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SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY > Class Template Reference

#include <IndexData.h>

Inheritance diagram for SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >:
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Public Types

typedef IndexIterator< DIM, TYPE, BOX_GEOMETRY > Iterator
 
typedef ConstIndexIterator< DIM, TYPE, BOX_GEOMETRY > ConstIterator
 

Public Member Functions

 IndexData (const hier::Box< DIM > &box, const hier::IntVector< DIM > &ghosts)
 
virtual ~IndexData ()
 
virtual void copy (const hier::PatchData< DIM > &src)
 
virtual void copy2 (hier::PatchData< DIM > &dst) const
 
virtual void copy (const hier::PatchData< DIM > &src, const hier::BoxOverlap< DIM > &overlap)
 
virtual void copy2 (hier::PatchData< DIM > &dst, const hier::BoxOverlap< DIM > &overlap) const
 
virtual bool canEstimateStreamSizeFromBox () const
 
virtual int getDataStreamSize (const hier::BoxOverlap< DIM > &overlap) const
 
virtual void packStream (tbox::AbstractStream &stream, const hier::BoxOverlap< DIM > &overlap) const
 
virtual void unpackStream (tbox::AbstractStream &stream, const hier::BoxOverlap< DIM > &overlap)
 
void appendItem (const hier::Index< DIM > &index, const TYPE &item)
 
void appendItemPointer (const hier::Index< DIM > &index, TYPE *item)
 
void addItem (const hier::Index< DIM > &index, const TYPE &item)
 
void addItemPointer (const hier::Index< DIM > &index, TYPE *item)
 
void replaceAddItem (const hier::Index< DIM > &index, const TYPE &item)
 
void replaceAddItemPointer (const hier::Index< DIM > &index, TYPE *item)
 
void replaceAppendItem (const hier::Index< DIM > &index, const TYPE &item)
 
void replaceAppendItemPointer (const hier::Index< DIM > &index, TYPE *item)
 
void removeItem (const hier::Index< DIM > &index)
 
int getNumberOfItems () const
 
void removeInsideBox (const hier::Box< DIM > &box)
 
void removeOutsideBox (const hier::Box< DIM > &box)
 
void removeGhostItems ()
 
void removeAllItems ()
 
bool isElement (const hier::Index< DIM > &index) const
 
TYPE * getItem (const hier::Index< DIM > &index) const
 
virtual void getSpecializedFromDatabase (tbox::Pointer< tbox::Database > database)
 
virtual void putSpecializedToDatabase (tbox::Pointer< tbox::Database > database)
 
const Box< DIM > & getBox () const
 
const Box< DIM > & getGhostBox () const
 
const IntVector< DIM > & getGhostCellWidth () const
 
void setTime (const double timestamp)
 
double getTime () const
 
virtual void getFromDatabase (tbox::Pointer< tbox::Database > database)
 
virtual void putToDatabase (tbox::Pointer< tbox::Database > database)
 

Protected Member Functions

void setGhostBox (const Box< DIM > &ghost_box)
 

Private Member Functions

bool isElement (int offset) const
 
void removeItem (const int offset)
 
void addItemToList (const hier::Index< DIM > &index, const int offset, TYPE &item)
 
void appendItemToList (const hier::Index< DIM > &index, const int offset, TYPE &item)
 
void removeNodeFromList (IndexDataNode< DIM, TYPE, BOX_GEOMETRY > *node)
 
 IndexData (const IndexData< DIM, TYPE, BOX_GEOMETRY > &)
 
void operator= (const IndexData< DIM, TYPE, BOX_GEOMETRY > &)
 

Private Attributes

std::vector< IndexDataNode< DIM, TYPE, BOX_GEOMETRY > * > d_data
 
IndexDataNode< DIM, TYPE, BOX_GEOMETRY > * d_list_head
 
IndexDataNode< DIM, TYPE, BOX_GEOMETRY > * d_list_tail
 
int d_number_items
 
Box< DIM > d_box
 
Box< DIM > d_ghost_box
 
IntVector< DIM > d_ghosts
 
double d_timestamp
 

Friends

class IndexIterator< DIM, TYPE, BOX_GEOMETRY >
 
class ConstIndexIterator< DIM, TYPE, BOX_GEOMETRY >
 

Detailed Description

template<int DIM, class TYPE, class BOX_GEOMETRY>
class SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >

IndexData is used for storing sparse data. The iteration over the data preserves insertion order similar to a linked list, hence data may be inserted at the front (AddItem) or tail (AppendItem).

For example, this class is used to represent embedded * boundary features as a regular patch data type using the BoundaryCell class as the template type. The iteration ordering property is used to visit the boundary cells in a well defined way.

Additional insertion methods are provided for optimization in specific use cases. An extra constructor call can be avoided if the "Pointer" versions of Add/AppendItem are used. These methods assume that the items are being "given" to IndexData thus IndexData will delete them when needed. The items must be dynamically allocated for this to work correctly, E.G.

index_data.addItemPointer(someIndex, new ItemToInsert());

The "replace" versions of the insert routines may be used when one wishes to preserve the existing iteration ordering. If an item already exists the replace insert will delete the old item and put the item provided in it's place (inserting it into that location in the linked list).

If one does not care about the iteration order and is frequently updating the items stored, the "replace" versions are significantly faster.

The template parameter TYPE * defines the storage at each index location. IndexDaga is derived from * hier::PatchData.

The data type TYPE must define the following five methods which are require by this class:

The BOX_GEOMETRY template parameter defines the geometry. BOX_GEOMETRY must have a nested class name Overlap that implements he following methods:

More information about the templated TYPE is provided in the IndexData README file.

IndexData<DIM> objects are created by the IndexDataFactory<DIM> factory object just as all other patch data types.

See also
pdat::IndexData
hier::PatchData
pdat::IndexDataFactory

Member Typedef Documentation

◆ Iterator

template<int DIM, class TYPE , class BOX_GEOMETRY >
typedef IndexIterator<DIM,TYPE,BOX_GEOMETRY> SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::Iterator

Define the iterator.

◆ ConstIterator

template<int DIM, class TYPE , class BOX_GEOMETRY >
typedef ConstIndexIterator<DIM,TYPE,BOX_GEOMETRY> SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::ConstIterator

Constructor & Destructor Documentation

◆ IndexData() [1/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::IndexData ( const hier::Box< DIM > &  box,
const hier::IntVector< DIM > &  ghosts 
)

The constructor for an IndexData object. The box describes the interior of the index space and the ghosts vector describes the ghost nodes in each coordinate direction.

◆ ~IndexData()

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::~IndexData ( )
virtual

The virtual destructor for an IndexData object.

◆ IndexData() [2/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::IndexData ( const IndexData< DIM, TYPE, BOX_GEOMETRY > &  )
private

Member Function Documentation

◆ copy() [1/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::copy ( const hier::PatchData< DIM > &  src)
virtual

A fast copy between the source and destination. All data is copied from the source into the destination where there is overlap in the index space.

Implements SAMRAI::hier::PatchData< DIM >.

◆ copy2() [1/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::copy2 ( hier::PatchData< DIM > &  dst) const
virtual

A fast copy between the source and destination. Data is copied from the source into the destination where there is overlap in the underlying index space. The copy is performed on the interior plus the ghost cell width (for both the source and destination). If this copy does not understand how to copy data from the destination, then it may throw an exception (aka dump core in a failed assertion).

Implements SAMRAI::hier::PatchData< DIM >.

◆ copy() [2/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::copy ( const hier::PatchData< DIM > &  src,
const hier::BoxOverlap< DIM > &  overlap 
)
virtual

Copy data from the source into the destination using the designated overlap descriptor. The overlap description should have been computed previously from computeIntersection().

Implements SAMRAI::hier::PatchData< DIM >.

◆ copy2() [2/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::copy2 ( hier::PatchData< DIM > &  dst,
const hier::BoxOverlap< DIM > &  overlap 
) const
virtual

Copy data from the source into the destination using the designated overlap descriptor. The overlap description will have been computed using the appropriate box geometry objects If this member function cannot complete the copy from the destination, then it may throw an exception (aka dump core in a failed assertion).

Implements SAMRAI::hier::PatchData< DIM >.

◆ canEstimateStreamSizeFromBox()

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual bool SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::canEstimateStreamSizeFromBox ( ) const
virtual

Determines whether the hier::PatchData subclass can estinate the necessary stream size using only index space information.

Implements SAMRAI::hier::PatchData< DIM >.

◆ getDataStreamSize()

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual int SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::getDataStreamSize ( const hier::BoxOverlap< DIM > &  overlap) const
virtual

Calculate the number of bytes needed to stream the data lying in the specified box domain.

Implements SAMRAI::hier::PatchData< DIM >.

◆ packStream()

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::packStream ( tbox::AbstractStream stream,
const hier::BoxOverlap< DIM > &  overlap 
) const
virtual

Pack data lying on the specified index set into the output stream.

Implements SAMRAI::hier::PatchData< DIM >.

◆ unpackStream()

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::unpackStream ( tbox::AbstractStream stream,
const hier::BoxOverlap< DIM > &  overlap 
)
virtual

Unpack data from the message stream into the specified index set.

Implements SAMRAI::hier::PatchData< DIM >.

◆ appendItem()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::appendItem ( const hier::Index< DIM > &  index,
const TYPE &  item 
)

Add a new item to the tail of the irregular index set.

◆ appendItemPointer()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::appendItemPointer ( const hier::Index< DIM > &  index,
TYPE *  item 
)

Add a pointer to a new item to the tail of the irregular index set. IndexData will delete the item when it is no longer needed by IndexData. Due to this behavior item must be dynamically created (e.g. new) so that it may be deleted.

NOTE: This is an optimization to avoid an extra constructor call. It should be used with caution, the caller MUST NOT delete the referenced item. Think of this as giving up control of the item to IndexData.

◆ addItem()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::addItem ( const hier::Index< DIM > &  index,
const TYPE &  item 
)

Add a new item to the head of the irregular index set

◆ addItemPointer()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::addItemPointer ( const hier::Index< DIM > &  index,
TYPE *  item 
)

Add a pointer to a new item to the head of the irregular index set. IndexData will delete the item when it is no longer needed by IndexData. Due to this behavior item must be dynamically created (e.g. new) so that it may be deleted.

NOTE: This is an optimization to avoid an extra constructor call. It should be used with caution, the caller MUST NOT delete the referenced item. Think of this as giving up control of the item to IndexData.

◆ replaceAddItem()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::replaceAddItem ( const hier::Index< DIM > &  index,
const TYPE &  item 
)

Remove (deallocate) the item in the irregular index set located at the specified hier::Index and replace it with a new item.

This preserves the iteration order of the orginal insertions.

If an item does not already exist at index this is equivelent to addItem.

◆ replaceAddItemPointer()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::replaceAddItemPointer ( const hier::Index< DIM > &  index,
TYPE *  item 
)

Remove (deallocate) the item in the irregular index set located at the specified hier::Index and replace it with a new item.

This preserves the iteration order of the original insertions.

If an item does not already exist at index this is equivelent to addItemPointer.

See addItemPointer for additional comments on pointer semantics.

◆ replaceAppendItem()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::replaceAppendItem ( const hier::Index< DIM > &  index,
const TYPE &  item 
)

Remove (deallocate) the item in the irregular index set located at the specified hier::Index and replace it with a new item.

This preserves the iteration order of the orginal insertions.

If an item does not already exist at index this is equivelent to appendItem.

◆ replaceAppendItemPointer()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::replaceAppendItemPointer ( const hier::Index< DIM > &  index,
TYPE *  item 
)

Remove (deallocate) the item in the irregular index set located at the specified hier::Index and replace it with a new item.

This preserves the iteration order of the original insertions.

If an item does not already exist at index this is equivelent to appendItemPointer.

See addItemPointer for additional comments on pointer semantics.

◆ removeItem() [1/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::removeItem ( const hier::Index< DIM > &  index)

Remove (deallocate) the item in the irregular index set located at the specified hier::Index.

◆ getNumberOfItems()

template<int DIM, class TYPE , class BOX_GEOMETRY >
int SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::getNumberOfItems ( ) const

Return the number of data items (i.e. the number of indices) in
the index data list.

◆ removeInsideBox()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::removeInsideBox ( const hier::Box< DIM > &  box)

Remove (deallocate) any items in the irregular index set located in the index space of the hier::Box.

◆ removeOutsideBox()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::removeOutsideBox ( const hier::Box< DIM > &  box)

Remove (deallocate) any items in the irregular index set located outside of the index space of the hier::Box.

◆ removeGhostItems()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::removeGhostItems ( )

Remove (deallocate) the items in the irregular index set located in the ghost region of the patch.

◆ removeAllItems()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::removeAllItems ( )

Remove (deallocate) all items in the irregular index set.

◆ isElement() [1/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
bool SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::isElement ( const hier::Index< DIM > &  index) const

Returns true if there is an element of the irregular index set at the specified hier::Index.

◆ getItem()

template<int DIM, class TYPE , class BOX_GEOMETRY >
TYPE* SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::getItem ( const hier::Index< DIM > &  index) const

Given an index, return a pointer to the item located at that index. If there is no item at the index, null is returned.

◆ getSpecializedFromDatabase()

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::getSpecializedFromDatabase ( tbox::Pointer< tbox::Database database)
virtual

Check to make sure that the class version number is the same as the restart file version number.

Assertions: database must be a non-null pointer.

Implements SAMRAI::hier::PatchData< DIM >.

◆ putSpecializedToDatabase()

template<int DIM, class TYPE , class BOX_GEOMETRY >
virtual void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::putSpecializedToDatabase ( tbox::Pointer< tbox::Database database)
virtual

Write out the class version number to the database.

Assertions: database must be a non-null pointer.

Implements SAMRAI::hier::PatchData< DIM >.

◆ isElement() [2/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
bool SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::isElement ( int  offset) const
private

Returns true if element exists at offset

◆ removeItem() [2/2]

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::removeItem ( const int  offset)
private

Remove (deallocate) the item in the irregular index set located at the offset.

NOTE: This is for optimization to avoid computing offset repeatedly.

◆ addItemToList()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::addItemToList ( const hier::Index< DIM > &  index,
const int  offset,
TYPE &  item 
)
private

Internal routine to append item to the linked list representation.

NOTE: Offset is not strictly necessary but was include to avoid computing it repeatedly.

◆ appendItemToList()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::appendItemToList ( const hier::Index< DIM > &  index,
const int  offset,
TYPE &  item 
)
private

◆ removeNodeFromList()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::removeNodeFromList ( IndexDataNode< DIM, TYPE, BOX_GEOMETRY > *  node)
private

Remove the specified node from the linked list.

◆ operator=()

template<int DIM, class TYPE , class BOX_GEOMETRY >
void SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::operator= ( const IndexData< DIM, TYPE, BOX_GEOMETRY > &  )
private

◆ getBox()

template<int DIM>
const Box<DIM>& SAMRAI::hier::PatchData< DIM >::getBox ( ) const
inherited

Return the box over which this patch data object is defined. All objects in the same patch are defined over the same box, although the patch data objects may interpret how to allocate storage for that box in different ways.

◆ getGhostBox()

template<int DIM>
const Box<DIM>& SAMRAI::hier::PatchData< DIM >::getGhostBox ( ) const
inherited

Return the ghost cell box. The ghost cell box is defined to be the interior box grown by the ghost cell width.

◆ getGhostCellWidth()

template<int DIM>
const IntVector<DIM>& SAMRAI::hier::PatchData< DIM >::getGhostCellWidth ( ) const
inherited

Get the ghost cell width associated with this patch data object.

◆ setTime()

template<int DIM>
void SAMRAI::hier::PatchData< DIM >::setTime ( const double  timestamp)
inherited

Set the simulation time stamp for the patch data type. The simulation time is initialized to zero when the patch data type is created.

◆ getTime()

template<int DIM>
double SAMRAI::hier::PatchData< DIM >::getTime ( ) const
inherited

Get the simulation time stamp for the patch data type.

◆ getFromDatabase()

template<int DIM>
virtual void SAMRAI::hier::PatchData< DIM >::getFromDatabase ( tbox::Pointer< tbox::Database database)
virtualinherited

Checks that class version and restart file version are equal. If so, reads in the data members common to all patch data types from database. This method then calls the getSpecializedFromDatabase() method to retrieve the data special to the concrete patch data type.

◆ putToDatabase()

template<int DIM>
virtual void SAMRAI::hier::PatchData< DIM >::putToDatabase ( tbox::Pointer< tbox::Database database)
virtualinherited

Writes out the class version number to the database. Then, writes the data members common to all patch data types from database. After the common data is written to the database, the putSpecializedToDatabase() method is invoked.

◆ setGhostBox()

template<int DIM>
void SAMRAI::hier::PatchData< DIM >::setGhostBox ( const Box< DIM > &  ghost_box)
protectedinherited

This protected method is used by concrete patch data subclasses to set the ghost box over which the patch data will be allocated. Note that this allows the ghost box to be inconsistant with its standard interpretation as the patch domain box grown by the ghost cell width (as set in the constructor).

This function is included to treat some special cases for concrete patch data types and should be used with caution.

Friends And Related Function Documentation

◆ IndexIterator< DIM, TYPE, BOX_GEOMETRY >

template<int DIM, class TYPE , class BOX_GEOMETRY >
friend class IndexIterator< DIM, TYPE, BOX_GEOMETRY >
friend

◆ ConstIndexIterator< DIM, TYPE, BOX_GEOMETRY >

template<int DIM, class TYPE , class BOX_GEOMETRY >
friend class ConstIndexIterator< DIM, TYPE, BOX_GEOMETRY >
friend

Member Data Documentation

◆ d_data

template<int DIM, class TYPE , class BOX_GEOMETRY >
std::vector<IndexDataNode<DIM,TYPE,BOX_GEOMETRY> *> SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::d_data
private

◆ d_list_head

template<int DIM, class TYPE , class BOX_GEOMETRY >
IndexDataNode<DIM,TYPE,BOX_GEOMETRY>* SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::d_list_head
private

◆ d_list_tail

template<int DIM, class TYPE , class BOX_GEOMETRY >
IndexDataNode<DIM,TYPE,BOX_GEOMETRY>* SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::d_list_tail
private

◆ d_number_items

template<int DIM, class TYPE , class BOX_GEOMETRY >
int SAMRAI::pdat::IndexData< DIM, TYPE, BOX_GEOMETRY >::d_number_items
private

◆ d_box

template<int DIM>
Box<DIM> SAMRAI::hier::PatchData< DIM >::d_box
privateinherited

◆ d_ghost_box

template<int DIM>
Box<DIM> SAMRAI::hier::PatchData< DIM >::d_ghost_box
privateinherited

◆ d_ghosts

template<int DIM>
IntVector<DIM> SAMRAI::hier::PatchData< DIM >::d_ghosts
privateinherited

◆ d_timestamp

template<int DIM>
double SAMRAI::hier::PatchData< DIM >::d_timestamp
privateinherited

The documentation for this class was generated from the following file: