\param statbuf - OUT: Buffer to return information about the object +///\exception H5::FileIException or H5::GroupIException +///\par Description +/// For more information, please refer to the C layer Reference +/// Manual at: +/// http://www.hdfgroup.org/HDF5/doc/RM/RM_H5G.html#Group-GetObjinfo +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::getObjinfo( const char* name, hbool_t follow_link, H5G_stat_t& statbuf ) const +{ + herr_t ret_value = H5Gget_objinfo(getId(), name, follow_link, &statbuf ); + if( ret_value < 0 ) + throwException("getObjinfo", "H5Gget_objinfo failed"); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getObjinfo +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::getObjinfo( const H5std_string& name, hbool_t follow_link, H5G_stat_t& statbuf ) const +{ + getObjinfo( name.c_str(), follow_link, statbuf ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getObjinfo +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above functions in that it doesn't have +/// the paramemter \a follow_link. +// Programmer Binh-Minh Ribler - Nov, 2005 +// Note: need to modify to use H5Oget_info and H5Lget_info - BMR +//-------------------------------------------------------------------------- +void H5Location::getObjinfo( const char* name, H5G_stat_t& statbuf ) const +{ + herr_t ret_value = H5Gget_objinfo(getId(), name, 0, &statbuf ); + if( ret_value < 0 ) + throwException("getObjinfo", "H5Gget_objinfo failed"); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getObjinfo +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - Nov, 2005 +//-------------------------------------------------------------------------- +void H5Location::getObjinfo( const H5std_string& name, H5G_stat_t& statbuf ) const +{ + getObjinfo( name.c_str(), statbuf ); +} +#endif /* H5_NO_DEPRECATED_SYMBOLS */ + +//-------------------------------------------------------------------------- +// Function: H5Location::getLinkval +///\brief Returns the name of the object that the symbolic link points to. +///\param name - IN: Symbolic link to the object +///\param size - IN: Maximum number of characters of value to be returned +///\return Name of the object +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +H5std_string H5Location::getLinkval( const char* name, size_t size ) const +{ + H5L_info_t linkinfo; + char *value_C; // value in C string + size_t val_size = size; + H5std_string value = ""; + herr_t ret_value; + + // if user doesn't provide buffer size, determine it + if (size == 0) + { + ret_value = H5Lget_info(getId(), name, &linkinfo, H5P_DEFAULT); + if( ret_value < 0 ) + throwException("getLinkval", "H5Lget_info to find buffer size failed"); + + val_size = linkinfo.u.val_size; + } + + // if link has value, retrieve the value, otherwise, return null string + if (val_size > 0) + { + value_C = new char[val_size+1]; // temporary C-string for C API + HDmemset(value_C, 0, val_size+1); // clear buffer + + ret_value = H5Lget_val(getId(), name, value_C, val_size, H5P_DEFAULT); + if( ret_value < 0 ) + { + delete []value_C; + throwException("getLinkval", "H5Lget_val failed"); + } + + value = H5std_string(value_C); + delete []value_C; + } + return(value); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getLinkval +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +H5std_string H5Location::getLinkval( const H5std_string& name, size_t size ) const +{ + return( getLinkval( name.c_str(), size )); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::mount +///\brief Mounts the file \a child onto this group. +///\param name - IN: Name of the group +///\param child - IN: File to mount +///\param plist - IN: Property list to use +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2014 (original 2000) +//-------------------------------------------------------------------------- +void H5Location::mount(const char* name, const H5File& child, const PropList& plist ) const +{ + // Obtain identifiers for C API + hid_t plist_id = plist.getId(); + hid_t child_id = child.getId(); + + // Call C routine H5Fmount to do the mouting + herr_t ret_value = H5Fmount(getId(), name, child_id, plist_id ); + + // Raise exception if H5Fmount returns negative value + if( ret_value < 0 ) + throwException("mount", "H5Fmount failed"); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::mount +// Purpose This is an overloaded member function, kept for backward +// compatibility. It differs from the above function in that it +// misses const's. This wrapper will be removed in future release. +// Param name - IN: Name of the group +// Param child - IN: File to mount +// Param plist - IN: Property list to use +// Exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +// 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 +//-------------------------------------------------------------------------- +//void H5Location::mount(const char* name, H5File& child, PropList& plist) const +//{ +// mount(name, child, plist); +//} + +//-------------------------------------------------------------------------- +// Function: H5Location::mount +///\brief This is an overloaded member function, provided for convenience. +/// It takes an \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::mount(const H5std_string& name, const H5File& child, const PropList& plist) const +{ + mount(name.c_str(), child, plist); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::mount +// Purpose This is an overloaded member function, kept for backward +// compatibility. It differs from the above function in that it +// misses const's. This wrapper will be removed in future release. +// Programmer Binh-Minh Ribler - 2014 +// 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 +//-------------------------------------------------------------------------- +//void H5Location::mount(const H5std_string& name, H5File& child, PropList& plist) const +//{ +// mount(name.c_str(), child, plist); +//} + +//-------------------------------------------------------------------------- +// Function: H5Location::unmount +///\brief Unmounts the specified file. +///\param name - IN: Name of the file to unmount +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::unmount( const char* name ) const +{ + // Call C routine H5Fmount to do the mouting + herr_t ret_value = H5Funmount(getId(), name ); + + // Raise exception if H5Funmount returns negative value + if( ret_value < 0 ) + throwException("unmount", "H5Funmount failed"); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::unmount +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::unmount( const H5std_string& name ) const +{ + unmount( name.c_str() ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openDataType +///\brief Opens the named generic datatype at this location. +///\param name - IN: Name of the datatype to open +///\return DataType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +DataType H5Location::openDataType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openDataType", "H5Topen2 failed"); + + // No failure, create and return the DataType object + DataType data_type; + f_DataType_setId(&data_type, type_id); + return(data_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openDataType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +DataType H5Location::openDataType( const H5std_string& name ) const +{ + return( openDataType( name.c_str()) ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openArrayType +///\brief Opens the named array datatype at this location. +///\param name - IN: Name of the array datatype to open +///\return ArrayType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - Jul, 2005 +//-------------------------------------------------------------------------- +ArrayType H5Location::openArrayType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openArrayType", "H5Topen2 failed"); + + // No failure, create and return the ArrayType object + ArrayType array_type; + f_DataType_setId(&array_type, type_id); + return(array_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openArrayType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - Jul, 2005 +//-------------------------------------------------------------------------- +ArrayType H5Location::openArrayType( const H5std_string& name ) const +{ + return( openArrayType( name.c_str()) ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openCompType +///\brief Opens the named compound datatype at this location. +///\param name - IN: Name of the compound datatype to open +///\return CompType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +CompType H5Location::openCompType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openCompType", "H5Topen2 failed"); + + // No failure, create and return the CompType object + CompType comp_type; + f_DataType_setId(&comp_type, type_id); + return(comp_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openCompType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +CompType H5Location::openCompType( const H5std_string& name ) const +{ + return( openCompType( name.c_str()) ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openEnumType +///\brief Opens the named enumeration datatype at this location. +///\param name - IN: Name of the enumeration datatype to open +///\return EnumType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +EnumType H5Location::openEnumType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openEnumType", "H5Topen2 failed"); + + // No failure, create and return the EnumType object + EnumType enum_type; + f_DataType_setId(&enum_type, type_id); + return(enum_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openEnumType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +EnumType H5Location::openEnumType( const H5std_string& name ) const +{ + return( openEnumType( name.c_str()) ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openIntType +///\brief Opens the named integer datatype at this location. +///\param name - IN: Name of the integer datatype to open +///\return IntType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +IntType H5Location::openIntType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openIntType", "H5Topen2 failed"); + + // No failure, create and return the IntType object + IntType int_type; + f_DataType_setId(&int_type, type_id); + return(int_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openIntType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +IntType H5Location::openIntType( const H5std_string& name ) const +{ + return( openIntType( name.c_str()) ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openFloatType +///\brief Opens the named floating-point datatype at this location. +///\param name - IN: Name of the floating-point datatype to open +///\return FloatType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +FloatType H5Location::openFloatType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openFloatType", "H5Topen2 failed"); + + // No failure, create and return the FloatType object + FloatType float_type; + f_DataType_setId(&float_type, type_id); + return(float_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openFloatType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +FloatType H5Location::openFloatType( const H5std_string& name ) const +{ + return( openFloatType( name.c_str()) ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openStrType +///\brief Opens the named string datatype at this location. +///\param name - IN: Name of the string datatype to open +///\return StrType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +StrType H5Location::openStrType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openStrType", "H5Topen2 failed"); + + // No failure, create and return the StrType object + StrType str_type; + f_DataType_setId(&str_type, type_id); + return(str_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openStrType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +StrType H5Location::openStrType( const H5std_string& name ) const +{ + return( openStrType( name.c_str()) ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openVarLenType +///\brief Opens the named variable length datatype at this location. +///\param name - IN: Name of the variable length datatype to open +///\return VarLenType instance +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - Jul, 2005 +//-------------------------------------------------------------------------- +VarLenType H5Location::openVarLenType( const char* name ) const +{ + // Call C function H5Topen2 to open the named datatype in this group, + // given either the file or group id + hid_t type_id = H5Topen2(getId(), name, H5P_DEFAULT); + + // If the datatype's opening failed, throw an exception + if( type_id < 0 ) + throwException("openVarLenType", "H5Topen2 failed"); + + // No failure, create and return the VarLenType object + VarLenType varlen_type; + f_DataType_setId(&varlen_type, type_id); + return(varlen_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::openVarLenType +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - Jul, 2005 +//-------------------------------------------------------------------------- +VarLenType H5Location::openVarLenType( const H5std_string& name ) const +{ + return( openVarLenType( name.c_str()) ); +} + +#ifndef H5_NO_DEPRECATED_SYMBOLS +//-------------------------------------------------------------------------- +// Function: H5Location::iterateElems +///\brief Iterates a user's function over the entries of a group. +///\param name - IN : Name of group to iterate over +///\param idx - IN/OUT: Starting (IN) and ending (OUT) entry indices +///\param op - IN : User's function to operate on each entry +///\param op_data - IN/OUT: Data associated with the operation +///\return The return value of the first operator that returns non-zero, +/// or zero if all members were processed with no operator +/// returning non-zero. +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +int H5Location::iterateElems( const char* name, int *idx, H5G_iterate_t op , void* op_data ) +{ + int ret_value = H5Giterate(getId(), name, idx, op, op_data ); + if( ret_value < 0 ) + { + throwException("iterateElems", "H5Giterate failed"); + } + return( ret_value ); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::iterateElems +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +int H5Location::iterateElems( const H5std_string& name, int *idx, H5G_iterate_t op , void* op_data ) +{ + return( iterateElems( name.c_str(), idx, op, op_data )); +} +#endif /* H5_NO_DEPRECATED_SYMBOLS */ + +//-------------------------------------------------------------------------- +// Function: H5Location::getNumObjs +///\brief Returns the number of objects in this group. +///\return Number of objects +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - January, 2003 +//-------------------------------------------------------------------------- +hsize_t H5Location::getNumObjs() const +{ + H5G_info_t ginfo; /* Group information */ + + herr_t ret_value = H5Gget_info(getId(), &ginfo); + if(ret_value < 0) + throwException("getNumObjs", "H5Gget_info failed"); + return (ginfo.nlinks); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getObjnameByIdx +///\brief Returns the name of an object in this group, given the +/// object's index. +///\param idx - IN: Transient index of the object +///\return Object name +///\exception H5::FileIException or H5::GroupIException +///\par Description +/// The value of idx can be any nonnegative number less than the +/// total number of objects in the group, which is returned by +/// the function \c H5Location::getNumObjs. Note that this is a +/// transient index; thus, an object may have a different index +/// each time the group is opened. +// Programmer Binh-Minh Ribler - Mar, 2005 +//-------------------------------------------------------------------------- +H5std_string H5Location::getObjnameByIdx(hsize_t idx) const +{ + // call H5Lget_name_by_idx with name as NULL to get its length + ssize_t name_len = H5Lget_name_by_idx(getId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, NULL, 0, H5P_DEFAULT); + if(name_len < 0) + throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); + + // now, allocate C buffer to get the name + char* name_C = new char[name_len+1]; + HDmemset(name_C, 0, name_len+1); // clear buffer + + name_len = H5Lget_name_by_idx(getId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, name_C, name_len+1, H5P_DEFAULT); + + if (name_len < 0) + { + delete []name_C; + throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); + } + + // clean up and return the string + H5std_string name = H5std_string(name_C); + delete []name_C; + return (name); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getObjnameByIdx +///\brief Retrieves the name of an object in this group, given the +/// object's index. +///\param idx - IN: Transient index of the object +///\param name - IN/OUT: Retrieved name of the object +///\param size - IN: Length to retrieve +///\return Actual size of the object name or 0, if object has no name +///\exception H5::FileIException or H5::GroupIException +///\par Description +/// The value of idx can be any nonnegative number less than the +/// total number of objects in the group, which is returned by +/// the function \c H5Location::getNumObjs. Note that this is a +/// transient index; thus, an object may have a different index +/// each time the group is opened. +// Programmer Binh-Minh Ribler - January, 2003 +//-------------------------------------------------------------------------- +ssize_t H5Location::getObjnameByIdx(hsize_t idx, char* name, size_t size) const +{ + ssize_t name_len = H5Lget_name_by_idx(getId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, name, size, H5P_DEFAULT); + if(name_len < 0) + throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); + + return (name_len); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getObjnameByIdx +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function in that it takes an +/// \c H5std_string for \a name. +// Programmer Binh-Minh Ribler - January, 2003 +//-------------------------------------------------------------------------- +ssize_t H5Location::getObjnameByIdx(hsize_t idx, H5std_string& name, size_t size) const +{ + char* name_C = new char[size+1]; // temporary C-string for object name + HDmemset(name_C, 0, size+1); // clear buffer + + // call overloaded function to get the name + ssize_t name_len = getObjnameByIdx(idx, name_C, size+1); + if(name_len < 0) + { + delete []name_C; + throwException("getObjnameByIdx", "H5Lget_name_by_idx failed"); + } + + // clean up and return the string + name = H5std_string(name_C); + delete []name_C; + return (name_len); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::childObjType +///\brief Returns the type of an object in this file/group, given the +/// object's name. +///\param objname - IN: Name of the object +///\return Object type, which can have the following values for group, +/// dataset, and named datatype +/// \li \c H5O_TYPE_GROUP +/// \li \c H5O_TYPE_DATASET +/// \li \c H5O_TYPE_NAMED_DATATYPE +/// Refer to the C API documentation for more details: +/// http://www.hdfgroup.org/HDF5/doc/RM/RM_H5O.html#Object-GetInfo +///\exception H5::FileIException or H5::GroupIException +/// Exception will be thrown when: +/// - an error returned by the C API +/// - object type is not one of the valid values above +// Programmer Binh-Minh Ribler - April, 2014 +//-------------------------------------------------------------------------- +H5O_type_t H5Location::childObjType(const char* objname) const +{ + H5O_info_t objinfo; + H5O_type_t objtype = H5O_TYPE_UNKNOWN; + + // Use C API to get information of the object + herr_t ret_value = H5Oget_info_by_name(getId(), objname, &objinfo, H5P_DEFAULT); + + // Throw exception if C API returns failure + if (ret_value < 0) + throwException("childObjType", "H5Oget_info_by_name failed"); + // Return a valid type or throw an exception for unknown type + else + switch (objinfo.type) + { + case H5O_TYPE_GROUP: + case H5O_TYPE_DATASET: + case H5O_TYPE_NAMED_DATATYPE: + objtype = objinfo.type; + break; + case H5O_TYPE_UNKNOWN: + case H5O_TYPE_NTYPES: + default: + throwException("childObjType", "Unknown type of object"); + } + return(objtype); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::childObjType +///\brief This is an overloaded member function, provided for convenience. +/// It takes an \a H5std_string for the object's name. +///\brief Returns the type of an object in this group, given the +/// object's name. +///\param objname - IN: Name of the object (H5std_string&) +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - April, 2014 +//-------------------------------------------------------------------------- +H5O_type_t H5Location::childObjType(const H5std_string& objname) const +{ + // Use overloaded function + H5O_type_t objtype = childObjType(objname.c_str()); + return(objtype); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::childObjType +///\brief Returns the type of an object in this file/group, given the +/// object's index and its type and order. +///\param index - IN: Position of the object +///\param index_type - IN: Type of the index, default to H5_INDEX_NAME +///\param order - IN: Traversing order, default to H5_ITER_INC +///\param objname - IN: Name of the object, default to "." +///\return Object type, which can have the following values for group, +/// dataset, and named datatype +/// \li \c H5O_TYPE_GROUP +/// \li \c H5O_TYPE_DATASET +/// \li \c H5O_TYPE_NAMED_DATATYPE +/// Refer to the C API documentation for more details: +/// http://www.hdfgroup.org/HDF5/doc/RM/RM_H5O.html#Object-GetInfo +///\exception H5::FileIException or H5::GroupIException +/// Exception will be thrown when: +/// - an error returned by the C API +/// - object type is not one of the valid values above +// Developer's Notes: +// - this overload uses H5Oget_info_by_idx instead of H5Oget_info_by_name +// like the previous childObjType() +// - index is the required argument so, first +// - objname is last because it's more likely the location is already +// fully specified +// - Leave property list out for now because C API is not using it, it +// can be added later when needed. +// Programmer Binh-Minh Ribler - April, 2014 +//-------------------------------------------------------------------------- +H5O_type_t H5Location::childObjType(hsize_t index, H5_index_t index_type, H5_iter_order_t order, const char* objname) const +{ + herr_t ret_value; + H5O_info_t objinfo; + H5O_type_t objtype = H5O_TYPE_UNKNOWN; + + // Use C API to get information of the object + ret_value = H5Oget_info_by_idx(getId(), objname, index_type, order, index, &objinfo, H5P_DEFAULT); + + // Throw exception if C API returns failure + if (ret_value < 0) + throwException("childObjType", "H5Oget_info_by_idx failed"); + // Return a valid type or throw an exception for unknown type + else + switch (objinfo.type) + { + case H5O_TYPE_GROUP: + case H5O_TYPE_DATASET: + case H5O_TYPE_NAMED_DATATYPE: + objtype = objinfo.type; + break; + case H5O_TYPE_UNKNOWN: + case H5O_TYPE_NTYPES: + default: + throwException("childObjType", "Unknown type of object"); + } + return(objtype); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::childObjVersion +///\brief Returns the object header version of an object in this file/group, +/// given the object's name. +///\param objname - IN: Name of the object +///\return Object version, which can have the following values: +/// \li \c H5O_VERSION_1 +/// \li \c H5O_VERSION_2 +///\exception H5::FileIException or H5::GroupIException +/// Exception will be thrown when: +/// - an error returned by the C API +/// - version number is not one of the valid values above +// Programmer Binh-Minh Ribler - April, 2014 +//-------------------------------------------------------------------------- +unsigned H5Location::childObjVersion(const char* objname) const +{ + H5O_info_t objinfo; + unsigned version = 0; + + // Use C API to get information of the object + herr_t ret_value = H5Oget_info_by_name(getId(), objname, &objinfo, H5P_DEFAULT); + + // Throw exception if C API returns failure + if (ret_value < 0) + throwException("childObjVersion", "H5Oget_info_by_name failed"); + // Return a valid version or throw an exception for invalid value + else + { + version = objinfo.hdr.version; + if (version != H5O_VERSION_1 && version != H5O_VERSION_2) + throwException("childObjVersion", "Invalid version for object"); + } + return(version); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::childObjVersion +///\brief This is an overloaded member function, provided for convenience. +/// It takes an \a H5std_string for the object's name. +///\brief Returns the type of an object in this group, given the +/// object's name. +///\param objname - IN: Name of the object (H5std_string&) +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - April, 2014 +//-------------------------------------------------------------------------- +unsigned H5Location::childObjVersion(const H5std_string& objname) const +{ + // Use overloaded function + unsigned version = childObjVersion(objname.c_str()); + return(version); +} + +#ifndef H5_NO_DEPRECATED_SYMBOLS +#ifndef DOXYGEN_SHOULD_SKIP_THIS +//-------------------------------------------------------------------------- +// Function: H5Location::getObjTypeByIdx +///\brief Returns the type of an object in this group, given the +/// object's index. +///\param idx - IN: Transient index of the object +///\return Object type +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - January, 2003 +//-------------------------------------------------------------------------- +H5G_obj_t H5Location::getObjTypeByIdx(hsize_t idx) const +{ + H5G_obj_t obj_type = H5Gget_objtype_by_idx(getId(), idx); + if (obj_type == H5G_UNKNOWN) + throwException("getObjTypeByIdx", "H5Gget_objtype_by_idx failed"); + + return (obj_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::getObjTypeByIdx +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function because it also provides +/// the returned object type in text (char*) +///\param idx - IN: Transient index of the object +///\param type_name - OUT: Object type in text +///\return Object type +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - May, 2010 +// Modification +// Modified to use the other function. -BMR, 2016/03/07 +//-------------------------------------------------------------------------- +H5G_obj_t H5Location::getObjTypeByIdx(hsize_t idx, char* type_name) const +{ + H5std_string stype_name(type_name); + return(getObjTypeByIdx(idx, stype_name)); +} +//-------------------------------------------------------------------------- +// Function: H5Location::getObjTypeByIdx +///\brief This is an overloaded member function, provided for convenience. +/// It differs from the above function because it also provides +/// the returned object type in text (H5std_string&) +///\param idx - IN: Transient index of the object +///\param type_name - OUT: Object type in text +///\return Object type +///\exception H5::FileIException or H5::GroupIException +// Programmer Binh-Minh Ribler - January, 2003 +//-------------------------------------------------------------------------- +H5G_obj_t H5Location::getObjTypeByIdx(hsize_t idx, H5std_string& type_name) const +{ + H5G_obj_t obj_type = H5Gget_objtype_by_idx(getId(), idx); + switch (obj_type) + { + case H5G_LINK: type_name = H5std_string("symbolic link"); break; + case H5G_GROUP: type_name = H5std_string("group"); break; + case H5G_DATASET: type_name = H5std_string("dataset"); break; + case H5G_TYPE: type_name = H5std_string("datatype"); break; + case H5G_UNKNOWN: + case H5G_UDLINK: + case H5G_RESERVED_5: + case H5G_RESERVED_6: + case H5G_RESERVED_7: + default: + throwException("getObjTypeByIdx", "H5Gget_objtype_by_idx failed"); + } + return (obj_type); +} + +//-------------------------------------------------------------------------- +// Function: H5Location::throwException +///\brief Invokes subclass' throwException +///\param func_name - Name of the function where failure occurs +///\param msg - Message describing the failure +///\exception H5::GroupIException +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +void H5Location::throwException(const H5std_string& func_name, const H5std_string& msg) const +{ + throwException(func_name, msg); +} + +#endif // DOXYGEN_SHOULD_SKIP_THIS +#endif /* H5_NO_DEPRECATED_SYMBOLS */ + +//-------------------------------------------------------------------------- +// Function: f_DataType_setId - friend +// Purpose: This function is friend to class H5::DataType so that it +// can set DataType::id in order to work around a problem +// described in the JIRA issue HDFFV-7947. +// Applications shouldn't need to use it. +// param dtype - IN/OUT: DataType object to be changed +// param new_id - IN: New id to set +// Programmer Binh-Minh Ribler - 2015 +//-------------------------------------------------------------------------- +void f_DataType_setId(DataType* dtype, hid_t new_id) +{ + dtype->p_setId(new_id); +} + +//-------------------------------------------------------------------------- +// Function: f_DataSet_setId - friend +// Purpose: This function is friend to class H5::DataSet so that it +// can set DataSet::id in order to work around a problem +// described in the JIRA issue HDFFV-7947. +// Applications shouldn't need to use it. +// param dset - IN/OUT: DataSet object to be changed +// param new_id - IN: New id to set +// Programmer Binh-Minh Ribler - 2015 +//-------------------------------------------------------------------------- +void f_DataSet_setId(DataSet* dset, hid_t new_id) +{ + dset->p_setId(new_id); +} + +// end of From H5CommonFG.cpp //-------------------------------------------------------------------------- // Function: f_Attribute_setId - friend @@ -695,6 +1963,13 @@ void f_DataSpace_setId(DataSpace* dspace, hid_t new_id) dspace->p_setId(new_id); } +//-------------------------------------------------------------------------- +// Function: H5Location destructor +///\brief Noop destructor. +// Programmer Binh-Minh Ribler - 2000 +//-------------------------------------------------------------------------- +H5Location::~H5Location() {} + #endif // DOXYGEN_SHOULD_SKIP_THIS #ifndef H5_NO_NAMESPACE diff --git a/c++/src/H5Location.h b/c++/src/H5Location.h index 9000c5c..4f7a717 100644 --- a/c++/src/H5Location.h +++ b/c++/src/H5Location.h @@ -39,6 +39,10 @@ namespace H5 { }; */ +// Class forwarding +class H5_DLLCPP ArrayType; +class H5_DLLCPP VarLenType; + /*! \class H5Location \brief H5Location is an abstract base class, added in version 1.8.12. @@ -100,15 +104,137 @@ class H5_DLLCPP H5Location : public IdComponent { // Retrieves a dataspace with the region pointed to selected. DataSpace getRegion(void *ref, H5R_type_t ref_type = H5R_DATASET_REGION) const; - ///\brief Returns an identifier. (pure virtual) - virtual hid_t getId() const = 0; +// From CommonFG + // Creates a new group at this location which can be a file + // or another group. + Group createGroup(const char* name, size_t size_hint = 0) const; + Group createGroup(const H5std_string& name, size_t size_hint = 0) const; + + // Opens an existing group in a location which can be a file + // or another group. + Group openGroup(const char* name) const; + Group openGroup(const H5std_string& name) const; + + // Creates a new dataset in this group. + DataSet createDataSet(const char* name, const DataType& data_type, const DataSpace& data_space, const DSetCreatPropList& create_plist = DSetCreatPropList::DEFAULT) const; + DataSet createDataSet(const H5std_string& 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 char* name) const; + DataSet openDataSet(const H5std_string& name) const; + + // Returns the value of a symbolic link. + H5std_string getLinkval(const char* link_name, size_t size=0) const; + H5std_string getLinkval(const H5std_string& link_name, size_t size=0) const; + + // Returns the number of objects in this group. + hsize_t getNumObjs() const; + + // Retrieves the name of an object in this group, given the + // object's index. + H5std_string getObjnameByIdx(hsize_t idx) const; + ssize_t getObjnameByIdx(hsize_t idx, char* name, size_t size) const; + ssize_t getObjnameByIdx(hsize_t idx, H5std_string& name, size_t size) const; + + // Retrieves the type of an object in this file or group, given the + // object's name + H5O_type_t childObjType(const H5std_string& objname) const; + H5O_type_t childObjType(const char* objname) const; + H5O_type_t childObjType(hsize_t index, H5_index_t index_type=H5_INDEX_NAME, H5_iter_order_t order=H5_ITER_INC, const char* objname=".") const; + + // Returns the object header version of an object in this file or group, + // given the object's name. + unsigned childObjVersion(const char* objname) const; + unsigned childObjVersion(const H5std_string& objname) const; + +#ifndef H5_NO_DEPRECATED_SYMBOLS + // Returns the type of an object in this group, given the + // object's index. + H5G_obj_t getObjTypeByIdx(hsize_t idx) const; + H5G_obj_t getObjTypeByIdx(hsize_t idx, char* type_name) const; + H5G_obj_t getObjTypeByIdx(hsize_t idx, H5std_string& type_name) const; + + // Returns information about an HDF5 object, given by its name, + // at this location. + void getObjinfo(const char* name, hbool_t follow_link, H5G_stat_t& statbuf) const; + void getObjinfo(const H5std_string& name, hbool_t follow_link, H5G_stat_t& statbuf) const; + void getObjinfo(const char* name, H5G_stat_t& statbuf) const; + void getObjinfo(const H5std_string& name, H5G_stat_t& statbuf) const; + + // Iterates over the elements of this group - not implemented in + // C++ style yet. + int iterateElems(const char* name, int *idx, H5G_iterate_t op, void *op_data); + int iterateElems(const H5std_string& name, int *idx, H5G_iterate_t op, void *op_data); +#endif /* H5_NO_DEPRECATED_SYMBOLS */ + + // Creates a link of the specified type from new_name to current_name; + // both names are interpreted relative to the specified location id. + void link(H5L_type_t link_type, const char* curr_name, const char* new_name) const; + void link(H5L_type_t link_type, const H5std_string& curr_name, const H5std_string& new_name) const; + + // Removes the specified name at this location. + void unlink(const char* name) const; + void unlink(const H5std_string& name) const; + + // Mounts the file 'child' onto this location. + void mount(const char* name, const H5File& child, const PropList& plist) const; + //void mount(const char* name, H5File& child, PropList& plist) const; // removed from 1.8.18 and 1.10.1 + void mount(const H5std_string& name, const H5File& child, const PropList& plist) const; + //void mount(const H5std_string& name, H5File& child, PropList& plist) const; // removed from 1.8.18 and 1.10.1 + + // Unmounts the file named 'name' from this parent location. + void unmount(const char* name) const; + void unmount(const H5std_string& name) const; + + // Renames an object at this location. + void move(const char* src, const char* dst) const; + void move(const H5std_string& src, const H5std_string& dst) const; + + // Opens a generic named datatype in this location. + DataType openDataType(const char* name) const; + DataType openDataType(const H5std_string& name) const; + + // Opens a named array datatype in this location. + ArrayType openArrayType(const char* name) const; + ArrayType openArrayType(const H5std_string& name) const; + + // Opens a named compound datatype in this location. + CompType openCompType(const char* name) const; + CompType openCompType(const H5std_string& name) const; + + // Opens a named enumeration datatype in this location. + EnumType openEnumType(const char* name) const; + EnumType openEnumType(const H5std_string& name) const; + + // Opens a named integer datatype in this location. + IntType openIntType(const char* name) const; + IntType openIntType(const H5std_string& name) const; + + // Opens a named floating-point datatype in this location. + FloatType openFloatType(const char* name) const; + FloatType openFloatType(const H5std_string& name) const; + + // Opens a named string datatype in this location. + StrType openStrType(const char* name) const; + StrType openStrType(const H5std_string& name) const; + + // Opens a named variable length datatype in this location. + VarLenType openVarLenType(const char* name) const; + VarLenType openVarLenType(const H5std_string& name) const; + +// end From CommonFG + + ///\brief Returns an identifier. + //virtual hid_t getId() const; + + /// For subclasses, H5File and Group, to throw appropriate exception. + virtual void throwException(const H5std_string& func_name, const H5std_string& msg) const; - protected: // Default constructor H5Location(); + protected: #ifndef DOXYGEN_SHOULD_SKIP_THIS - // *** Deprecation warning *** // The following two constructors are no longer appropriate after the // data member "id" had been moved to the sub-classes. diff --git a/c++/src/H5Object.cpp b/c++/src/H5Object.cpp index 0cb392d..6b5edcf 100644 --- a/c++/src/H5Object.cpp +++ b/c++/src/H5Object.cpp @@ -19,13 +19,13 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" +#include "H5FaccProp.h" +#include "H5FcreatProp.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" #include "H5DxferProp.h" -#include "H5FaccProp.h" -#include "H5FcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5DataSpace.h" #include "H5AbstractDs.h" diff --git a/c++/src/H5Object.h b/c++/src/H5Object.h index c39de3a..372faed 100644 --- a/c++/src/H5Object.h +++ b/c++/src/H5Object.h @@ -38,7 +38,9 @@ namespace H5 { #endif +// Class forwarding class H5_DLLCPP H5Object; +class H5_DLLCPP Attribute; // Define the operator function pointer for H5Aiterate(). typedef void (*attr_operator_t)( H5Object& loc/*in*/, diff --git a/c++/src/H5OcreatProp.cpp b/c++/src/H5OcreatProp.cpp index 635ffe9..54ce2ff 100644 --- a/c++/src/H5OcreatProp.cpp +++ b/c++/src/H5OcreatProp.cpp @@ -19,8 +19,8 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5FaccProp.h" #include "H5OcreatProp.h" +#include "H5FaccProp.h" #ifndef H5_NO_NAMESPACE namespace H5 { diff --git a/c++/src/H5PredType.cpp b/c++/src/H5PredType.cpp index 3fe9a8a..211702d 100644 --- a/c++/src/H5PredType.cpp +++ b/c++/src/H5PredType.cpp @@ -19,6 +19,8 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" +#include "H5OcreatProp.h" +#include "H5DcreatProp.h" #include "H5Location.h" #include "H5Object.h" #include "H5DataType.h" diff --git a/c++/src/H5StrType.cpp b/c++/src/H5StrType.cpp index 8e1672b..db46596 100644 --- a/c++/src/H5StrType.cpp +++ b/c++/src/H5StrType.cpp @@ -19,14 +19,14 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5DxferProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5AtomType.h" #include "H5AbstractDs.h" -#include "H5DxferProp.h" #include "H5DataSpace.h" #include "H5StrType.h" #include "H5DataSet.h" diff --git a/c++/src/H5VarLenType.cpp b/c++/src/H5VarLenType.cpp index 67334d3..c9f320a 100644 --- a/c++/src/H5VarLenType.cpp +++ b/c++/src/H5VarLenType.cpp @@ -19,10 +19,10 @@ #include "H5Exception.h" #include "H5IdComponent.h" #include "H5PropList.h" -#include "H5Location.h" -#include "H5Object.h" #include "H5OcreatProp.h" #include "H5DcreatProp.h" +#include "H5Location.h" +#include "H5Object.h" #include "H5DataType.h" #include "H5VarLenType.h" diff --git a/c++/test/Makefile.am b/c++/test/Makefile.am index 07fe533..da0a864 100644 --- a/c++/test/Makefile.am +++ b/c++/test/Makefile.am @@ -34,7 +34,7 @@ LDADD=$(LIBH5TEST) $(LIBH5CPP) $(LIBHDF5) testhdf5_SOURCES=testhdf5.cpp dsets.cpp tattr.cpp tarray.cpp \ tcompound.cpp tdspl.cpp tfile.cpp tfilter.cpp th5s.cpp \ tlinks.cpp tobject.cpp trefer.cpp ttypes.cpp tvlstr.cpp \ - h5cpputil.cpp + titerate.cpp h5cpputil.cpp # Tell conclude.am that these are C++ tests. CXX_API=yes diff --git a/c++/test/h5cpputil.cpp b/c++/test/h5cpputil.cpp index 05a4d9a..3bc38b5 100644 --- a/c++/test/h5cpputil.cpp +++ b/c++/test/h5cpputil.cpp @@ -164,6 +164,32 @@ int check_values (hsize_t i, hsize_t j, int apoint, int acheck) } // check_values /*------------------------------------------------------------------------- + * Function: check_values + * + * Purpose: Checks a char string pointer for NULL. If it is NULL, + * the function will print out a message + * + * Return: Success: 0 + * + * Failure: -1 + * + * Programmer: Binh-Minh Ribler (using C code segment for checking values) + * Friday, September 16, 2016 + * + *------------------------------------------------------------------------- + */ +void check_values(const char *value, const char* msg, int line, const char* file_name) +{ + if (value == NULL) + { + cerr << endl; + cerr << "*** ERROR: " << msg << ", at line " << line << endl; + IncTestNumErrs(); + throw TestFailedException(file_name, msg); + } +} + +/*------------------------------------------------------------------------- * Function: verify_val (const char*, const char*,...) * * Purpose: Compares two character strings. If they are diff --git a/c++/test/h5cpputil.h b/c++/test/h5cpputil.h index 50cde99..0a3221d 100644 --- a/c++/test/h5cpputil.h +++ b/c++/test/h5cpputil.h @@ -39,6 +39,7 @@ using std::endl; #define SUBTEST(TEST) {printf(" Subtest: %-52s",TEST); fflush(stdout);} int check_values (hsize_t i, hsize_t j, int apoint, int acheck); +void check_values(const char *value, const char* msg, int line, const char* file_name); int test_report (int, const H5std_string&); void issue_fail_msg(const char* where, int line, const char* file_name, const char* message=""); @@ -60,6 +61,8 @@ class TestFailedException : public Exception { }; // Overloaded/Template functions to verify values and display proper info + +// Verifies void verify_val(const char* x, const char* value, const char* where, int line, const char* file_name); template <class Type1, class Type2> @@ -153,6 +156,7 @@ void test_file(); void test_filters(); void test_links(); void test_h5s(); +void test_iterate(); void test_object(); void test_reference(); void test_types(); @@ -167,8 +171,9 @@ void cleanup_dsproplist(); void cleanup_dsets(); void cleanup_file(); void cleanup_filters(); -void cleanup_links(); void cleanup_h5s(); +void cleanup_iterate(); +void cleanup_links(); void cleanup_object(); void cleanup_reference(); void cleanup_types(); @@ -182,7 +187,6 @@ void cleanup_vlstrings(); void cleanup_select(void); void cleanup_time(void); void cleanup_vltypes(void); -void cleanup_iterate(void); void cleanup_array(void); void cleanup_genprop(void); void cleanup_misc(void); diff --git a/c++/test/testhdf5.cpp b/c++/test/testhdf5.cpp index b17d942..4fe4b58 100644 --- a/c++/test/testhdf5.cpp +++ b/c++/test/testhdf5.cpp @@ -100,7 +100,9 @@ main(int argc, char *argv[]) AddTest("select", test_select, cleanup_select, "Selections", NULL); AddTest("time", test_time, cleanup_time, "Time Datatypes", NULL); AddTest("vltypes", test_vltypes, cleanup_vltypes, "Variable-Length Datatypes", NULL); +*/ AddTest("iterate", test_iterate, cleanup_iterate, "Group & Attribute Iteration", NULL); +/* AddTest("genprop", test_genprop, cleanup_genprop, "Generic Properties", NULL); AddTest("id", test_ids, NULL, "User-Created Identifiers", NULL); diff --git a/c++/test/titerate.cpp b/c++/test/titerate.cpp new file mode 100644 index 0000000..e4aee97 --- /dev/null +++ b/c++/test/titerate.cpp @@ -0,0 +1,541 @@ +/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * 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 files COPYING and Copyright.html. COPYING can be found at the root * + * of the source code distribution tree; Copyright.html can be found at the * + * root level of an installed copy of the electronic HDF5 document set and * + * is linked from the top-level documents page. It can also be found at * + * http://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have * + * access to either file, you may request a copy from help@hdfgroup.org. * + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + +/***************************************************************************** + FILE + titerate.cpp - HDF5 C++ testing iterate related functionality + + ***************************************************************************/ + +#ifdef OLD_HEADER_FILENAME +#include <iostream.h> +#else +#include <iostream> +#endif +#include <string> + +#ifndef H5_NO_NAMESPACE +#ifndef H5_NO_STD + using std::cerr; + using std::endl; +#endif // H5_NO_STD +#endif + +#include "H5Cpp.h" // C++ API header file + +#ifndef H5_NO_NAMESPACE + using namespace H5; +#endif + +#include "h5cpputil.h" // C++ utilility header file + +/* Number of datasets for group iteration test */ +#define NDATASETS 50 + +/* Number of attributes for attribute iteration test */ +//#define NATTR 50 + +/* Number of groups for second group iteration test */ +//#define ITER_NGROUPS 150 + +/* General maximum length of names used */ +#define NAMELEN 80 + +/* 1-D dataset with fixed dimensions */ +//#define SPACE1_RANK 1 +//#define SPACE1_DIM1 4 + +const H5std_string FILE_ITERATE("titerate.h5"); +const H5std_string GROUP1("Top Group"); +const H5std_string GROUP1_PATH("/Top Group"); +const H5std_string GROUP1_1("Sub-Group 1.1"); +const H5std_string GROUP1_1_PATH("/Top Group/Sub-Group 1.1"); +const H5std_string GROUP1_2("Sub-Group 1.2"); +const H5std_string GROUP1_2_PATH("/Top Group/Sub-Group 1.2"); +const H5std_string DSET_DEFAULT_NAME("default"); +const H5std_string DSET_IN_FILE("Dataset in File"); +const H5std_string DSET_IN_FILE_PATH("/Dataset in File"); +const H5std_string DSET_IN_GRP1("Dataset in Group 1"); +const H5std_string DSET_IN_GRP1_PATH("/Top Group/Dataset in Group 1"); +const H5std_string DSET_IN_GRP1_2("Dataset in Group 1.2"); +const H5std_string DSET_IN_GRP1_2_PATH("/Top Group/Sub-Group 1.2/Dataset in Group 1.2"); + +typedef enum { + RET_ZERO, + RET_TWO, + RET_CHANGE, + RET_CHANGE2 +} iter_enum; + +/* Custom group iteration callback data */ +typedef struct { + char name[NAMELEN]; /* The name of the object */ + H5O_type_t type; /* The type of the object */ + iter_enum command; /* The type of return value */ +} iter_info; + +int iter_strcmp(const void *s1, const void *s2); + +/**************************************************************** +** +** iter_strcmp(): String comparison routine for qsort +** +****************************************************************/ +int iter_strcmp(const void *s1, const void *s2) +{ + return(HDstrcmp(*(const char * const *)s1,*(const char * const *)s2)); +} + +/**************************************************************** +** +** liter_cb(): Custom link iteration callback routine. +** +****************************************************************/ +static herr_t +liter_cb(hid_t H5_ATTR_UNUSED group, const char *name, const H5L_info_t H5_ATTR_UNUSED *link_info, + void *op_data) +{ + iter_info *info = (iter_info *)op_data; + static int count = 0; + static int count2 = 0; + + HDstrcpy(info->name, name); + + switch(info->command) { + case RET_ZERO: + return(0); + + case RET_TWO: + return(2); + + case RET_CHANGE: + count++; + return(count > 10 ? 1 : 0); + + case RET_CHANGE2: + count2++; + return(count2 > 10 ? 1 : 0); + + default: + printf("invalid iteration command"); + return(-1); + } /* end switch */ +} /* end liter_cb() */ + +/*------------------------------------------------------------------------- + * Function: test_iter_group + * + * Purpose: Tests group iteration + * + * Return: Success: 0 + * Failure: -1 + * + * Programmer: Binh-Minh Ribler + * Friday, September 9, 2016 + * + * Modifications: + * + *------------------------------------------------------------------------- + */ +static void test_iter_group(FileAccPropList& fapl) +{ + int i; /* counting variable */ + hsize_t idx; /* Index in the group */ + char name[NAMELEN]; /* temporary name buffer */ + char *lnames[NDATASETS + 2];/* Names of the links created */ + iter_info info; /* Custom iteration information */ + herr_t ret; /* Generic return value */ + + /* Output message about test being performed */ + SUBTEST("Group Iteration"); + + /* Create the test file with the datasets */ + try { + // Create file + H5File file(FILE_ITERATE, H5F_ACC_TRUNC, FileCreatPropList::DEFAULT, fapl); + + /* Test iterating over empty group */ + info.command = RET_ZERO; + idx = 0; + ret = H5Literate(file.getId(), H5_INDEX_NAME, H5_ITER_INC, &idx, liter_cb, &info); + verify_val(ret, SUCCEED, "H5Literate", __LINE__, __FILE__); + + DataType datatype(PredType::NATIVE_INT); + + // Create a scalar file space + DataSpace filespace; + + for (i=0; i< NDATASETS; i++) + { + sprintf(name, "Dataset %d", i); + + // Create a dataset in the file + DataSet dataset = file.createDataSet(name, datatype, filespace); + + /* Keep a copy of the dataset names */ + lnames[i] = HDstrdup(name); + check_values(lnames[i], "HDstrdup returns NULL", __LINE__, __FILE__); + + } /* end for */ + + /* Create a group and named datatype under root group for testing */ + Group grp(file.createGroup(GROUP1, 0)); + lnames[NDATASETS] = HDstrdup("grp"); + check_values(lnames[NDATASETS], "HDstrdup returns NULL", __LINE__, __FILE__); + + datatype.commit(file, "dtype"); + lnames[NDATASETS + 1] = HDstrdup("dtype"); + check_values(lnames[NDATASETS], "HDstrdup returns NULL", __LINE__, __FILE__); + + /* Sort the dataset names */ + HDqsort(lnames, (size_t)(NDATASETS + 2), sizeof(char *), iter_strcmp); + + + /* Iterate through the datasets in the root group in various ways */ + + // Open data file to read + file.openFile(FILE_ITERATE, H5F_ACC_RDONLY, fapl); + + // Open the root group + Group root_group(file.openGroup("/")); + + // Get the number of object in the root group + hsize_t nobjs = root_group.getNumObjs(); + verify_val(nobjs, (hsize_t)(NDATASETS + 2), "H5Gget_info", __LINE__, __FILE__); + + H5std_string obj_name; + for (i = 0; i < nobjs; i++) + { + //H5O_info_t oinfo; /* Object info */ + + obj_name = root_group.getObjnameByIdx(i); + //ret = (herr_t)H5Lget_name_by_idx(root_group, ".", H5_INDEX_NAME, H5_ITER_INC, (hsize_t)i, dataset_name, (size_t)NAMELEN, H5P_DEFAULT); + + //oinfo = root_group.childObjType((hsize_t)i, H5_INDEX_NAME, H5_ITER_INC, "."); + //ret = H5Oget_info_by_idx(root_group, ".", H5_INDEX_NAME, H5_ITER_INC, (hsize_t)i, &oinfo, H5P_DEFAULT); + } /* end for */ + + // Attempted to iterate with invalid index, should fail + try { + obj_name = root_group.getObjnameByIdx(NDATASETS + 3); + + // Should FAIL but didn't, so throw an invalid action exception + throw InvalidActionException("Group::getObjnameByIdx", "Attempt to iterate with invalid index"); + } + catch (GroupIException& invalid_action) // invalid index + {} // do nothing, exception expected + + // Attempted to iterate with negative index, should fail + try { + info.command = RET_ZERO; + idx = (hsize_t)-1; + obj_name = root_group.getObjnameByIdx(idx); + + // Should FAIL but didn't, so throw an invalid action exception + throw InvalidActionException("Group::getObjnameByIdx", "Attempt to iterate with negative index"); + } + catch (FileIException& invalid_action) // invalid index + {} // do nothing, exception expected + catch (GroupIException& invalid_action) // invalid index + {} // do nothing, exception expected + + /* Test skipping exactly as many entries as in the group */ + try { + info.command = RET_ZERO; + idx = NDATASETS + 2; + obj_name = root_group.getObjnameByIdx(idx); + + // Should FAIL but didn't, so throw an invalid action exception + throw InvalidActionException("Group::getObjnameByIdx", "Attempt to iterate with negative index"); + } + catch (FileIException& invalid_action) // invalid index + {} // do nothing, exception expected + catch (GroupIException& invalid_action) // invalid index + {} // do nothing, exception expected + + /* Test skipping more entries than are in the group */ + try { + info.command = RET_ZERO; + idx = NDATASETS + 3; + obj_name = root_group.getObjnameByIdx(idx); + + // Should FAIL but didn't, so throw an invalid action exception + throw InvalidActionException("Group::getObjnameByIdx", "Attempt to iterate with negative index"); + } + catch (FileIException& invalid_action) // invalid index + {} // do nothing, exception expected + catch (GroupIException& invalid_action) // invalid index + {} // do nothing, exception expected + + /* Free the dataset names */ + for(i = 0; i< (NDATASETS + 2); i++) + HDfree(lnames[i]); + + // Everything will be closed as they go out of scope + + PASSED(); + } // try block + + // catch all other exceptions + catch (Exception& E) + { + issue_fail_msg("test_iter_group", __LINE__, __FILE__); + } + +#if 0 + /* Test all objects in group, when callback always returns 0 */ + info.command = RET_ZERO; + idx = 0; + if((ret = H5Literate(file, H5_INDEX_NAME, H5_ITER_INC, &idx, liter_cb, &info)) > 0) + TestErrPrintf("Group iteration function didn't return zero correctly!\n"); + + /* Test all objects in group, when callback always returns 1 */ + /* This also tests the "restarting" ability, because the index changes */ + info.command = RET_TWO; + i = 0; + idx = 0; + while((ret = H5Literate(file, H5_INDEX_NAME, H5_ITER_INC, &idx, liter_cb, &info)) > 0) { + /* Verify return value from iterator gets propagated correctly */ + verify_val(ret, 2, "H5Literate", __LINE__, __FILE__); + + /* Increment the number of times "2" is returned */ + i++; + + /* Verify that the index is the correct value */ + verify_val(idx, (hsize_t)i, "H5Literate", __LINE__, __FILE__); + if(idx > (NDATASETS + 2)) + TestErrPrintf("Group iteration function walked too far!\n"); + + /* Verify that the correct name is retrieved */ + if(HDstrcmp(info.name, lnames[(size_t)(idx - 1)]) != 0) + TestErrPrintf("Group iteration function didn't return name correctly for link - lnames[%u] = '%s'!\n", (unsigned)(idx - 1), lnames[(size_t)(idx - 1)]); + } /* end while */ + verify_val(ret, -1, "H5Literate", __LINE__, __FILE__); + + if(i != (NDATASETS + 2)) + TestErrPrintf("%u: Group iteration function didn't perform multiple iterations correctly!\n", __LINE__); + + /* Test all objects in group, when callback changes return value */ + /* This also tests the "restarting" ability, because the index changes */ + info.command = new_format ? RET_CHANGE2 : RET_CHANGE; + i = 0; + idx = 0; + while((ret = H5Literate(file, H5_INDEX_NAME, H5_ITER_INC, &idx, liter_cb, &info)) >= 0) { + /* Verify return value from iterator gets propagated correctly */ + verify_val(ret, 1, "H5Literate", __LINE__, __FILE__); + + /* Increment the number of times "1" is returned */ + i++; + + /* Verify that the index is the correct value */ + verify_val(idx, (hsize_t)(i + 10), "H5Literate", __LINE__, __FILE__); + if(idx > (NDATASETS + 2)) + TestErrPrintf("Group iteration function walked too far!\n"); + + /* Verify that the correct name is retrieved */ + if(HDstrcmp(info.name, lnames[(size_t)(idx - 1)]) != 0) + TestErrPrintf("Group iteration function didn't return name correctly for link - lnames[%u] = '%s'!\n", (unsigned)(idx - 1), lnames[(size_t)(idx - 1)]); + } /* end while */ + verify_val(ret, -1, "H5Literate", __LINE__, __FILE__); + + if(i != 42 || idx != 52) + TestErrPrintf("%u: Group iteration function didn't perform multiple iterations correctly!\n", __LINE__); + + ret = H5Fclose(file); + CHECK(ret, FAIL, "H5Fclose"); + +#endif +} /* test_iter_group() */ + + +/**************************************************************** +** +** printelems(): Open an attribute and verify that it has a +** the correct name +** +****************************************************************/ +const H5std_string FILE_NAME("titerate.h5"); +const H5std_string GRP_NAME("/Group_A"); +const H5std_string FDATASET_NAME( "file dset" ); +const H5std_string GDATASET_NAME( "group dset" ); +const H5std_string ATTR_NAME( "Units" ); +const H5std_string FATTR_NAME( "F attr" ); +const H5std_string GATTR_NAME( "G attr" ); +const int DIM1 = 2; +void printelems(const Group& group, const H5std_string& dsname, const H5std_string& atname) +{ + try + { + DataSet d1(group.openDataSet(dsname)); + DataSpace s1 = d1.getSpace(); + s1.close(); + d1.close(); + + unsigned idx = 0; + Attribute a1(group.openAttribute(idx)); + H5std_string aname = a1.getName(); + verify_val(aname, atname, "printelems", __LINE__, __FILE__); + + a1.close(); + } + // catch failure caused by the DataSpace operations + catch( DataSpaceIException error ) + { + error.printError(); + } + + // catch failure caused by the Group operations + catch( GroupIException error ) + { + error.printError(); + } + + // catch failure caused by the DataSet operations + catch( DataSetIException error ) + { + error.printError(); + } +} + +/*------------------------------------------------------------------------- + * Function: test_HDFFV_9920 + * + * Purpose: Tests the fix for HDFFV-9920 + * + * Programmer: Binh-Minh Ribler + * Friday, September 9, 2016 + * + * Modifications: + * + *------------------------------------------------------------------------- + */ +static void test_HDFFV_9920() +{ + int attr_data[2] = { 100, 200}; + hsize_t dims[1] = { DIM1 }; + + try + { + // Create a new file and a group in it + H5File file( FILE_NAME, H5F_ACC_TRUNC ); + + Group gr1(file.createGroup(GRP_NAME)); + + // Create the data space for the attribute. + DataSpace dspace = DataSpace (1, dims ); + + DataSet fds = file.createDataSet(FDATASET_NAME, PredType::STD_I32BE, dspace); + DataSet gds = gr1.createDataSet(GDATASET_NAME, PredType::STD_I32BE, dspace); + + // Create a file attribute and a group attribute. + Attribute fa1 = file.createAttribute(FATTR_NAME, PredType::STD_I32BE, + dspace); + Attribute ga1 = gr1.createAttribute(GATTR_NAME, PredType::STD_I32BE, + dspace); + + // Write the attribute data. + fa1.write( PredType::NATIVE_INT, attr_data); + ga1.write( PredType::NATIVE_INT, attr_data); + + fa1.close(); + ga1.close(); + fds.close(); + gds.close(); + + // Verify the attributes have correct names. + printelems(file, FDATASET_NAME, FATTR_NAME); + printelems(gr1, GDATASET_NAME, GATTR_NAME); + + } // end of try block + + // catch failure caused by the H5File operations + catch( DataSpaceIException error ) + { + error.printError(); + } + + // catch failure caused by the H5File operations + catch( AttributeIException error ) + { + error.printError(); + } + + // catch failure caused by the H5File operations + catch( FileIException error ) + { + error.printError(); + } + + // catch failure caused by the DataSet operations + catch( DataSetIException error ) + { + error.printError(); + } +} + + +/*------------------------------------------------------------------------- + * Function: test_iterate + * + * Purpose: Tests iterate functionality + * + * Return: Success: 0 + * Failure: -1 + * + * Programmer: Binh-Minh Ribler + * Tuesday, September 6, 2016 + * + * Modifications: + * + *------------------------------------------------------------------------- + */ +#ifdef __cplusplus +extern "C" +#endif +void test_iterate() +{ + // Output message about test being performed + MESSAGE(5, ("Testing Iterate Feature\n")); + + // Create access property with latest library version. + FileAccPropList fapl; + fapl.setLibverBounds(H5F_LIBVER_LATEST, H5F_LIBVER_LATEST); + + test_iter_group(fapl); // Test iterating groups + test_HDFFV_9920(); // Test the fix of HDFFV-9920 + //test_iter_attr(fapl); // Test iterating attributes + +} // test_iterate + +/*------------------------------------------------------------------------- + * Function: cleanup_iterate + * + * Purpose: Cleanup temporary test files + * + * Return: none + * + * Programmer: (use C version) + * + * Modifications: + * + *------------------------------------------------------------------------- + */ +#ifdef __cplusplus +extern "C" +#endif +void cleanup_iterate() +{ + HDremove(FILE_ITERATE.c_str()); +} // cleanup_iterate |