GEOS
WrapperBase.hpp
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3  * SPDX-License-Identifier: LGPL-2.1-only
4  *
5  * Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
6  * Copyright (c) 2018-2024 TotalEnergies
7  * Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
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9  * Copyright (c) 2019- GEOS/GEOSX Contributors
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11  *
12  * See top level LICENSE, COPYRIGHT, CONTRIBUTORS, NOTICE, and ACKNOWLEDGEMENTS files for details.
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15 
18 #ifndef GEOS_DATAREPOSITORY_WRAPPERBASE_HPP_
19 #define GEOS_DATAREPOSITORY_WRAPPERBASE_HPP_
20 
21 #include "common/DataTypes.hpp"
22 #include "common/GEOS_RAJA_Interface.hpp"
23 #include "common/Span.hpp"
24 #include "InputFlags.hpp"
25 #include "xmlWrapper.hpp"
26 #include "RestartFlags.hpp"
27 #include "HistoryDataSpec.hpp"
28 #include "DataContext.hpp"
29 
30 #if defined(GEOS_USE_PYGEOSX)
31 #include "LvArray/src/python/python.hpp"
32 #endif
33 
34 #include <string>
35 #include <memory>
36 #include <set>
37 
38 namespace conduit
39 {
40 class Node;
41 }
42 
43 
44 namespace geos
45 {
46 namespace dataRepository
47 {
48 
49 class Group;
50 
56 {
57 public:
58 
63 
70  explicit WrapperBase( string const & name,
71  Group & parent,
72  string const & rtTypeName );
73 
75  WrapperBase() = delete;
76  WrapperBase( WrapperBase const & ) = delete;
77  WrapperBase( WrapperBase && ) = delete;
78  WrapperBase & operator=( WrapperBase const & ) = delete;
79  WrapperBase & operator=( WrapperBase && ) = delete;
81 
85  virtual ~WrapperBase();
86 
88 
96 
101  virtual localIndex size() const = 0;
102 
106  virtual void const * voidPointer() const = 0;
107 
112  virtual localIndex elementByteSize() const = 0;
113 
117  virtual size_t bytesAllocated() const = 0;
118 
119 
125  virtual void resize( int num_dims, localIndex const * const dims ) = 0;
126 
131  virtual void reserve( localIndex const newCapacity ) = 0;
132 
136  virtual localIndex capacity() const = 0;
137 
142  virtual void resize( localIndex newsize ) = 0;
143 
147  void resize();
148 
154  virtual void copy( localIndex const sourceIndex, localIndex const destIndex ) = 0;
155 
160  virtual void erase( std::set< localIndex > const & indicesToErase ) = 0;
161 
167  virtual void move( LvArray::MemorySpace const space, bool const touch ) const = 0;
168 
172  virtual Regex const & getTypeRegex() const = 0;
173 
177  string const & getRTTypeName() const
178  { return m_rtTypeName; }
179 
187  {
188  m_rtTypeName = rtTypeName;
189  return *this;
190  }
191 
193 
198  virtual bool hasDefaultValue() const = 0;
199 
204  virtual string getDefaultValueString() const = 0;
205 
212  virtual bool processInputFile( xmlWrapper::xmlNode const & targetNode,
213  xmlWrapper::xmlNodePos const & nodePos ) = 0;
214 
223  virtual void addBlueprintField( conduit::Node & fields,
224  string const & name,
225  string const & topology,
226  stdVector< string > const & componentNames = {} ) const = 0;
227 
234  virtual void populateMCArray( conduit::Node & node, stdVector< string > const & componentNames = {} ) const = 0;
235 
244  virtual std::unique_ptr< WrapperBase > averageOverSecondDim( string const & name, Group & group ) const = 0;
245 
250 
254  virtual void registerToWrite() const = 0;
255 
259  virtual void finishWriting() const = 0;
260 
265  virtual bool loadFromConduit() = 0;
266 
268 
274  virtual HistoryMetadata getHistoryMetadata( localIndex const packCount ) const = 0;
275 
282 
288  virtual bool isPackable( bool onDevice ) const = 0;
289 
302  template< bool DO_PACKING >
304  bool withMetadata,
305  bool onDevice,
306  parallelDeviceEvents & events ) const
307  {
308  return DO_PACKING ? packPrivate( buffer, withMetadata, onDevice, events ) : packSizePrivate( withMetadata, onDevice, events );
309  }
310 
324  template< bool DO_PACKING >
326  arrayView1d< localIndex const > const & packList,
327  bool withMetadata,
328  bool onDevice,
329  parallelDeviceEvents & events ) const
330  {
331  return DO_PACKING ? packByIndexPrivate( buffer, packList, withMetadata, onDevice, events ) : packByIndexSizePrivate( packList, withMetadata, onDevice, events );
332  }
333 
345  virtual localIndex unpack( buffer_unit_type const * & buffer,
346  bool withMetadata,
347  bool onDevice,
348  parallelDeviceEvents & events ) = 0;
349 
363  virtual localIndex unpackByIndex( buffer_unit_type const * & buffer,
364  arrayView1d< localIndex const > const & unpackIndices,
365  bool withMetadata,
366  bool onDevice,
367  parallelDeviceEvents & events,
368  MPI_Op op=MPI_REPLACE ) = 0;
369 
371 
376 
381  int sizedFromParent() const
382  {
383  return m_sizedFromParent;
384  }
385 
392  {
393  m_sizedFromParent = val;
394  return *this;
395  }
396 
402 
409  {
410  m_restart_flags = flags;
411  return *this;
412  }
413 
418  PlotLevel getPlotLevel() const { return m_plotLevel; }
419 
426  {
427  m_plotLevel = flag;
428  return *this;
429  }
430 
435  string const & getName() const
436  {
437  return m_name;
438  }
439 
444  string getPath() const;
445 
450  DataContext const & getDataContext() const
451  { return *m_dataContext; }
452 
457  { return *m_parent; }
458 
462  Group const & getParent() const
463  { return *m_parent; }
464 
471  {
472  if( input == InputFlags::OPTIONAL || input == InputFlags::REQUIRED )
473  {
474  this->setSizedFromParent( 0 );
476  }
477  m_inputFlag = input;
478 
479  return *this;
480  }
481 
487  {
488  return m_inputFlag;
489  }
490 
497  {
499  }
500 
506  WrapperBase & setDescription( string const & description )
507  {
508  m_description = description;
509  return *this;
510  }
511 
517  WrapperBase & appendDescription( string const & description )
518  {
519  m_description += description;
520  return *this;
521  }
522 
527  string const & getDescription() const
528  {
529  return m_description;
530  }
531 
536  std::set< string > const & getRegisteringObjects() const
537  {
538  return m_registeringObjects;
539  }
540 
546  WrapperBase & setRegisteringObjects( string const & objectName )
547  {
548  m_registeringObjects.insert( objectName );
549  return *this;
550  }
551 
553 
558 
563  virtual void copyWrapperAttributes( WrapperBase const & source );
564 
574  virtual std::unique_ptr< WrapperBase > clone( string const & name, Group & parent ) = 0;
575 
580  virtual void copyData( WrapperBase const & source ) = 0;
581 
586  virtual void copyWrapper( WrapperBase const & source ) = 0;
587 
592  virtual std::type_info const & getTypeId() const = 0;
593 
598  virtual int numArrayDims() const = 0;
599 
604  virtual localIndex numArrayComp() const = 0;
605 
619  virtual WrapperBase & setDimLabels( integer dim, Span< string const > labels ) = 0;
620 
628  virtual Span< string const > getDimLabels( integer dim ) const = 0;
629 
631 
632 #if defined(USE_TOTALVIEW_OUTPUT)
638  virtual string totalviewTypeName() const = 0;
639 
645  virtual int setTotalviewDisplay() const;
646 // static int TV_ttf_display_type( const WrapperBase * wrapper);
647 #endif
648 
649 #if defined(GEOS_USE_PYGEOSX)
654  virtual PyObject * createPythonObject( ) = 0;
655 #endif
656 
657 protected:
658 
660 
661  conduit::Node & getConduitNode()
662  {
663  return m_conduitNode;
664  }
665 
667 
673  void createDataContext( xmlWrapper::xmlNode const & targetNode,
674  xmlWrapper::xmlNodePos const & nodePos );
675 
676 protected:
677 
679  string m_name;
680 
683 
686 
689 
692 
695 
698 
701 
703  string m_rtTypeName;
704 
706  std::set< string > m_registeringObjects;
707 
709  conduit::Node & m_conduitNode;
710 
712  std::unique_ptr< DataContext > m_dataContext;
713 
714 private:
715 
727  virtual localIndex packPrivate( buffer_unit_type * & buffer, bool withMetadata, bool onDevice, parallelDeviceEvents & events ) const = 0;
728 
740  virtual localIndex packSizePrivate( bool withMetadata, bool onDevice, parallelDeviceEvents & events ) const = 0;
741 
742 
755  virtual localIndex packByIndexPrivate( buffer_unit_type * & buffer,
756  arrayView1d< localIndex const > const & packList,
757  bool withMetadata,
758  bool onDevice,
759  parallelDeviceEvents & events ) const = 0;
760 
772  virtual localIndex packByIndexSizePrivate( arrayView1d< localIndex const > const & packList,
773  bool withMetadata,
774  bool onDevice,
775  parallelDeviceEvents & events ) const = 0;
776 };
777 
778 }
779 }
780 
781 #endif /* GEOS_DATAREPOSITORY_WRAPPERBASE_HPP_ */
A minimal class to specify information about time history information being collected and output.
Lightweight non-owning wrapper over a contiguous range of elements.
Definition: Span.hpp:42
Base class for all wrappers containing common operations.
Definition: WrapperBase.hpp:56
InputFlags getInputFlag() const
Get the InputFlag of the wrapper.
virtual localIndex unpack(buffer_unit_type const *&buffer, bool withMetadata, bool onDevice, parallelDeviceEvents &events)=0
Unpack the entire wrapped object from a buffer.
virtual bool hasDefaultValue() const =0
Return true iff this wrapper has a valid default value.
string const & getName() const
Get name of the wrapper.
string const & getDescription() const
Get the description string of the wrapper.
virtual localIndex size() const =0
Calls T::size()
virtual localIndex numArrayComp() const =0
Return the number of components in a multidimensional array.
localIndex packByIndex(buffer_unit_type *&buffer, arrayView1d< localIndex const > const &packList, bool withMetadata, bool onDevice, parallelDeviceEvents &events) const
Concrete implementation of the packing by index method.
PlotLevel m_plotLevel
Flag to store the plotLevel.
std::set< string > const & getRegisteringObjects() const
Get the list of names of groups that registered this wrapper.
string const & getRTTypeName() const
virtual bool processInputFile(xmlWrapper::xmlNode const &targetNode, xmlWrapper::xmlNodePos const &nodePos)=0
Initialize the wrapper from the input xml node.
int sizedFromParent() const
Check whether this wrapper is resized when its parent is resized.
virtual void addBlueprintField(conduit::Node &fields, string const &name, string const &topology, stdVector< string > const &componentNames={}) const =0
Push the data in the wrapper into a Conduit blueprint field.
RestartFlags getRestartFlags() const
Get the RestartFlags of the wrapper.
WrapperBase & setInputFlag(InputFlags const input)
Set the InputFlag of the wrapper.
virtual void resize(localIndex newsize)=0
Calls T::resize(newsize) if it exists.
WrapperBase(string const &name, Group &parent, string const &rtTypeName)
Constructor.
conduit::Node & m_conduitNode
A reference to the corresponding conduit::Node.
virtual void move(LvArray::MemorySpace const space, bool const touch) const =0
Calls T::move(space, touch)
Group * m_parent
Pointer to Group that holds this WrapperBase.
virtual void erase(std::set< localIndex > const &indicesToErase)=0
Calls T::erase(indicesToErase)
virtual void finishWriting() const =0
Write the wrapped data into Conduit.
int m_sizedFromParent
Integer to indicate whether or not this wrapped object should be resized when m_parent is resized.
DataContext const & getDataContext() const
WrapperBase & setDescription(string const &description)
Set the description string of the wrapper.
virtual void populateMCArray(conduit::Node &node, stdVector< string > const &componentNames={}) const =0
Push the data in the wrapper into a Conduit Blueprint mcarray.
virtual void reserve(localIndex const newCapacity)=0
Calls T::reserve( newCapacity ) if it exists, otherwise a no-op.
virtual WrapperBase & setDimLabels(integer dim, Span< string const > labels)=0
Set dimension labels for an array.
virtual void copyData(WrapperBase const &source)=0
Copy the the data contained in another wrapper into this wrapper.
virtual bool loadFromConduit()=0
Read the wrapped data from Conduit.
WrapperBase & setSizedFromParent(int val)
Set whether this wrapper is resized when its parent is resized.
virtual void resize(int num_dims, localIndex const *const dims)=0
Calls T::resize( num_dims, dims )
virtual localIndex elementByteSize() const =0
virtual void copyWrapperAttributes(WrapperBase const &source)
Copy attributes from another wrapper.
WrapperBase & setRegisteringObjects(string const &objectName)
Add a new name to the list of groups that register this wrapper.
virtual void registerToWrite() const =0
Register the wrapper's data for writing with Conduit.
WrapperBase & setRestartFlags(RestartFlags flags)
Set the RestartFlags of the wrapper.
Group const & getParent() const
string m_rtTypeName
A string regex to validate the input values string to parse for the wrapped object.
WrapperBase & appendDescription(string const &description)
Add up more text to the existing description string of the wrapper.
virtual localIndex unpackByIndex(buffer_unit_type const *&buffer, arrayView1d< localIndex const > const &unpackIndices, bool withMetadata, bool onDevice, parallelDeviceEvents &events, MPI_Op op=MPI_REPLACE)=0
For indexable types, unpack selected indices of wrapped object from a buffer.
virtual localIndex capacity() const =0
std::unique_ptr< DataContext > m_dataContext
A DataContext object that can helps to contextualize this Group.
virtual std::unique_ptr< WrapperBase > averageOverSecondDim(string const &name, Group &group) const =0
Create a new Wrapper with values averaged over the second dimension.
void createDataContext(xmlWrapper::xmlNode const &targetNode, xmlWrapper::xmlNodePos const &nodePos)
Sets the m_dataContext to a DataFileContext by retrieving the attribute file line.
bool getSuccessfulReadFromInput() const
Returns flag that indicates whether the contents of the wrapper have been successfully read from the ...
virtual size_t bytesAllocated() const =0
string m_description
A string description of the wrapped object.
PlotLevel getPlotLevel() const
Get PlotLevel for this wrapper.
void resize()
Calls resize(newsize) where newsize is taken from the parent Group.
virtual ~WrapperBase()
Default destructor.
virtual void copy(localIndex const sourceIndex, localIndex const destIndex)=0
Calls T::copy(sourceIndex, destIndex)
bool m_successfulReadFromInput
Flag to indicate if wrapped object was successfully read from input.
virtual bool isPackable(bool onDevice) const =0
Check whether wrapped type is can be packed into a buffer on host or device.
std::set< string > m_registeringObjects
A vector of the names of the objects that created this Wrapper.
virtual Regex const & getTypeRegex() const =0
virtual string getDefaultValueString() const =0
Return a string representing the default value.
virtual std::type_info const & getTypeId() const =0
Get the typeid of T.
virtual void const * voidPointer() const =0
virtual void copyWrapper(WrapperBase const &source)=0
Copies the contents of a Wrapper into *this.
virtual int numArrayDims() const =0
Return the number of dimensions of the array.
WrapperBase & setRTTypeName(string_view rtTypeName)
override the rtType to use when parsing an input value to the wrapped object. It can be useful to cha...
virtual HistoryMetadata getHistoryMetadata(localIndex const packCount) const =0
Get a description of the wrapped data for time history collection/output.
virtual Span< string const > getDimLabels(integer dim) const =0
Get dimension labels of an array.
localIndex pack(buffer_unit_type *&buffer, bool withMetadata, bool onDevice, parallelDeviceEvents &events) const
Concrete implementation of the packing method.
InputFlags m_inputFlag
Flag to store if this wrapped object should be read from input.
string m_name
Name of the object that is being wrapped.
WrapperBase & setPlotLevel(PlotLevel const flag)
Set the PlotLevel of the wrapper.
RestartFlags m_restart_flags
Flag to determine the restart behavior for this wrapped object.
string getPath() const
Return the path to this Wrapper in the data repository.
virtual std::unique_ptr< WrapperBase > clone(string const &name, Group &parent)=0
Creates a clone of *this WrapperBase.
@ OPTIONAL
Optional in input.
@ REQUIRED
Required in input.
pugi::xml_node xmlNode
Definition: xmlWrapper.hpp:59
ArrayView< T, 1 > arrayView1d
Alias for 1D array view.
Definition: DataTypes.hpp:188
GEOS_LOCALINDEX_TYPE localIndex
Local index type (for indexing objects within an MPI partition).
Definition: DataTypes.hpp:84
std::int32_t integer
Signed integer type.
Definition: DataTypes.hpp:81
@ Node
location is node (like displacements in finite elements)
std::vector< T, Allocator > stdVector
signed char buffer_unit_type
Type stored in communication buffers.
Definition: DataTypes.hpp:117
std::string_view string_view
String type.
Definition: DataTypes.hpp:93