vtkMoleculeMapper Class Reference

Mapper that draws vtkMolecule objects. More...

#include <vtkMoleculeMapper.h>

Inheritance diagram for vtkMoleculeMapper:

Collaboration diagram for vtkMoleculeMapper:

Public Types
enum	{ CovalentRadius = 0, VDWRadius, UnitRadius, CustomArrayRadius }
enum	{ SingleColor = 0, DiscreteByAtom }
typedef vtkMapper	Superclass
Public Types inherited from vtkMapper
typedef vtkAbstractMapper3D	Superclass
Public Types inherited from vtkAbstractMapper3D
typedef vtkAbstractMapper	Superclass
Public Types inherited from vtkAbstractMapper
typedef vtkAlgorithm	Superclass
Public Types inherited from vtkAlgorithm
enum	DesiredOutputPrecision { SINGLE_PRECISION, DOUBLE_PRECISION, DEFAULT_PRECISION }
	Values used for setting the desired output precision for various algorithms. More...
typedef vtkObject	Superclass

Public Member Functions
virtual int	IsA (const char *type)
	Return 1 if this class is the same type of (or a subclass of) the named class. More...
vtkMoleculeMapper *	NewInstance () const
void	PrintSelf (ostream &os, vtkIndent indent)
	Methods invoked by print to print information about the object including superclasses. More...
void	UseBallAndStickSettings ()
	Set ivars to default ball-and-stick settings. More...
void	UseVDWSpheresSettings ()
	Set ivars to default van der Waals spheres settings. More...
void	UseLiquoriceStickSettings ()
	Set ivars to default liquorice stick settings. More...
void	UseFastSettings ()
	Set ivars to use fast settings that may be useful for rendering extremely large molecules where the overall shape is more important than the details of the atoms/bond. More...
void	SetInputData (vtkMolecule *in)
	Get/Set the input vtkMolecule. More...
vtkMolecule *	GetInput ()
	Get/Set the input vtkMolecule. More...
virtual bool	GetRenderAtoms ()
	Get/Set whether or not to render atoms. More...
virtual void	SetRenderAtoms (bool)
	Get/Set whether or not to render atoms. More...
virtual void	RenderAtomsOn ()
	Get/Set whether or not to render atoms. More...
virtual void	RenderAtomsOff ()
	Get/Set whether or not to render atoms. More...
virtual bool	GetRenderBonds ()
	Get/Set whether or not to render bonds. More...
virtual void	SetRenderBonds (bool)
	Get/Set whether or not to render bonds. More...
virtual void	RenderBondsOn ()
	Get/Set whether or not to render bonds. More...
virtual void	RenderBondsOff ()
	Get/Set whether or not to render bonds. More...
virtual bool	GetRenderLattice ()
	Get/Set whether or not to render the unit cell lattice, if present. More...
virtual void	SetRenderLattice (bool)
	Get/Set whether or not to render the unit cell lattice, if present. More...
virtual void	RenderLatticeOn ()
	Get/Set whether or not to render the unit cell lattice, if present. More...
virtual void	RenderLatticeOff ()
	Get/Set whether or not to render the unit cell lattice, if present. More...
virtual int	GetAtomicRadiusType ()
	Get/Set the type of radius used to generate the atoms. More...
virtual void	SetAtomicRadiusType (int)
	Get/Set the type of radius used to generate the atoms. More...
const char *	GetAtomicRadiusTypeAsString ()
	Get/Set the type of radius used to generate the atoms. More...
void	SetAtomicRadiusTypeToCovalentRadius ()
	Get/Set the type of radius used to generate the atoms. More...
void	SetAtomicRadiusTypeToVDWRadius ()
	Get/Set the type of radius used to generate the atoms. More...
void	SetAtomicRadiusTypeToUnitRadius ()
	Get/Set the type of radius used to generate the atoms. More...
void	SetAtomicRadiusTypeToCustomArrayRadius ()
	Get/Set the type of radius used to generate the atoms. More...
virtual float	GetAtomicRadiusScaleFactor ()
	Get/Set the uniform scaling factor applied to the atoms. More...
virtual void	SetAtomicRadiusScaleFactor (float)
	Get/Set the uniform scaling factor applied to the atoms. More...
virtual bool	GetUseMultiCylindersForBonds ()
	Get/Set whether multicylinders will be used to represent multiple bonds. More...
virtual void	SetUseMultiCylindersForBonds (bool)
	Get/Set whether multicylinders will be used to represent multiple bonds. More...
virtual void	UseMultiCylindersForBondsOn ()
	Get/Set whether multicylinders will be used to represent multiple bonds. More...
virtual void	UseMultiCylindersForBondsOff ()
	Get/Set whether multicylinders will be used to represent multiple bonds. More...
virtual int	GetBondColorMode ()
	Get/Set the method by which bonds are colored. More...
virtual void	SetBondColorMode (int)
	Get/Set the method by which bonds are colored. More...
const char *	GetBondColorModeAsString ()
	Get/Set the method by which bonds are colored. More...
void	SetBondColorModeToSingleColor ()
	Get/Set the method by which bonds are colored. More...
void	SetBondColorModeToDiscreteByAtom ()
	Get/Set the method by which bonds are colored. More...
virtual unsigned char *	GetBondColor ()
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	GetBondColor (unsigned char &, unsigned char &, unsigned char &)
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	GetBondColor (unsigned char[3])
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	SetBondColor (unsigned char, unsigned char, unsigned char)
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	SetBondColor (unsigned char[3])
	Get/Set the color of the bonds as an rgb tuple. More...
virtual float	GetBondRadius ()
	Get/Set the radius of the bond cylinders. More...
virtual void	SetBondRadius (float)
	Get/Set the radius of the bond cylinders. More...
virtual unsigned char *	GetLatticeColor ()
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	GetLatticeColor (unsigned char &, unsigned char &, unsigned char &)
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	GetLatticeColor (unsigned char[3])
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	SetLatticeColor (unsigned char, unsigned char, unsigned char)
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	SetLatticeColor (unsigned char[3])
	Get/Set the color of the bonds as an rgb tuple. More...
virtual void	GetSelectedAtomsAndBonds (vtkSelection *selection, vtkIdTypeArray *atomIds, vtkIdTypeArray *bondIds)
	Extract the ids atoms and/or bonds rendered by this molecule from a vtkSelection object. More...
virtual void	GetSelectedAtoms (vtkSelection *selection, vtkIdTypeArray *atomIds)
	Extract the ids atoms and/or bonds rendered by this molecule from a vtkSelection object. More...
virtual void	GetSelectedBonds (vtkSelection *selection, vtkIdTypeArray *bondIds)
	Extract the ids atoms and/or bonds rendered by this molecule from a vtkSelection object. More...
virtual void	Render (vtkRenderer *, vtkActor *)
	Reimplemented from base class. More...
virtual void	ReleaseGraphicsResources (vtkWindow *)
	Reimplemented from base class. More...
double *	GetBounds ()
	Reimplemented from base class. More...
void	GetBounds (double bounds[6])
	Reimplemented from base class. More...
virtual int	FillInputPortInformation (int port, vtkInformation *info)
	Reimplemented from base class. More...
virtual bool	GetSupportsSelection ()
	Reimplemented from base class. More...
Public Member Functions inherited from vtkMapper
vtkMapper *	NewInstance () const
void	PrintSelf (ostream &os, vtkIndent indent)
	Methods invoked by print to print information about the object including superclasses. More...
void	ShallowCopy (vtkAbstractMapper *m)
	Make a shallow copy of this mapper. More...
vtkMTimeType	GetMTime ()
	Overload standard modified time function. More...
virtual void	CreateDefaultLookupTable ()
	Create default lookup table. More...
const char *	GetColorModeAsString ()
	Return the method of coloring scalar data. More...
virtual void	SetScalarMode (int)
	Control how the filter works with scalar point data and cell attribute data. More...
virtual int	GetScalarMode ()
void	SetScalarModeToDefault ()
void	SetScalarModeToUsePointData ()
void	SetScalarModeToUseCellData ()
void	SetScalarModeToUsePointFieldData ()
void	SetScalarModeToUseCellFieldData ()
void	SetScalarModeToUseFieldData ()
virtual void	SetFieldDataTupleId (vtkIdType)
virtual vtkIdType	GetFieldDataTupleId ()
char *	GetArrayName ()
	Get the array name or number and component to color by. More...
int	GetArrayId ()
int	GetArrayAccessMode ()
int	GetArrayComponent ()
const char *	GetScalarModeAsString ()
	Return the method for obtaining scalar data. More...
void	SetRenderTime (double time)
	This instance variable is used by vtkLODActor to determine which mapper to use. More...
virtual double	GetRenderTime ()
vtkDataSet *	GetInput ()
	Get the input as a vtkDataSet. More...
vtkDataSet *	GetInputAsDataSet ()
	Get the input to this mapper as a vtkDataSet, instead of as a more specialized data type that the subclass may return from GetInput(). More...
const char *	GetScalarMaterialModeAsString ()
	Return the light-model color mode. More...
virtual bool	GetIsOpaque ()
	Returns if the mapper does not expect to have translucent geometry. More...
virtual int	CanUseTextureMapForColoring (vtkDataObject *input)
	Returns if we can use texture maps for scalar coloring. More...
void	ClearInvertibleColor ()
	Used internally by vtkValuePass. More...
void	ClearColorArrays ()
	Call to force a rebuild of color result arrays on next MapScalars. More...
vtkUnsignedCharArray *	GetColorMapColors ()
	Provide read access to the color array. More...
vtkFloatArray *	GetColorCoordinates ()
	Provide read access to the color texture coordinate array. More...
vtkImageData *	GetColorTextureMap ()
	Provide read access to the color texture array. More...
void	SetLookupTable (vtkScalarsToColors *lut)
	Specify a lookup table for the mapper to use. More...
vtkScalarsToColors *	GetLookupTable ()
	Specify a lookup table for the mapper to use. More...
virtual void	SetScalarVisibility (int)
	Turn on/off flag to control whether scalar data is used to color objects. More...
virtual int	GetScalarVisibility ()
	Turn on/off flag to control whether scalar data is used to color objects. More...
virtual void	ScalarVisibilityOn ()
	Turn on/off flag to control whether scalar data is used to color objects. More...
virtual void	ScalarVisibilityOff ()
	Turn on/off flag to control whether scalar data is used to color objects. More...
virtual void	SetStatic (int)
	Turn on/off flag to control whether the mapper's data is static. More...
virtual int	GetStatic ()
	Turn on/off flag to control whether the mapper's data is static. More...
virtual void	StaticOn ()
	Turn on/off flag to control whether the mapper's data is static. More...
virtual void	StaticOff ()
	Turn on/off flag to control whether the mapper's data is static. More...
virtual void	SetColorMode (int)
	default (ColorModeToDefault), unsigned char scalars are treated as colors, and NOT mapped through the lookup table, while everything else is. More...
virtual int	GetColorMode ()
	default (ColorModeToDefault), unsigned char scalars are treated as colors, and NOT mapped through the lookup table, while everything else is. More...
void	SetColorModeToDefault ()
	default (ColorModeToDefault), unsigned char scalars are treated as colors, and NOT mapped through the lookup table, while everything else is. More...
void	SetColorModeToMapScalars ()
	default (ColorModeToDefault), unsigned char scalars are treated as colors, and NOT mapped through the lookup table, while everything else is. More...
void	SetColorModeToDirectScalars ()
	default (ColorModeToDefault), unsigned char scalars are treated as colors, and NOT mapped through the lookup table, while everything else is. More...
virtual void	SetInterpolateScalarsBeforeMapping (int)
	By default, vertex color is used to map colors to a surface. More...
virtual int	GetInterpolateScalarsBeforeMapping ()
	By default, vertex color is used to map colors to a surface. More...
virtual void	InterpolateScalarsBeforeMappingOn ()
	By default, vertex color is used to map colors to a surface. More...
virtual void	InterpolateScalarsBeforeMappingOff ()
	By default, vertex color is used to map colors to a surface. More...
virtual void	SetUseLookupTableScalarRange (int)
	Control whether the mapper sets the lookuptable range based on its own ScalarRange, or whether it will use the LookupTable ScalarRange regardless of it's own setting. More...
virtual int	GetUseLookupTableScalarRange ()
	Control whether the mapper sets the lookuptable range based on its own ScalarRange, or whether it will use the LookupTable ScalarRange regardless of it's own setting. More...
virtual void	UseLookupTableScalarRangeOn ()
	Control whether the mapper sets the lookuptable range based on its own ScalarRange, or whether it will use the LookupTable ScalarRange regardless of it's own setting. More...
virtual void	UseLookupTableScalarRangeOff ()
	Control whether the mapper sets the lookuptable range based on its own ScalarRange, or whether it will use the LookupTable ScalarRange regardless of it's own setting. More...
virtual void	SetScalarRange (double, double)
	Specify range in terms of scalar minimum and maximum (smin,smax). More...
void	SetScalarRange (double[2])
	Specify range in terms of scalar minimum and maximum (smin,smax). More...
virtual double *	GetScalarRange ()
	Specify range in terms of scalar minimum and maximum (smin,smax). More...
virtual void	GetScalarRange (double data[2])
	Specify range in terms of scalar minimum and maximum (smin,smax). More...
virtual void	SetImmediateModeRendering (int)
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
virtual int	GetImmediateModeRendering ()
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
virtual void	ImmediateModeRenderingOn ()
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
virtual void	ImmediateModeRenderingOff ()
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
virtual int	GetForceCompileOnly ()
	Force compile only mode in case display lists are used (ImmediateModeRendering is false). More...
void	SetForceCompileOnly (int value)
	Force compile only mode in case display lists are used (ImmediateModeRendering is false). More...
void	SelectColorArray (int arrayNum)
	When ScalarMode is set to UsePointFieldData or UseCellFieldData, you can specify which array to use for coloring using these methods. More...
void	SelectColorArray (const char *arrayName)
	When ScalarMode is set to UsePointFieldData or UseCellFieldData, you can specify which array to use for coloring using these methods. More...
void	ColorByArrayComponent (int arrayNum, int component)
	Legacy: These methods used to be used to specify the array component. More...
void	ColorByArrayComponent (const char *arrayName, int component)
	Legacy: These methods used to be used to specify the array component. More...
void	SetRelativeCoincidentTopologyPolygonOffsetParameters (double factor, double units)
	Used to set the polygon offset values relative to the global Used when ResolveCoincidentTopology is set to PolygonOffset. More...
void	GetRelativeCoincidentTopologyPolygonOffsetParameters (double &factor, double &units)
	Used to set the polygon offset values relative to the global Used when ResolveCoincidentTopology is set to PolygonOffset. More...
void	SetRelativeCoincidentTopologyLineOffsetParameters (double factor, double units)
	Used to set the line offset values relative to the global Used when ResolveCoincidentTopology is set to PolygonOffset. More...
void	GetRelativeCoincidentTopologyLineOffsetParameters (double &factor, double &units)
	Used to set the line offset values relative to the global Used when ResolveCoincidentTopology is set to PolygonOffset. More...
void	SetRelativeCoincidentTopologyPointOffsetParameter (double units)
	Used to set the point offset value relative to the global Used when ResolveCoincidentTopology is set to PolygonOffset. More...
void	GetRelativeCoincidentTopologyPointOffsetParameter (double &units)
	Used to set the point offset value relative to the global Used when ResolveCoincidentTopology is set to PolygonOffset. More...
void	GetCoincidentTopologyPolygonOffsetParameters (double &factor, double &units)
	Get the net paramters for handlig coincident topology obtained by summing the global values with the relative values. More...
void	GetCoincidentTopologyLineOffsetParameters (double &factor, double &units)
	Get the net paramters for handlig coincident topology obtained by summing the global values with the relative values. More...
void	GetCoincidentTopologyPointOffsetParameter (double &units)
	Get the net paramters for handlig coincident topology obtained by summing the global values with the relative values. More...
virtual vtkUnsignedCharArray *	MapScalars (double alpha)
	Map the scalars (if there are any scalars and ScalarVisibility is on) through the lookup table, returning an unsigned char RGBA array. More...
virtual vtkUnsignedCharArray *	MapScalars (double alpha, int &cellFlag)
	Map the scalars (if there are any scalars and ScalarVisibility is on) through the lookup table, returning an unsigned char RGBA array. More...
virtual vtkUnsignedCharArray *	MapScalars (vtkDataSet *input, double alpha)
	Map the scalars (if there are any scalars and ScalarVisibility is on) through the lookup table, returning an unsigned char RGBA array. More...
virtual vtkUnsignedCharArray *	MapScalars (vtkDataSet *input, double alpha, int &cellFlag)
	Map the scalars (if there are any scalars and ScalarVisibility is on) through the lookup table, returning an unsigned char RGBA array. More...
virtual void	SetScalarMaterialMode (int)
	Set/Get the light-model color mode. More...
virtual int	GetScalarMaterialMode ()
	Set/Get the light-model color mode. More...
void	SetScalarMaterialModeToDefault ()
	Set/Get the light-model color mode. More...
void	SetScalarMaterialModeToAmbient ()
	Set/Get the light-model color mode. More...
void	SetScalarMaterialModeToDiffuse ()
	Set/Get the light-model color mode. More...
void	SetScalarMaterialModeToAmbientAndDiffuse ()
	Set/Get the light-model color mode. More...
void	UseInvertibleColorFor (vtkDataObject *input, int scalarMode, int arrayAccessMode, int arrayId, const char *arrayName, int arrayComponent, double *scalarRange)
	Used internally by vtkValuePass. More...
void	UseInvertibleColorFor (int scalarMode, int arrayAccessMode, int arrayId, const char *arrayName, int arrayComponent, double *scalarRange)
	Used internally by vtkValuePass. More...
Public Member Functions inherited from vtkAbstractMapper3D
vtkAbstractMapper3D *	NewInstance () const
double	GetLength ()
	Return the diagonal length of this mappers bounding box. More...
virtual int	IsARayCastMapper ()
	Is this a ray cast mapper? A subclass would return 1 if the ray caster is needed to generate an image from this mapper. More...
virtual int	IsARenderIntoImageMapper ()
	Is this a "render into image" mapper? A subclass would return 1 if the mapper produces an image by rendering into a software image buffer. More...
void	GetClippingPlaneInDataCoords (vtkMatrix4x4 *propMatrix, int i, double planeEquation[4])
	Get the ith clipping plane as a homogeneous plane equation. More...
int	GetNumberOfClippingPlanes ()
	Get the number of clipping planes. More...
double *	GetCenter ()
	Return the Center of this mapper's data. More...
void	GetCenter (double center[3])
	Return the Center of this mapper's data. More...
Public Member Functions inherited from vtkAbstractMapper
vtkAbstractMapper *	NewInstance () const
void	SetClippingPlanes (vtkPlanes *planes)
	An alternative way to set clipping planes: use up to six planes found in the supplied instance of the implicit function vtkPlanes. More...
void	ShallowCopy (vtkAbstractMapper *m)
	Make a shallow copy of this mapper. More...
virtual double	GetTimeToDraw ()
	Get the time required to draw the geometry last time it was rendered. More...
void	AddClippingPlane (vtkPlane *plane)
	Specify clipping planes to be applied when the data is mapped (at most 6 clipping planes can be specified). More...
void	RemoveClippingPlane (vtkPlane *plane)
	Specify clipping planes to be applied when the data is mapped (at most 6 clipping planes can be specified). More...
void	RemoveAllClippingPlanes ()
	Specify clipping planes to be applied when the data is mapped (at most 6 clipping planes can be specified). More...
virtual void	SetClippingPlanes (vtkPlaneCollection *)
	Get/Set the vtkPlaneCollection which specifies the clipping planes. More...
virtual vtkPlaneCollection *	GetClippingPlanes ()
	Get/Set the vtkPlaneCollection which specifies the clipping planes. More...
Public Member Functions inherited from vtkAlgorithm
vtkAlgorithm *	NewInstance () const
int	HasExecutive ()
	Check whether this algorithm has an assigned executive. More...
vtkExecutive *	GetExecutive ()
	Get this algorithm's executive. More...
virtual void	SetExecutive (vtkExecutive *executive)
	Set this algorithm's executive. More...
virtual int	ProcessRequest (vtkInformation *request, vtkInformationVector **inInfo, vtkInformationVector *outInfo)
	Upstream/Downstream requests form the generalized interface through which executives invoke a algorithm's functionality. More...
int	ProcessRequest (vtkInformation *request, vtkCollection *inInfo, vtkInformationVector *outInfo)
	Version of ProcessRequest() that is wrapped. More...
virtual int	ComputePipelineMTime (vtkInformation *request, vtkInformationVector **inInfoVec, vtkInformationVector *outInfoVec, int requestFromOutputPort, vtkMTimeType *mtime)
	A special version of ProcessRequest meant specifically for the pipeline modified time request. More...
virtual int	ModifyRequest (vtkInformation *request, int when)
	This method gives the algorithm a chance to modify the contents of a request before or after (specified in the when argument) it is forwarded. More...
vtkInformation *	GetInputPortInformation (int port)
	Get the information object associated with an input port. More...
vtkInformation *	GetOutputPortInformation (int port)
	Get the information object associated with an output port. More...
int	GetNumberOfInputPorts ()
	Get the number of input ports used by the algorithm. More...
int	GetNumberOfOutputPorts ()
	Get the number of output ports provided by the algorithm. More...
void	UpdateProgress (double amount)
	Update the progress of the process object. More...
virtual void	SetInputArrayToProcess (int idx, int port, int connection, const char *fieldAssociation, const char *attributeTypeorName)
	String based versions of SetInputArrayToProcess(). More...
vtkInformation *	GetInputArrayInformation (int idx)
	Get the info object for the specified input array to this algorithm. More...
void	RemoveAllInputs ()
	Remove all the input data. More...
vtkDataObject *	GetOutputDataObject (int port)
	Get the data object that will contain the algorithm output for the given port. More...
vtkDataObject *	GetInputDataObject (int port, int connection)
	Get the data object that will contain the algorithm input for the given port and given connection. More...
virtual void	RemoveInputConnection (int port, vtkAlgorithmOutput *input)
	Remove a connection from the given input port index. More...
virtual void	RemoveInputConnection (int port, int idx)
	Remove a connection given by index idx. More...
virtual void	RemoveAllInputConnections (int port)
	Removes all input connections. More...
virtual void	SetInputDataObject (int port, vtkDataObject *data)
	Sets the data-object as an input on the given port index. More...
virtual void	SetInputDataObject (vtkDataObject *data)
virtual void	AddInputDataObject (int port, vtkDataObject *data)
	Add the data-object as an input to this given port. More...
virtual void	AddInputDataObject (vtkDataObject *data)
vtkAlgorithmOutput *	GetOutputPort (int index)
	Get a proxy object corresponding to the given output port of this algorithm. More...
vtkAlgorithmOutput *	GetOutputPort ()
int	GetNumberOfInputConnections (int port)
	Get the number of inputs currently connected to a port. More...
int	GetTotalNumberOfInputConnections ()
	Get the total number of inputs for this algorithm. More...
vtkAlgorithmOutput *	GetInputConnection (int port, int index)
	Get the algorithm output port connected to an input port. More...
vtkAlgorithm *	GetInputAlgorithm (int port, int index, int &algPort)
	Returns the algorithm and the output port index of that algorithm connected to a port-index pair. More...
vtkAlgorithm *	GetInputAlgorithm (int port, int index)
	Returns the algorithm connected to a port-index pair. More...
vtkAlgorithm *	GetInputAlgorithm ()
	Equivalent to GetInputAlgorithm(0, 0). More...
vtkExecutive *	GetInputExecutive (int port, int index)
	Returns the executive associated with a particular input connection. More...
vtkExecutive *	GetInputExecutive ()
	Equivalent to GetInputExecutive(0, 0) More...
vtkInformation *	GetInputInformation (int port, int index)
	Return the information object that is associated with a particular input connection. More...
vtkInformation *	GetInputInformation ()
	Equivalent to GetInputInformation(0, 0) More...
vtkInformation *	GetOutputInformation (int port)
	Return the information object that is associated with a particular output port. More...
virtual int	Update (int port, vtkInformationVector *requests)
	This method enables the passing of data requests to the algorithm to be used during execution (in addition to bringing a particular port up-to-date). More...
virtual int	Update (vtkInformation *requests)
	Convenience method to update an algorithm after passing requests to its first output port. More...
virtual int	UpdatePiece (int piece, int numPieces, int ghostLevels, const int extents[6]=0)
	Convenience method to update an algorithm after passing requests to its first output port. More...
virtual int	UpdateExtent (const int extents[6])
	Convenience method to update an algorithm after passing requests to its first output port. More...
virtual int	UpdateTimeStep (double time, int piece=-1, int numPieces=1, int ghostLevels=0, const int extents[6]=0)
	Convenience method to update an algorithm after passing requests to its first output port. More...
virtual void	UpdateInformation ()
	Bring the algorithm's information up-to-date. More...
virtual void	UpdateDataObject ()
	Create output object(s). More...
virtual void	PropagateUpdateExtent ()
	Propagate meta-data upstream. More...
virtual void	UpdateWholeExtent ()
	Bring this algorithm's outputs up-to-date. More...
void	ConvertTotalInputToPortConnection (int ind, int &port, int &conn)
	Convenience routine to convert from a linear ordering of input connections to a port/connection pair. More...
int	SetUpdateExtentToWholeExtent (int port)
	If the whole output extent is required, this method can be called to set the output update extent to the whole extent. More...
int	SetUpdateExtentToWholeExtent ()
	Convenience function equivalent to SetUpdateExtentToWholeExtent(0) This method assumes that the whole extent is known (that UpdateInformation has been called). More...
void	SetUpdateExtent (int port, int piece, int numPieces, int ghostLevel)
	Set the output update extent in terms of piece and ghost levels. More...
void	SetUpdateExtent (int piece, int numPieces, int ghostLevel)
	Convenience function equivalent to SetUpdateExtent(0, piece, numPieces, ghostLevel) More...
void	SetUpdateExtent (int port, int extent[6])
	Set the output update extent for data objects that use 3D extents. More...
void	SetUpdateExtent (int extent[6])
	Convenience function equivalent to SetUpdateExtent(0, extent) More...
virtual vtkInformation *	GetInformation ()
	Set/Get the information object associated with this algorithm. More...
virtual void	SetInformation (vtkInformation *)
	Set/Get the information object associated with this algorithm. More...
void	Register (vtkObjectBase *o) override
	Participate in garbage collection. More...
void	UnRegister (vtkObjectBase *o) override
	Participate in garbage collection. More...
virtual void	SetAbortExecute (int)
	Set/Get the AbortExecute flag for the process object. More...
virtual int	GetAbortExecute ()
	Set/Get the AbortExecute flag for the process object. More...
virtual void	AbortExecuteOn ()
	Set/Get the AbortExecute flag for the process object. More...
virtual void	AbortExecuteOff ()
	Set/Get the AbortExecute flag for the process object. More...
virtual void	SetProgress (double)
	Set/Get the execution progress of a process object. More...
virtual double	GetProgress ()
	Set/Get the execution progress of a process object. More...
void	SetProgressText (const char *ptext)
	Set the current text message associated with the progress state. More...
virtual char *	GetProgressText ()
	Set the current text message associated with the progress state. More...
virtual unsigned long	GetErrorCode ()
	The error code contains a possible error that occurred while reading or writing the file. More...
virtual void	SetInputArrayToProcess (int idx, int port, int connection, int fieldAssociation, const char *name)
	Set the input data arrays that this algorithm will process. More...
virtual void	SetInputArrayToProcess (int idx, int port, int connection, int fieldAssociation, int fieldAttributeType)
	Set the input data arrays that this algorithm will process. More...
virtual void	SetInputArrayToProcess (int idx, vtkInformation *info)
	Set the input data arrays that this algorithm will process. More...
virtual void	SetInputConnection (int port, vtkAlgorithmOutput *input)
	Set the connection for the given input port index. More...
virtual void	SetInputConnection (vtkAlgorithmOutput *input)
	Set the connection for the given input port index. More...
virtual void	AddInputConnection (int port, vtkAlgorithmOutput *input)
	Add a connection to the given input port index. More...
virtual void	AddInputConnection (vtkAlgorithmOutput *input)
	Add a connection to the given input port index. More...
virtual void	Update (int port)
	Bring this algorithm's outputs up-to-date. More...
virtual void	Update ()
	Bring this algorithm's outputs up-to-date. More...
virtual void	SetReleaseDataFlag (int)
	Turn release data flag on or off for all output ports. More...
virtual int	GetReleaseDataFlag ()
	Turn release data flag on or off for all output ports. More...
void	ReleaseDataFlagOn ()
	Turn release data flag on or off for all output ports. More...
void	ReleaseDataFlagOff ()
	Turn release data flag on or off for all output ports. More...
int	UpdateExtentIsEmpty (vtkInformation *pinfo, vtkDataObject *output)
	This detects when the UpdateExtent will generate no data This condition is satisfied when the UpdateExtent has zero volume (0,-1,...) or the UpdateNumberOfPieces is 0. More...
int	UpdateExtentIsEmpty (vtkInformation *pinfo, int extentType)
	This detects when the UpdateExtent will generate no data This condition is satisfied when the UpdateExtent has zero volume (0,-1,...) or the UpdateNumberOfPieces is 0. More...
int *	GetUpdateExtent ()
	These functions return the update extent for output ports that use 3D extents. More...
int *	GetUpdateExtent (int port)
	These functions return the update extent for output ports that use 3D extents. More...
void	GetUpdateExtent (int &x0, int &x1, int &y0, int &y1, int &z0, int &z1)
	These functions return the update extent for output ports that use 3D extents. More...
void	GetUpdateExtent (int port, int &x0, int &x1, int &y0, int &y1, int &z0, int &z1)
	These functions return the update extent for output ports that use 3D extents. More...
void	GetUpdateExtent (int extent[6])
	These functions return the update extent for output ports that use 3D extents. More...
void	GetUpdateExtent (int port, int extent[6])
	These functions return the update extent for output ports that use 3D extents. More...
int	GetUpdatePiece ()
	These functions return the update extent for output ports that use piece extents. More...
int	GetUpdatePiece (int port)
	These functions return the update extent for output ports that use piece extents. More...
int	GetUpdateNumberOfPieces ()
	These functions return the update extent for output ports that use piece extents. More...
int	GetUpdateNumberOfPieces (int port)
	These functions return the update extent for output ports that use piece extents. More...
int	GetUpdateGhostLevel ()
	These functions return the update extent for output ports that use piece extents. More...
int	GetUpdateGhostLevel (int port)
	These functions return the update extent for output ports that use piece extents. More...
void	SetProgressObserver (vtkProgressObserver *)
	If an ProgressObserver is set, the algorithm will report progress through it rather than directly. More...
virtual vtkProgressObserver *	GetProgressObserver ()
	If an ProgressObserver is set, the algorithm will report progress through it rather than directly. More...
Public Member Functions inherited from vtkObject
	vtkBaseTypeMacro (vtkObject, vtkObjectBase)
virtual void	DebugOn ()
	Turn debugging output on. More...
virtual void	DebugOff ()
	Turn debugging output off. More...
bool	GetDebug ()
	Get the value of the debug flag. More...
void	SetDebug (bool debugFlag)
	Set the value of the debug flag. More...
virtual void	Modified ()
	Update the modification time for this object. More...
void	RemoveObserver (unsigned long tag)
void	RemoveObservers (unsigned long event)
void	RemoveObservers (const char *event)
void	RemoveAllObservers ()
int	HasObserver (unsigned long event)
int	HasObserver (const char *event)
int	InvokeEvent (unsigned long event)
int	InvokeEvent (const char *event)
unsigned long	AddObserver (unsigned long event, vtkCommand *, float priority=0.0f)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
unsigned long	AddObserver (const char *event, vtkCommand *, float priority=0.0f)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
vtkCommand *	GetCommand (unsigned long tag)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
void	RemoveObserver (vtkCommand *)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
void	RemoveObservers (unsigned long event, vtkCommand *)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
void	RemoveObservers (const char *event, vtkCommand *)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
int	HasObserver (unsigned long event, vtkCommand *)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
int	HasObserver (const char *event, vtkCommand *)
	Allow people to add/remove/invoke observers (callbacks) to any VTK object. More...
template<class U , class T >
unsigned long	AddObserver (unsigned long event, U observer, void(T::*callback)(), float priority=0.0f)
	Overloads to AddObserver that allow developers to add class member functions as callbacks for events. More...
template<class U , class T >
unsigned long	AddObserver (unsigned long event, U observer, void(T::*callback)(vtkObject *, unsigned long, void *), float priority=0.0f)
	Overloads to AddObserver that allow developers to add class member functions as callbacks for events. More...
template<class U , class T >
unsigned long	AddObserver (unsigned long event, U observer, bool(T::*callback)(vtkObject *, unsigned long, void *), float priority=0.0f)
	Allow user to set the AbortFlagOn() with the return value of the callback method. More...
int	InvokeEvent (unsigned long event, void *callData)
	This method invokes an event and return whether the event was aborted or not. More...
int	InvokeEvent (const char *event, void *callData)
	This method invokes an event and return whether the event was aborted or not. More...
Public Member Functions inherited from vtkObjectBase
const char *	GetClassName () const
	Return the class name as a string. More...
virtual void	Delete ()
	Delete a VTK object. More...
virtual void	FastDelete ()
	Delete a reference to this object. More...
void	InitializeObjectBase ()
void	Print (ostream &os)
	Print an object to an ostream. More...
int	GetReferenceCount ()
	Return the current reference count of this object. More...
void	SetReferenceCount (int)
	Sets the reference count. More...
void	PrintRevisions (ostream &)
	Legacy. More...
virtual void	PrintHeader (ostream &os, vtkIndent indent)
	Methods invoked by print to print information about the object including superclasses. More...
virtual void	PrintTrailer (ostream &os, vtkIndent indent)
	Methods invoked by print to print information about the object including superclasses. More...

Static Public Member Functions
static vtkMoleculeMapper *	New ()
static int	IsTypeOf (const char *type)
static vtkMoleculeMapper *	SafeDownCast (vtkObjectBase *o)
Static Public Member Functions inherited from vtkMapper
static int	IsTypeOf (const char *type)
static vtkMapper *	SafeDownCast (vtkObjectBase *o)
static void	ValueToColor (double value, double min, double scale, unsigned char *color)
	Convert a floating point value to an RGB triplet. More...
static void	ColorToValue (unsigned char *color, double min, double scale, double &value)
	Convert an RGB triplet to a floating point value. More...
static void	SetGlobalImmediateModeRendering (int val)
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
static void	GlobalImmediateModeRenderingOn ()
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
static void	GlobalImmediateModeRenderingOff ()
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
static int	GetGlobalImmediateModeRendering ()
	Turn on/off flag to control whether data is rendered using immediate mode or note. More...
static void	SetResolveCoincidentTopology (int val)
	Set/Get a global flag that controls whether coincident topology (e.g., a line on top of a polygon) is shifted to avoid z-buffer resolution (and hence rendering problems). More...
static int	GetResolveCoincidentTopology ()
	Set/Get a global flag that controls whether coincident topology (e.g., a line on top of a polygon) is shifted to avoid z-buffer resolution (and hence rendering problems). More...
static void	SetResolveCoincidentTopologyToDefault ()
	Set/Get a global flag that controls whether coincident topology (e.g., a line on top of a polygon) is shifted to avoid z-buffer resolution (and hence rendering problems). More...
static void	SetResolveCoincidentTopologyToOff ()
	Set/Get a global flag that controls whether coincident topology (e.g., a line on top of a polygon) is shifted to avoid z-buffer resolution (and hence rendering problems). More...
static void	SetResolveCoincidentTopologyToPolygonOffset ()
	Set/Get a global flag that controls whether coincident topology (e.g., a line on top of a polygon) is shifted to avoid z-buffer resolution (and hence rendering problems). More...
static void	SetResolveCoincidentTopologyToShiftZBuffer ()
	Set/Get a global flag that controls whether coincident topology (e.g., a line on top of a polygon) is shifted to avoid z-buffer resolution (and hence rendering problems). More...
static void	SetResolveCoincidentTopologyPolygonOffsetParameters (double factor, double units)
	Used to set the polygon offset scale factor and units. More...
static void	GetResolveCoincidentTopologyPolygonOffsetParameters (double &factor, double &units)
	Used to set the polygon offset scale factor and units. More...
static void	SetResolveCoincidentTopologyLineOffsetParameters (double factor, double units)
	Used to set the line offset scale factor and units. More...
static void	GetResolveCoincidentTopologyLineOffsetParameters (double &factor, double &units)
	Used to set the line offset scale factor and units. More...
static void	SetResolveCoincidentTopologyPointOffsetParameter (double units)
	Used to set the point offset value Used when ResolveCoincidentTopology is set to PolygonOffset. More...
static void	GetResolveCoincidentTopologyPointOffsetParameter (double &units)
	Used to set the point offset value Used when ResolveCoincidentTopology is set to PolygonOffset. More...
static void	SetResolveCoincidentTopologyPolygonOffsetFaces (int faces)
	Used when ResolveCoincidentTopology is set to PolygonOffset. More...
static int	GetResolveCoincidentTopologyPolygonOffsetFaces ()
	Used when ResolveCoincidentTopology is set to PolygonOffset. More...
static void	SetResolveCoincidentTopologyZShift (double val)
	Used to set the z-shift if ResolveCoincidentTopology is set to ShiftZBuffer. More...
static double	GetResolveCoincidentTopologyZShift ()
	Used to set the z-shift if ResolveCoincidentTopology is set to ShiftZBuffer. More...
Static Public Member Functions inherited from vtkAbstractMapper3D
static int	IsTypeOf (const char *type)
static vtkAbstractMapper3D *	SafeDownCast (vtkObjectBase *o)
Static Public Member Functions inherited from vtkAbstractMapper
static int	IsTypeOf (const char *type)
static vtkAbstractMapper *	SafeDownCast (vtkObjectBase *o)
static vtkDataArray *	GetScalars (vtkDataSet *input, int scalarMode, int arrayAccessMode, int arrayId, const char *arrayName, int &cellFlag)
	Internal helper function for getting the active scalars. More...
static vtkAbstractArray *	GetAbstractScalars (vtkDataSet *input, int scalarMode, int arrayAccessMode, int arrayId, const char *arrayName, int &cellFlag)
	Internal helper function for getting the active scalars as an abstract array. More...
Static Public Member Functions inherited from vtkAlgorithm
static vtkAlgorithm *	New ()
static int	IsTypeOf (const char *type)
static vtkAlgorithm *	SafeDownCast (vtkObjectBase *o)
static vtkInformationIntegerKey *	INPUT_IS_OPTIONAL ()
	Keys used to specify input port requirements. More...
static vtkInformationIntegerKey *	INPUT_IS_REPEATABLE ()
static vtkInformationInformationVectorKey *	INPUT_REQUIRED_FIELDS ()
static vtkInformationStringVectorKey *	INPUT_REQUIRED_DATA_TYPE ()
static vtkInformationInformationVectorKey *	INPUT_ARRAYS_TO_PROCESS ()
static vtkInformationIntegerKey *	INPUT_PORT ()
static vtkInformationIntegerKey *	INPUT_CONNECTION ()
static vtkInformationIntegerKey *	CAN_PRODUCE_SUB_EXTENT ()
	This key tells the executive that a particular output port is capable of producing an arbitrary subextent of the whole extent. More...
static vtkInformationIntegerKey *	CAN_HANDLE_PIECE_REQUEST ()
	Key that tells the pipeline that a particular algorithm can or cannot handle piece request. More...
static void	SetDefaultExecutivePrototype (vtkExecutive *proto)
	If the DefaultExecutivePrototype is set, a copy of it is created in CreateDefaultExecutive() using NewInstance(). More...
Static Public Member Functions inherited from vtkObject
static vtkObject *	New ()
	Create an object with Debug turned off, modified time initialized to zero, and reference counting on. More...
static void	BreakOnError ()
	This method is called when vtkErrorMacro executes. More...
static void	SetGlobalWarningDisplay (int val)
	This is a global flag that controls whether any debug, warning or error messages are displayed. More...
static void	GlobalWarningDisplayOn ()
	This is a global flag that controls whether any debug, warning or error messages are displayed. More...
static void	GlobalWarningDisplayOff ()
	This is a global flag that controls whether any debug, warning or error messages are displayed. More...
static int	GetGlobalWarningDisplay ()
	This is a global flag that controls whether any debug, warning or error messages are displayed. More...
Static Public Member Functions inherited from vtkObjectBase
static vtkTypeBool	IsTypeOf (const char *name)
	Return 1 if this class type is the same type of (or a subclass of) the named class. More...
static vtkObjectBase *	New ()
	Create an object with Debug turned off, modified time initialized to zero, and reference counting on. More...

Protected Member Functions
virtual vtkObjectBase *	NewInstanceInternal () const
	vtkMoleculeMapper ()
	~vtkMoleculeMapper ()
void	GlyphRender (vtkRenderer *ren, vtkActor *act)
	Internal render methods. More...
virtual void	UpdateLatticePolyData ()
Protected Member Functions inherited from vtkMapper
	vtkMapper ()
	~vtkMapper ()
void	MapScalarsToTexture (vtkAbstractArray *scalars, double alpha)
void	AcquireInvertibleLookupTable ()
Protected Member Functions inherited from vtkAbstractMapper3D
	vtkAbstractMapper3D ()
	~vtkAbstractMapper3D ()
Protected Member Functions inherited from vtkAbstractMapper
	vtkAbstractMapper ()
	~vtkAbstractMapper ()
Protected Member Functions inherited from vtkAlgorithm
	vtkAlgorithm ()
	~vtkAlgorithm () override
virtual int	FillOutputPortInformation (int port, vtkInformation *info)
	Fill the output port information objects for this algorithm. More...
virtual void	SetNumberOfInputPorts (int n)
	Set the number of input ports used by the algorithm. More...
virtual void	SetNumberOfOutputPorts (int n)
	Set the number of output ports provided by the algorithm. More...
int	InputPortIndexInRange (int index, const char *action)
int	OutputPortIndexInRange (int index, const char *action)
int	GetInputArrayAssociation (int idx, vtkInformationVector **inputVector)
	Get the assocition of the actual data array for the input array specified by idx, this is only reasonable during the REQUEST_DATA pass. More...
vtkInformation *	GetInputArrayFieldInformation (int idx, vtkInformationVector **inputVector)
	This method takes in an index (as specified in SetInputArrayToProcess) and a pipeline information vector. More...
virtual vtkExecutive *	CreateDefaultExecutive ()
	Create a default executive. More...
void	ReportReferences (vtkGarbageCollector *) override
virtual void	SetNthInputConnection (int port, int index, vtkAlgorithmOutput *input)
	Replace the Nth connection on the given input port. More...
virtual void	SetNumberOfInputConnections (int port, int n)
	Set the number of input connections on the given input port. More...
void	SetInputDataInternal (int port, vtkDataObject *input)
	These methods are used by subclasses to implement methods to set data objects directly as input. More...
void	AddInputDataInternal (int port, vtkDataObject *input)
int	GetInputArrayAssociation (int idx, int connection, vtkInformationVector **inputVector)
	Filters that have multiple connections on one port can use this signature. More...
int	GetInputArrayAssociation (int idx, vtkDataObject *input)
	Filters that have multiple connections on one port can use this signature. More...
vtkDataArray *	GetInputArrayToProcess (int idx, vtkInformationVector **inputVector)
	Get the actual data array for the input array specified by idx, this is only reasonable during the REQUEST_DATA pass. More...
vtkDataArray *	GetInputArrayToProcess (int idx, vtkInformationVector **inputVector, int &association)
	Get the actual data array for the input array specified by idx, this is only reasonable during the REQUEST_DATA pass. More...
vtkDataArray *	GetInputArrayToProcess (int idx, int connection, vtkInformationVector **inputVector)
	Filters that have multiple connections on one port can use this signature. More...
vtkDataArray *	GetInputArrayToProcess (int idx, int connection, vtkInformationVector **inputVector, int &association)
	Filters that have multiple connections on one port can use this signature. More...
vtkDataArray *	GetInputArrayToProcess (int idx, vtkDataObject *input)
	Filters that have multiple connections on one port can use this signature. More...
vtkDataArray *	GetInputArrayToProcess (int idx, vtkDataObject *input, int &association)
	Filters that have multiple connections on one port can use this signature. More...
vtkAbstractArray *	GetInputAbstractArrayToProcess (int idx, vtkInformationVector **inputVector)
	Get the actual data array for the input array specified by idx, this is only reasonable during the REQUEST_DATA pass. More...
vtkAbstractArray *	GetInputAbstractArrayToProcess (int idx, vtkInformationVector **inputVector, int &association)
	Get the actual data array for the input array specified by idx, this is only reasonable during the REQUEST_DATA pass. More...
vtkAbstractArray *	GetInputAbstractArrayToProcess (int idx, int connection, vtkInformationVector **inputVector)
	Filters that have multiple connections on one port can use this signature. More...
vtkAbstractArray *	GetInputAbstractArrayToProcess (int idx, int connection, vtkInformationVector **inputVector, int &association)
	Filters that have multiple connections on one port can use this signature. More...
vtkAbstractArray *	GetInputAbstractArrayToProcess (int idx, vtkDataObject *input)
	Filters that have multiple connections on one port can use this signature. More...
vtkAbstractArray *	GetInputAbstractArrayToProcess (int idx, vtkDataObject *input, int &association)
	Filters that have multiple connections on one port can use this signature. More...
virtual void	SetErrorCode (unsigned long)
	The error code contains a possible error that occurred while reading or writing the file. More...
Protected Member Functions inherited from vtkObject
	vtkObject ()
	~vtkObject () override
void	RegisterInternal (vtkObjectBase *, vtkTypeBool check) override
void	UnRegisterInternal (vtkObjectBase *, vtkTypeBool check) override
void	InternalGrabFocus (vtkCommand *mouseEvents, vtkCommand *keypressEvents=NULL)
	These methods allow a command to exclusively grab all events. More...
void	InternalReleaseFocus ()
	These methods allow a command to exclusively grab all events. More...
Protected Member Functions inherited from vtkObjectBase
	vtkObjectBase ()
virtual	~vtkObjectBase ()
virtual void	CollectRevisions (ostream &)
	vtkObjectBase (const vtkObjectBase &)
void	operator= (const vtkObjectBase &)

Protected Attributes
bool	RenderLattice
unsigned char	LatticeColor [3]
vtkNew< vtkPolyData >	LatticePolyData
vtkNew< vtkPolyDataMapper >	LatticeMapper
vtkNew< vtkPeriodicTable >	PeriodicTable
	Periodic table for lookups. More...
bool	RenderAtoms
	Customize atom rendering. More...
int	AtomicRadiusType
	Customize atom rendering. More...
float	AtomicRadiusScaleFactor
	Customize atom rendering. More...
bool	RenderBonds
	Customize bond rendering. More...
int	BondColorMode
	Customize bond rendering. More...
bool	UseMultiCylindersForBonds
	Customize bond rendering. More...
float	BondRadius
	Customize bond rendering. More...
unsigned char	BondColor [3]
	Customize bond rendering. More...
vtkNew< vtkGlyph3DMapper >	AtomGlyphMapper
	Internal mappers. More...
vtkNew< vtkGlyph3DMapper >	BondGlyphMapper
	Internal mappers. More...
Protected Attributes inherited from vtkMapper
vtkUnsignedCharArray *	Colors
int	InterpolateScalarsBeforeMapping
vtkFloatArray *	ColorCoordinates
vtkImageData *	ColorTextureMap
bool	UseInvertibleColors
vtkScalarsToColors *	LookupTable
int	ScalarVisibility
vtkTimeStamp	BuildTime
double	ScalarRange [2]
int	UseLookupTableScalarRange
int	ImmediateModeRendering
int	ColorMode
int	ScalarMode
int	ScalarMaterialMode
double	RenderTime
int	ArrayId
char	ArrayName [256]
int	ArrayComponent
int	ArrayAccessMode
vtkIdType	FieldDataTupleId
int	Static
int	ForceCompileOnly
vtkAbstractArray *	InvertibleScalars
double	CoincidentPolygonFactor
double	CoincidentPolygonOffset
double	CoincidentLineFactor
double	CoincidentLineOffset
double	CoincidentPointOffset
Protected Attributes inherited from vtkAbstractMapper3D
double	Bounds [6]
double	Center [3]
Protected Attributes inherited from vtkAbstractMapper
vtkTimerLog *	Timer
double	TimeToDraw
vtkWindow *	LastWindow
vtkPlaneCollection *	ClippingPlanes
Protected Attributes inherited from vtkAlgorithm
vtkInformation *	Information
double	Progress
char *	ProgressText
vtkProgressObserver *	ProgressObserver
unsigned long	ErrorCode
	The error code contains a possible error that occurred while reading or writing the file. More...
Protected Attributes inherited from vtkObject
bool	Debug
vtkTimeStamp	MTime
vtkSubjectHelper *	SubjectHelper
Protected Attributes inherited from vtkObjectBase
vtkAtomicInt32	ReferenceCount
vtkWeakPointerBase **	WeakPointers
vtkNew< vtkPolyData >	AtomGlyphPolyData
	Cached variables and update methods. More...
vtkNew< vtkTrivialProducer >	AtomGlyphPointOutput
	Cached variables and update methods. More...
vtkNew< vtkPolyData >	BondGlyphPolyData
	Cached variables and update methods. More...
vtkNew< vtkTrivialProducer >	BondGlyphPointOutput
	Cached variables and update methods. More...
bool	GlyphDataInitialized
	Cached variables and update methods. More...
virtual void	UpdateGlyphPolyData ()
	Cached variables and update methods. More...
virtual void	UpdateAtomGlyphPolyData ()
	Cached variables and update methods. More...
virtual void	UpdateBondGlyphPolyData ()
	Cached variables and update methods. More...

Additional Inherited Members
Public Attributes inherited from vtkAlgorithm
int	AbortExecute
Static Protected Member Functions inherited from vtkAlgorithm
static vtkInformationIntegerKey *	PORT_REQUIREMENTS_FILLED ()
Static Protected Attributes inherited from vtkMapper
static vtkScalarsToColors *	InvertibleLookupTable
Static Protected Attributes inherited from vtkAlgorithm
static vtkExecutive *	DefaultExecutivePrototype

Detailed Description

Mapper that draws vtkMolecule objects.

vtkMoleculeMapper uses glyphs (display lists) to quickly render a molecule.

Tests:

vtkMoleculeMapper (Tests)

Definition at line 46 of file vtkMoleculeMapper.h.

Member Typedef Documentation

typedef vtkMapper vtkMoleculeMapper::Superclass

Definition at line 50 of file vtkMoleculeMapper.h.

Member Enumeration Documentation

anonymous enum

Enumerator
CovalentRadius
VDWRadius
UnitRadius
CustomArrayRadius

Definition at line 144 of file vtkMoleculeMapper.h.

anonymous enum

Enumerator
SingleColor
DiscreteByAtom

Definition at line 198 of file vtkMoleculeMapper.h.

Constructor & Destructor Documentation

vtkMoleculeMapper::vtkMoleculeMapper ( )

protected

vtkMoleculeMapper::~vtkMoleculeMapper ( )

protected

Member Function Documentation

static vtkMoleculeMapper* vtkMoleculeMapper::New ( )

static

static int vtkMoleculeMapper::IsTypeOf ( const char *  type )

static

virtual int vtkMoleculeMapper::IsA ( const char *  name )

virtual

Return 1 if this class is the same type of (or a subclass of) the named class.

Returns 0 otherwise. This method works in combination with vtkTypeMacro found in vtkSetGet.h.

Reimplemented from vtkMapper.

Reimplemented in vtkOpenGLMoleculeMapper.

static vtkMoleculeMapper* vtkMoleculeMapper::SafeDownCast ( vtkObjectBase *  o )

static

virtual vtkObjectBase* vtkMoleculeMapper::NewInstanceInternal ( ) const

protectedvirtual

Reimplemented from vtkMapper.

Reimplemented in vtkOpenGLMoleculeMapper.

vtkMoleculeMapper* vtkMoleculeMapper::NewInstance

(

)

const

void vtkMoleculeMapper::PrintSelf ( ostream &  os, vtkIndent  indent  )

virtual

Methods invoked by print to print information about the object including superclasses.

Typically not called by the user (use Print() instead) but used in the hierarchical print process to combine the output of several classes.

Reimplemented from vtkAlgorithm.

void vtkMoleculeMapper::SetInputData

(

vtkMolecule *

in

)

Get/Set the input vtkMolecule.

vtkMolecule* vtkMoleculeMapper::GetInput

(

)

Get/Set the input vtkMolecule.

void vtkMoleculeMapper::UseBallAndStickSettings

(

)

Set ivars to default ball-and-stick settings.

This is equivalent to the following:

• SetRenderAtoms( true )
• SetRenderBonds( true )
• SetAtomicRadiusType( VDWRadius )
• SetAtomicRadiusScaleFactor( 0.3 )
• SetBondColorMode( DiscreteByAtom )
• SetUseMultiCylindersForBonds( true )
• SetBondRadius( 0.075 )

void vtkMoleculeMapper::UseVDWSpheresSettings

(

)

Set ivars to default van der Waals spheres settings.

This is equivalent to the following:

• SetRenderAtoms( true )
• SetRenderBonds( true )
• SetAtomicRadiusType( VDWRadius )
• SetAtomicRadiusScaleFactor( 1.0 )
• SetBondColorMode( DiscreteByAtom )
• SetUseMultiCylindersForBonds( true )
• SetBondRadius( 0.075 )

void vtkMoleculeMapper::UseLiquoriceStickSettings

(

)

Set ivars to default liquorice stick settings.

This is equivalent to the following:

• SetRenderAtoms( true )
• SetRenderBonds( true )
• SetAtomicRadiusType( UnitRadius )
• SetAtomicRadiusScaleFactor( 0.1 )
• SetBondColorMode( DiscreteByAtom )
• SetUseMultiCylindersForBonds( false )
• SetBondRadius( 0.1 )

void vtkMoleculeMapper::UseFastSettings

(

)

Set ivars to use fast settings that may be useful for rendering extremely large molecules where the overall shape is more important than the details of the atoms/bond.

This is equivalent to the following:

• SetRenderAtoms( true )
• SetRenderBonds( true )
• SetAtomicRadiusType( UnitRadius )
• SetAtomicRadiusScaleFactor( 0.60 )
• SetBondColorMode( SingleColor )
• SetBondColor( 50, 50, 50 )
• SetUseMultiCylindersForBonds( false )
• SetBondRadius( 0.075 )

virtual bool vtkMoleculeMapper::GetRenderAtoms ( )

virtual

Get/Set whether or not to render atoms.

Default: On.

virtual void vtkMoleculeMapper::SetRenderAtoms ( bool  )

virtual

Get/Set whether or not to render atoms.

Default: On.

virtual void vtkMoleculeMapper::RenderAtomsOn ( )

virtual

Get/Set whether or not to render atoms.

Default: On.

virtual void vtkMoleculeMapper::RenderAtomsOff ( )

virtual

Get/Set whether or not to render atoms.

Default: On.

virtual bool vtkMoleculeMapper::GetRenderBonds ( )

virtual

Get/Set whether or not to render bonds.

Default: On.

virtual void vtkMoleculeMapper::SetRenderBonds ( bool  )

virtual

Get/Set whether or not to render bonds.

Default: On.

virtual void vtkMoleculeMapper::RenderBondsOn ( )

virtual

Get/Set whether or not to render bonds.

Default: On.

virtual void vtkMoleculeMapper::RenderBondsOff ( )

virtual

Get/Set whether or not to render bonds.

Default: On.

virtual bool vtkMoleculeMapper::GetRenderLattice ( )

virtual

Get/Set whether or not to render the unit cell lattice, if present.

Default: On.

virtual void vtkMoleculeMapper::SetRenderLattice ( bool  )

virtual

Get/Set whether or not to render the unit cell lattice, if present.

Default: On.

virtual void vtkMoleculeMapper::RenderLatticeOn ( )

virtual

Get/Set whether or not to render the unit cell lattice, if present.

Default: On.

virtual void vtkMoleculeMapper::RenderLatticeOff ( )

virtual

Get/Set whether or not to render the unit cell lattice, if present.

Default: On.

virtual int vtkMoleculeMapper::GetAtomicRadiusType ( )

virtual

Get/Set the type of radius used to generate the atoms.

Default: VDWRadius. If CustomArrayRadius is used, the VertexData array named 'radii' is used for per-atom radii.

virtual void vtkMoleculeMapper::SetAtomicRadiusType ( int  )

virtual

Get/Set the type of radius used to generate the atoms.

Default: VDWRadius. If CustomArrayRadius is used, the VertexData array named 'radii' is used for per-atom radii.

const char* vtkMoleculeMapper::GetAtomicRadiusTypeAsString

(

)

Get/Set the type of radius used to generate the atoms.

Default: VDWRadius. If CustomArrayRadius is used, the VertexData array named 'radii' is used for per-atom radii.

void vtkMoleculeMapper::SetAtomicRadiusTypeToCovalentRadius ( )

inline

Get/Set the type of radius used to generate the atoms.

Default: VDWRadius. If CustomArrayRadius is used, the VertexData array named 'radii' is used for per-atom radii.

Definition at line 160 of file vtkMoleculeMapper.h.

void vtkMoleculeMapper::SetAtomicRadiusTypeToVDWRadius ( )

inline

Get/Set the type of radius used to generate the atoms.

Default: VDWRadius. If CustomArrayRadius is used, the VertexData array named 'radii' is used for per-atom radii.

Definition at line 164 of file vtkMoleculeMapper.h.

void vtkMoleculeMapper::SetAtomicRadiusTypeToUnitRadius ( )

inline

Get/Set the type of radius used to generate the atoms.

Default: VDWRadius. If CustomArrayRadius is used, the VertexData array named 'radii' is used for per-atom radii.

Definition at line 168 of file vtkMoleculeMapper.h.

void vtkMoleculeMapper::SetAtomicRadiusTypeToCustomArrayRadius ( )

inline

Get/Set the type of radius used to generate the atoms.

Default: VDWRadius. If CustomArrayRadius is used, the VertexData array named 'radii' is used for per-atom radii.

Definition at line 172 of file vtkMoleculeMapper.h.

virtual float vtkMoleculeMapper::GetAtomicRadiusScaleFactor ( )

virtual

Get/Set the uniform scaling factor applied to the atoms.

This is ignored when AtomicRadiusType == CustomArrayRadius. Default: 0.3.

virtual void vtkMoleculeMapper::SetAtomicRadiusScaleFactor ( float  )

virtual

Get/Set the uniform scaling factor applied to the atoms.

This is ignored when AtomicRadiusType == CustomArrayRadius. Default: 0.3.

virtual bool vtkMoleculeMapper::GetUseMultiCylindersForBonds ( )

virtual

Get/Set whether multicylinders will be used to represent multiple bonds.

Default: On.

virtual void vtkMoleculeMapper::SetUseMultiCylindersForBonds ( bool  )

virtual

Get/Set whether multicylinders will be used to represent multiple bonds.

Default: On.

virtual void vtkMoleculeMapper::UseMultiCylindersForBondsOn ( )

virtual

Get/Set whether multicylinders will be used to represent multiple bonds.

Default: On.

virtual void vtkMoleculeMapper::UseMultiCylindersForBondsOff ( )

virtual

Get/Set whether multicylinders will be used to represent multiple bonds.

Default: On.

virtual int vtkMoleculeMapper::GetBondColorMode ( )

virtual

Get/Set the method by which bonds are colored.

If 'SingleColor' is used, all bonds will be the same color. Use SetBondColor to set the rgb values used.

If 'DiscreteByAtom' is selected, each bond is colored using the same lookup table as the atoms at each end, with a sharp color boundary at the bond center.

virtual void vtkMoleculeMapper::SetBondColorMode ( int  )

virtual

Get/Set the method by which bonds are colored.

If 'SingleColor' is used, all bonds will be the same color. Use SetBondColor to set the rgb values used.

If 'DiscreteByAtom' is selected, each bond is colored using the same lookup table as the atoms at each end, with a sharp color boundary at the bond center.

const char* vtkMoleculeMapper::GetBondColorModeAsString

(

)

Get/Set the method by which bonds are colored.

If 'SingleColor' is used, all bonds will be the same color. Use SetBondColor to set the rgb values used.

If 'DiscreteByAtom' is selected, each bond is colored using the same lookup table as the atoms at each end, with a sharp color boundary at the bond center.

void vtkMoleculeMapper::SetBondColorModeToSingleColor ( )

inline

Get/Set the method by which bonds are colored.

If 'SingleColor' is used, all bonds will be the same color. Use SetBondColor to set the rgb values used.

If 'DiscreteByAtom' is selected, each bond is colored using the same lookup table as the atoms at each end, with a sharp color boundary at the bond center.

Definition at line 217 of file vtkMoleculeMapper.h.

void vtkMoleculeMapper::SetBondColorModeToDiscreteByAtom ( )

inline

Get/Set the method by which bonds are colored.

If 'SingleColor' is used, all bonds will be the same color. Use SetBondColor to set the rgb values used.

If 'DiscreteByAtom' is selected, each bond is colored using the same lookup table as the atoms at each end, with a sharp color boundary at the bond center.

Definition at line 221 of file vtkMoleculeMapper.h.

virtual unsigned char* vtkMoleculeMapper::GetBondColor ( )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {50, 50, 50} (dark grey)

virtual void vtkMoleculeMapper::GetBondColor ( unsigned char &  , unsigned char &  , unsigned char &    )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {50, 50, 50} (dark grey)

virtual void vtkMoleculeMapper::GetBondColor ( unsigned  char[3] )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {50, 50, 50} (dark grey)

virtual void vtkMoleculeMapper::SetBondColor ( unsigned  char, unsigned  char, unsigned  char  )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {50, 50, 50} (dark grey)

virtual void vtkMoleculeMapper::SetBondColor ( unsigned  char[3] )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {50, 50, 50} (dark grey)

virtual float vtkMoleculeMapper::GetBondRadius ( )

virtual

Get/Set the radius of the bond cylinders.

Default: 0.075

virtual void vtkMoleculeMapper::SetBondRadius ( float  )

virtual

Get/Set the radius of the bond cylinders.

Default: 0.075

virtual unsigned char* vtkMoleculeMapper::GetLatticeColor ( )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {255, 255, 255} (white)

virtual void vtkMoleculeMapper::GetLatticeColor ( unsigned char &  , unsigned char &  , unsigned char &    )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {255, 255, 255} (white)

virtual void vtkMoleculeMapper::GetLatticeColor ( unsigned  char[3] )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {255, 255, 255} (white)

virtual void vtkMoleculeMapper::SetLatticeColor ( unsigned  char, unsigned  char, unsigned  char  )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {255, 255, 255} (white)

virtual void vtkMoleculeMapper::SetLatticeColor ( unsigned  char[3] )

virtual

Get/Set the color of the bonds as an rgb tuple.

Default: {255, 255, 255} (white)

virtual void vtkMoleculeMapper::GetSelectedAtomsAndBonds ( vtkSelection *  selection, vtkIdTypeArray *  atomIds, vtkIdTypeArray *  bondIds  )

virtual

Extract the ids atoms and/or bonds rendered by this molecule from a vtkSelection object.

The vtkIdTypeArray

virtual void vtkMoleculeMapper::GetSelectedAtoms ( vtkSelection *  selection, vtkIdTypeArray *  atomIds  )

inlinevirtual

Extract the ids atoms and/or bonds rendered by this molecule from a vtkSelection object.

The vtkIdTypeArray

Definition at line 261 of file vtkMoleculeMapper.h.

virtual void vtkMoleculeMapper::GetSelectedBonds ( vtkSelection *  selection, vtkIdTypeArray *  bondIds  )

inlinevirtual

Extract the ids atoms and/or bonds rendered by this molecule from a vtkSelection object.

The vtkIdTypeArray

Definition at line 266 of file vtkMoleculeMapper.h.

virtual void vtkMoleculeMapper::Render ( vtkRenderer *  , vtkActor *    )

virtual

Reimplemented from base class.

Implements vtkMapper.

Reimplemented in vtkOpenGLMoleculeMapper.

virtual void vtkMoleculeMapper::ReleaseGraphicsResources ( vtkWindow *  )

virtual

Reimplemented from base class.

Reimplemented from vtkMapper.

Reimplemented in vtkOpenGLMoleculeMapper.

double* vtkMoleculeMapper::GetBounds ( )

virtual

Reimplemented from base class.

Reimplemented from vtkMapper.

void vtkMoleculeMapper::GetBounds ( double  bounds[6] )

inlinevirtual

Reimplemented from base class.

Reimplemented from vtkMapper.

Definition at line 280 of file vtkMoleculeMapper.h.

virtual int vtkMoleculeMapper::FillInputPortInformation ( int  port, vtkInformation *  info  )

virtual

Reimplemented from base class.

Reimplemented from vtkAlgorithm.

virtual bool vtkMoleculeMapper::GetSupportsSelection ( )

inlinevirtual

Reimplemented from base class.

Reimplemented from vtkMapper.

Definition at line 282 of file vtkMoleculeMapper.h.

void vtkMoleculeMapper::GlyphRender ( vtkRenderer *  ren, vtkActor *  act  )

protected

Internal render methods.

virtual void vtkMoleculeMapper::UpdateGlyphPolyData ( )

protectedvirtual

Cached variables and update methods.

virtual void vtkMoleculeMapper::UpdateAtomGlyphPolyData ( )

protectedvirtual

Cached variables and update methods.

Reimplemented in vtkOpenGLMoleculeMapper.

virtual void vtkMoleculeMapper::UpdateBondGlyphPolyData ( )

protectedvirtual

Cached variables and update methods.

Reimplemented in vtkOpenGLMoleculeMapper.

virtual void vtkMoleculeMapper::UpdateLatticePolyData ( )

protectedvirtual

Member Data Documentation

bool vtkMoleculeMapper::RenderAtoms

protected

Customize atom rendering.

Definition at line 293 of file vtkMoleculeMapper.h.

int vtkMoleculeMapper::AtomicRadiusType

protected

Customize atom rendering.

Definition at line 294 of file vtkMoleculeMapper.h.

float vtkMoleculeMapper::AtomicRadiusScaleFactor

protected

Customize atom rendering.

Definition at line 295 of file vtkMoleculeMapper.h.

bool vtkMoleculeMapper::RenderBonds

protected

Customize bond rendering.

Definition at line 302 of file vtkMoleculeMapper.h.

int vtkMoleculeMapper::BondColorMode

protected

Customize bond rendering.

Definition at line 303 of file vtkMoleculeMapper.h.

bool vtkMoleculeMapper::UseMultiCylindersForBonds

protected

Customize bond rendering.

Definition at line 304 of file vtkMoleculeMapper.h.

float vtkMoleculeMapper::BondRadius

protected

Customize bond rendering.

Definition at line 305 of file vtkMoleculeMapper.h.

unsigned char vtkMoleculeMapper::BondColor[3]

protected

Customize bond rendering.

Definition at line 306 of file vtkMoleculeMapper.h.

bool vtkMoleculeMapper::RenderLattice

protected

Definition at line 309 of file vtkMoleculeMapper.h.

vtkNew<vtkPolyData> vtkMoleculeMapper::AtomGlyphPolyData

protected

Cached variables and update methods.

Definition at line 320 of file vtkMoleculeMapper.h.

vtkNew<vtkTrivialProducer> vtkMoleculeMapper::AtomGlyphPointOutput

protected

Cached variables and update methods.

Definition at line 321 of file vtkMoleculeMapper.h.

vtkNew<vtkPolyData> vtkMoleculeMapper::BondGlyphPolyData

protected

Cached variables and update methods.

Definition at line 322 of file vtkMoleculeMapper.h.

vtkNew<vtkTrivialProducer> vtkMoleculeMapper::BondGlyphPointOutput

protected

Cached variables and update methods.

Definition at line 323 of file vtkMoleculeMapper.h.

bool vtkMoleculeMapper::GlyphDataInitialized

protected

Cached variables and update methods.

Definition at line 324 of file vtkMoleculeMapper.h.

vtkNew<vtkGlyph3DMapper> vtkMoleculeMapper::AtomGlyphMapper

protected

Internal mappers.

Definition at line 334 of file vtkMoleculeMapper.h.

vtkNew<vtkGlyph3DMapper> vtkMoleculeMapper::BondGlyphMapper

protected

Internal mappers.

Definition at line 335 of file vtkMoleculeMapper.h.

unsigned char vtkMoleculeMapper::LatticeColor[3]

protected

Definition at line 338 of file vtkMoleculeMapper.h.

vtkNew<vtkPolyData> vtkMoleculeMapper::LatticePolyData

protected

Definition at line 339 of file vtkMoleculeMapper.h.

vtkNew<vtkPolyDataMapper> vtkMoleculeMapper::LatticeMapper

protected

Definition at line 340 of file vtkMoleculeMapper.h.

vtkNew<vtkPeriodicTable> vtkMoleculeMapper::PeriodicTable

protected

Periodic table for lookups.

Definition at line 346 of file vtkMoleculeMapper.h.

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

• /home/demarle/Builds/VTK/release/Utilities/Doxygen/dox/Domains/Chemistry/vtkMoleculeMapper.h