[svn-r15309] Purpose: Fixed bugs

Description:
    The class hierarchy was revised to address the problem reported in
    bugzilla #1068.  Classes AbstractDS and Attribute are moved out of
    H5Object.  Class Attribute now multiply inherits from IdComponent and
    AbstractDs and class DataSet from H5Object and AbstractDs.

    In addition, data member IdComponent::id was moved into subclasses:
    Attribute, DataSet, DataSpace, DataType, H5File, Group, and PropList.

Platforms tested:
    SunOS 5.10 (linew)
    Linux 2.6 (kagiso)
    FreeBSD (duty)

1 files changed, 185 insertions, 9 deletions

diff --git a/c++/src/H5Object.cpp b/c++/src/H5Object.cpp
index c027f51..b2bdefb 100644
--- a/c++/src/H5Object.cpp
+++ b/c++/src/H5Object.cpp
@@ -21,10 +21,15 @@
 #include "H5PropList.h"
 #include "H5Object.h"
 #include "H5DcreatProp.h"
+#include "H5DxferProp.h"
+#include "H5FaccProp.h"
+#include "H5FcreatProp.h"
 #include "H5CommonFG.h"
 #include "H5DataType.h"
 #include "H5DataSpace.h"
 #include "H5AbstractDs.h"
+#include "H5File.h"
+#include "H5DataSet.h"
 #include "H5Attribute.h"
 
 #ifndef H5_NO_NAMESPACE
@@ -103,7 +108,7 @@ Attribute H5Object::createAttribute( const char* name, const DataType& data_type
    hid_t type_id = data_type.getId();
    hid_t space_id = data_space.getId();
    hid_t plist_id = create_plist.getId();
-   hid_t attr_id = H5Acreate2(id, name, type_id, space_id, plist_id, H5P_DEFAULT );
+   hid_t attr_id = H5Acreate2(getId(), name, type_id, space_id, plist_id, H5P_DEFAULT );
 
    // If the attribute id is valid, create and return the Attribute object
    if( attr_id > 0 )
@@ -137,7 +142,7 @@ Attribute H5Object::createAttribute( const H5std_string& name, const DataType& d
 //--------------------------------------------------------------------------
 Attribute H5Object::openAttribute( const char* name ) const
 {
-   hid_t attr_id = H5Aopen( id, name, H5P_DEFAULT );
+   hid_t attr_id = H5Aopen(getId(), name, H5P_DEFAULT);
    if( attr_id > 0 )
    {
       Attribute attr( attr_id );
@@ -171,7 +176,8 @@ Attribute H5Object::openAttribute( const H5std_string& name ) const
 //--------------------------------------------------------------------------
 Attribute H5Object::openAttribute( const unsigned int idx ) const
 {
-   hid_t attr_id = H5Aopen_by_idx(id, ".", H5_INDEX_CRT_ORDER, H5_ITER_INC, (hsize_t)idx, H5P_DEFAULT, H5P_DEFAULT);
+   hid_t attr_id = H5Aopen_by_idx(getId(), ".", H5_INDEX_CRT_ORDER, 
+			H5_ITER_INC, (hsize_t)idx, H5P_DEFAULT, H5P_DEFAULT);
    if( attr_id > 0 )
    {
       Attribute attr( attr_id );
@@ -209,7 +215,8 @@ int H5Object::iterateAttrs( attr_operator_t user_op, unsigned *_idx, void *op_da
 
    // call the C library routine H5Aiterate2 to iterate the attributes
    hsize_t idx = (hsize_t)*_idx;
-   int ret_value = H5Aiterate2(id, H5_INDEX_NAME, H5_ITER_INC, &idx, userAttrOpWrpr, (void *) userData);
+   int ret_value = H5Aiterate2(getId(), H5_INDEX_NAME, H5_ITER_INC, &idx, 
+			userAttrOpWrpr, (void *) userData);
 
    // release memory
    delete userData;
@@ -235,7 +242,7 @@ int H5Object::getNumAttrs() const
 {
    H5O_info_t oinfo;    /* Object info */
 
-   if(H5Oget_info(id, &oinfo) < 0)
+   if(H5Oget_info(getId(), &oinfo) < 0)
       throw AttributeIException(inMemFunc("getNumAttrs"), "H5Oget_info failed");
    else
       return( (int)oinfo.num_attrs );
@@ -250,7 +257,7 @@ int H5Object::getNumAttrs() const
 //--------------------------------------------------------------------------
 void H5Object::removeAttr( const char* name ) const
 {
-   herr_t ret_value = H5Adelete(id, name);
+   herr_t ret_value = H5Adelete(getId(), name);
    if( ret_value < 0 )
       throw AttributeIException(inMemFunc("removeAttr"), "H5Adelete failed");
 }
@@ -277,7 +284,7 @@ void H5Object::removeAttr( const H5std_string& name ) const
 //--------------------------------------------------------------------------
 void H5Object::renameAttr(const char* oldname, const char* newname) const
 {
-   herr_t ret_value = H5Arename(id, oldname, newname);
+   herr_t ret_value = H5Arename(getId(), oldname, newname);
    if (ret_value < 0)
       throw AttributeIException(inMemFunc("renameAttr"), "H5Arename failed");
 }
@@ -306,9 +313,9 @@ void H5Object::renameAttr(const H5std_string& oldname, const H5std_string& newna
 ///		This object is used to identify the file to be flushed.
 // Programmer	Binh-Minh Ribler - 2000
 //--------------------------------------------------------------------------
-void H5Object::flush(H5F_scope_t scope ) const
+void H5Object::flush(H5F_scope_t scope) const
 {
-   herr_t ret_value = H5Fflush( id, scope );
+   herr_t ret_value = H5Fflush(getId(), scope);
    if( ret_value < 0 )
    {
       throw FileIException(inMemFunc("flush"), "H5Fflush failed");
@@ -333,6 +340,175 @@ H5std_string H5Object::getFileName() const
 }
 
 //--------------------------------------------------------------------------
+// Function:    H5Object::p_reference (protected)
+// Purpose      Creates a reference to an HDF5 object or a dataset region.
+// Parameters
+//              name - IN: Name of the object to be referenced
+//              dataspace - IN: Dataspace with selection
+//              ref_type - IN: Type of reference; default to \c H5R_DATASET_REGION
+// Exception    H5::IdComponentException
+// Programmer   Binh-Minh Ribler - May, 2004
+//--------------------------------------------------------------------------
+void H5Object::p_reference(void* ref, const char* name, hid_t space_id, H5R_type_t ref_type) const
+{
+   herr_t ret_value = H5Rcreate(ref, getId(), name, ref_type, space_id);
+   if (ret_value < 0)
+   {
+      throw IdComponentException("", "H5Rcreate failed");
+   }
+}
+
+//--------------------------------------------------------------------------
+// Function:    H5Object::reference
+///\brief       Creates a reference to an HDF5 object or a dataset region.
+///\param       ref - IN: Reference pointer
+///\param       name - IN: Name of the object to be referenced
+///\param       dataspace - IN: Dataspace with selection
+///\param       ref_type - IN: Type of reference to query, valid values are:
+///             \li \c H5R_OBJECT \tReference is an object reference.
+///             \li \c H5R_DATASET_REGION \tReference is a dataset region
+///                     reference. - this is the default
+///\exception   H5::IdComponentException
+// Programmer   Binh-Minh Ribler - May, 2004
+//--------------------------------------------------------------------------
+void H5Object::reference(void* ref, const char* name, const DataSpace& dataspace, H5R_type_t ref_type) const
+{
+   try {
+      p_reference(ref, name, dataspace.getId(), ref_type);
+   }
+   catch (IdComponentException E) {
+      throw IdComponentException("H5Object::reference", E.getDetailMsg());
+   }
+}
+
+//--------------------------------------------------------------------------
+// Function:    H5Object::reference
+///\brief       This is an overloaded function, provided for your convenience.
+///             It differs from the above function in that it only creates
+///             a reference to an HDF5 object, not to a dataset region.
+///\param       ref - IN: Reference pointer
+///\param       name - IN: Name of the object to be referenced - \c char pointer
+///\exception   H5::IdComponentException
+///\par Description
+//              This function passes H5R_OBJECT and -1 to the protected
+//              function for it to pass to the C API H5Rcreate
+//              to create a reference to the named object.
+// Programmer   Binh-Minh Ribler - May, 2004
+//--------------------------------------------------------------------------
+void H5Object::reference(void* ref, const char* name) const
+{
+   try {
+      p_reference(ref, name, -1, H5R_OBJECT);
+   }
+   catch (IdComponentException E) {
+      throw IdComponentException("H5Object::reference", E.getDetailMsg());
+   }
+}
+
+//--------------------------------------------------------------------------
+// Function:    H5Object::reference
+///\brief       This is an overloaded function, provided for your convenience.
+///             It differs from the above function in that it takes an
+///             \c std::string for the object's name.
+///\param       ref - IN: Reference pointer
+///\param       name - IN: Name of the object to be referenced - \c std::string
+// Programmer   Binh-Minh Ribler - May, 2004
+//--------------------------------------------------------------------------
+void H5Object::reference(void* ref, const H5std_string& name) const
+{
+   reference(ref, name.c_str());
+}
+
+//--------------------------------------------------------------------------
+// Function:    H5Object::dereference
+// Purpose      Dereference a ref into a DataSet object.
+// Parameters
+//              ref - IN: Reference pointer
+// Exception    H5::IdComponentException
+// Programmer   Binh-Minh Ribler - Oct, 2006
+// Modification
+//	May 2008 - BMR
+//		Moved from IdComponent into H5File and H5Object
+//--------------------------------------------------------------------------
+void H5Object::dereference(H5File& h5file, void* ref)
+{
+   hid_t temp_id;
+   try {
+      temp_id = h5file.p_dereference(ref);
+   }
+   catch (ReferenceException ref_err) {
+      throw (inMemFunc("dereference"), ref_err.getDetailMsg());
+   }
+
+   // No failure, set id to the object
+   setId(temp_id);
+}
+
+void H5Object::dereference(H5Object& obj, void* ref)
+{
+   hid_t temp_id;
+   try {
+      temp_id = obj.p_dereference(ref);
+   }
+   catch (ReferenceException ref_err) {
+      throw (inMemFunc("dereference"), ref_err.getDetailMsg());
+   }
+
+   // No failure, set id to the object
+   setId(temp_id);
+}
+
+#ifndef H5_NO_DEPRECATED_SYMBOLS
+//--------------------------------------------------------------------------
+// Function:    H5Object::p_get_obj_type (protected)
+// Purpose      Retrieves the type of object that an object reference points to.
+// Parameters
+//              ref      - IN: Reference to query
+//              ref_type - IN: Type of reference to query
+// Return       An object type, which can be one of the following:
+//                      H5G_LINK Object is a symbolic link.
+//                      H5G_GROUP Object is a group.
+//                      H5G_DATASET   Object is a dataset.
+//                      H5G_TYPE Object is a named datatype
+// Exception    H5::IdComponentException
+// Programmer   Binh-Minh Ribler - May, 2004
+//--------------------------------------------------------------------------
+H5G_obj_t H5Object::p_get_obj_type(void *ref, H5R_type_t ref_type) const
+{
+   H5G_obj_t obj_type = H5Rget_obj_type1(getId(), ref_type, ref);
+
+   if (obj_type == H5G_UNKNOWN)
+   {
+      throw IdComponentException("", "H5Rget_obj_type failed");
+   }
+   return(obj_type);
+}
+#endif /* H5_NO_DEPRECATED_SYMBOLS */
+
+
+//--------------------------------------------------------------------------
+// Function:    H5Object::p_get_region (protected)
+// Purpose      Retrieves a dataspace with the region pointed to selected.
+// Parameters
+//              ref_type - IN: Type of reference to get region of - default
+//                              to H5R_DATASET_REGION
+//              ref      - IN: Reference to get region of
+// Return       Dataspace id
+// Exception    H5::IdComponentException
+// Programmer   Binh-Minh Ribler - May, 2004
+//--------------------------------------------------------------------------
+hid_t H5Object::p_get_region(void *ref, H5R_type_t ref_type) const
+{
+   hid_t space_id = H5Rget_region(getId(), ref_type, ref);
+   if (space_id < 0)
+   {
+      throw IdComponentException("", "H5Rget_region failed");
+   }
+   return(space_id);
+}
+
+
+//--------------------------------------------------------------------------
 // Function:	H5Object destructor
 ///\brief	Noop destructor.
 // Programmer	Binh-Minh Ribler - 2000