This class takes as input one or more reference image (acquired in the absence of diffusion sensitizing gradients) and 'n' diffusion weighted images and their gradient directions and computes an image of tensors. (with DiffusionTensor3D as the pixel type). Once that is done, you can apply filters on this tensor image to compute FA, ADC, RGB weighted maps etc. More...

#include <itkDiffusionTensor3DReconstructionImageFilter.h>

Inheritance diagram for itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >:

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Collaboration diagram for itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >:

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List of all members.

Public Types
typedef vnl_matrix< double >	CoefficientMatrixType
typedef SmartPointer< const Self >	ConstPointer
typedef DataObject::Pointer	DataObjectPointer
typedef std::vector < DataObjectPointer >	DataObjectPointerArray
typedef DataObjectPointerArray::size_type	DataObjectPointerArraySizeType
typedef VectorContainer < unsigned int, GradientDirectionType >	GradientDirectionContainerType
typedef vnl_vector_fixed < double, 3 >	GradientDirectionType
typedef VectorImage < GradientPixelType, 3 >	GradientImagesType
typedef Image < GradientPixelType, 3 >	GradientImageType
typedef TGradientImagePixelType	GradientPixelType
typedef InputImageType::ConstPointer	InputImageConstPointer
typedef InputImageType::PixelType	InputImagePixelType
typedef InputImageType::Pointer	InputImagePointer
typedef InputImageType::RegionType	InputImageRegionType
typedef Image < TReferenceImagePixelType, 3 >	InputImageType
typedef Superclass::OutputImagePixelType	OutputImagePixelType
typedef OutputImageType::Pointer	OutputImagePointer
typedef Superclass::OutputImageRegionType	OutputImageRegionType
typedef TensorImageType	OutputImageType
typedef SmartPointer< Self >	Pointer
typedef Superclass::InputImageType	ReferenceImageType
typedef TReferenceImagePixelType	ReferencePixelType
typedef DiffusionTensor3DReconstructionImageFilter	Self
typedef ImageToImageFilter < Image < TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D < TTensorPixelType >, 3 > >	Superclass
typedef vnl_matrix_fixed < double, 6, 6 >	TensorBasisMatrixType
typedef Image< TensorPixelType, 3 >	TensorImageType
typedef DiffusionTensor3D < TTensorPixelType >	TensorPixelType
Public Member Functions
virtual void	AbortGenerateDataOff ()
virtual void	AbortGenerateDataOn ()
void	AddGradientImage (const GradientDirectionType &, const GradientImageType *image)
virtual LightObject::Pointer	CreateAnother () const
virtual void	DebugOff () const
virtual void	DebugOn () const
virtual void	Delete ()
virtual void	EnlargeOutputRequestedRegion (DataObject *)
virtual const bool &	GetAbortGenerateData ()
Command *	GetCommand (unsigned long tag)
bool	GetDebug () const
DataObjectPointerArray &	GetInputs ()
MetaDataDictionary &	GetMetaDataDictionary (void)
const MetaDataDictionary &	GetMetaDataDictionary (void) const
virtual unsigned long	GetMTime () const
MultiThreader *	GetMultiThreader ()
virtual const char *	GetNameOfClass () const
DataObjectPointerArraySizeType	GetNumberOfInputs () const
virtual DataObjectPointerArraySizeType	GetNumberOfValidRequiredInputs () const
virtual const float &	GetProgress ()
virtual int	GetReferenceCount () const
virtual ReferenceImageType *	GetReferenceImage ()
virtual void	GraftNthOutput (unsigned int idx, DataObject *output)
virtual void	GraftOutput (DataObject *output)
bool	HasObserver (const EventObject &event) const
void	InvokeEvent (const EventObject &)
void	InvokeEvent (const EventObject &) const
virtual DataObjectPointer	MakeOutput (unsigned int idx)
virtual void	Modified () const
virtual void	PrepareOutputs ()
void	Print (std::ostream &os, Indent indent=0) const
virtual void	PropagateRequestedRegion (DataObject *output)
virtual void	Register () const
void	RemoveAllObservers ()
void	RemoveObserver (unsigned long tag)
virtual void	ResetPipeline ()
virtual void	SetAbortGenerateData (bool _arg)
void	SetDebug (bool debugFlag) const
void	SetGradientImage (GradientDirectionContainerType , const GradientImagesType image)
void	SetMetaDataDictionary (const MetaDataDictionary &rhs)
virtual void	SetProgress (float _arg)
virtual void	SetReferenceCount (int)
void	SetReferenceImage (ReferenceImageType *referenceImage)
virtual void	UnRegister () const
virtual void	Update ()
virtual void	UpdateLargestPossibleRegion ()
virtual void	UpdateOutputData (DataObject *output)
virtual void	UpdateOutputInformation ()
void	UpdateProgress (float amount)


virtual GradientDirectionType	GetGradientDirection (unsigned int idx) const


virtual void	SetThreshold (ReferencePixelType _arg)
virtual ReferencePixelType	GetThreshold () const


virtual void	SetBValue (TTensorPixelType _arg)
virtual const TTensorPixelType &	GetBValue ()


virtual void	SetInput (const InputImageType *image)
virtual void	SetInput (unsigned int, const Image< TReferenceImagePixelType, 3 > *image)
const InputImageType *	GetInput (void)
const InputImageType *	GetInput (unsigned int idx)


virtual void	PushBackInput (const InputImageType *image)
virtual void	PopBackInput ()
virtual void	PushFrontInput (const InputImageType *image)
virtual void	PopFrontInput ()


OutputImageType *	GetOutput (void)
OutputImageType *	GetOutput (unsigned int idx)


DataObjectPointerArray &	GetOutputs ()
DataObjectPointerArraySizeType	GetNumberOfOutputs () const


virtual void	SetReleaseDataFlag (bool flag)
virtual bool	GetReleaseDataFlag () const
void	ReleaseDataFlagOn ()
void	ReleaseDataFlagOff ()


virtual void	SetReleaseDataBeforeUpdateFlag (bool _arg)
virtual const bool &	GetReleaseDataBeforeUpdateFlag ()
virtual void	ReleaseDataBeforeUpdateFlagOn ()
virtual void	ReleaseDataBeforeUpdateFlagOff ()


virtual void	SetNumberOfThreads (int _arg)
virtual const int &	GetNumberOfThreads ()


unsigned long	AddObserver (const EventObject &event, Command *)
unsigned long	AddObserver (const EventObject &event, Command *) const
Static Public Member Functions
static void	BreakOnError ()
static Pointer	New ()


static void	SetGlobalWarningDisplay (bool flag)
static bool	GetGlobalWarningDisplay ()
static void	GlobalWarningDisplayOn ()
static void	GlobalWarningDisplayOff ()
Static Public Attributes


static const unsigned int	InputImageDimension
static const unsigned int	OutputImageDimension
Protected Types
enum	GradientImageTypeEnumeration { GradientIsInASingleImage = 1, GradientIsInManyImages, Else }
typedef ImageToImageFilterDetail::ImageRegionCopier < itkGetStaticConstMacro(OutputImageDimension), itkGetStaticConstMacro(InputImageDimension)>	InputToOutputRegionCopierType
typedef ImageToImageFilterDetail::ImageRegionCopier < itkGetStaticConstMacro(InputImageDimension), itkGetStaticConstMacro(OutputImageDimension)>	OutputToInputRegionCopierType


typedef int	InternalReferenceCountType
Protected Member Functions
virtual void	AfterThreadedGenerateData ()
virtual void	AllocateOutputs ()
void	BeforeThreadedGenerateData ()
virtual void	CacheInputReleaseDataFlags ()
virtual void	CallCopyInputRegionToOutputRegion (OutputImageRegionType &destRegion, const InputImageRegionType &srcRegion)
virtual void	CallCopyOutputRegionToInputRegion (InputImageRegionType &destRegion, const OutputImageRegionType &srcRegion)
void	ComputeTensorBasis ()
	DiffusionTensor3DReconstructionImageFilter ()
virtual void	GenerateData ()
virtual void	GenerateInputRequestedRegion ()
virtual void	GenerateOutputInformation ()
virtual void	GenerateOutputRequestedRegion (DataObject *output)
bool	PrintObservers (std::ostream &os, Indent indent) const
void	PrintSelf (std::ostream &os, Indent indent) const
virtual void	PropagateResetPipeline ()
virtual void	ReleaseInputs ()
virtual void	RestoreInputReleaseDataFlags ()
void	SetNumberOfInputs (unsigned int num)
void	SetNumberOfOutputs (unsigned int num)
virtual int	SplitRequestedRegion (int i, int num, OutputImageRegionType &splitRegion)
void	ThreadedGenerateData (const OutputImageRegionType &outputRegionForThread, int)
virtual void	ThreadedGenerateData (const OutputImageRegionType &outputRegionForThread, int threadId) ITK_NO_RETURN
	~DiffusionTensor3DReconstructionImageFilter ()


const DataObject *	GetInput (unsigned int idx) const


void	PushBackInput (const DataObject *input)
void	PushFrontInput (const DataObject *input)


const DataObject *	GetOutput (unsigned int idx) const


virtual void	SetNthInput (unsigned int num, DataObject *input)
virtual void	AddInput (DataObject *input)
virtual void	RemoveInput (DataObject *input)
virtual void	SetNumberOfRequiredInputs (unsigned int _arg)
virtual const unsigned int &	GetNumberOfRequiredInputs ()


virtual void	SetNthOutput (unsigned int num, DataObject *output)
virtual void	AddOutput (DataObject *output)
virtual void	RemoveOutput (DataObject *output)
virtual void	SetNumberOfRequiredOutputs (unsigned int _arg)
virtual const unsigned int &	GetNumberOfRequiredOutputs ()


virtual void	PrintHeader (std::ostream &os, Indent indent) const
virtual void	PrintTrailer (std::ostream &os, Indent indent) const
Static Protected Member Functions
static ITK_THREAD_RETURN_TYPE	ThreaderCallback (void *arg)
Protected Attributes
TimeStamp	m_OutputInformationMTime
InternalReferenceCountType	m_ReferenceCount
SimpleFastMutexLock	m_ReferenceCountLock
bool	m_Updating

Detailed Description

template<class TReferenceImagePixelType, class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>
class itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >

This class takes as input one or more reference image (acquired in the absence of diffusion sensitizing gradients) and 'n' diffusion weighted images and their gradient directions and computes an image of tensors. (with DiffusionTensor3D as the pixel type). Once that is done, you can apply filters on this tensor image to compute FA, ADC, RGB weighted maps etc.

Inputs and Usage

There are two ways to use this class. When you have one reference image and n gradient images, you would use the class as

       filter->SetReferenceImage( image0 );
       filter->AddGradientImage( direction1, image1 );
       filter->AddGradientImage( direction2, image2 );
   ...

When you have the 'n' gradient and one or more reference images in a single multi-component image (VectorImage), you can specify the images simply as

       filter->SetGradientImage( directionsContainer, vectorImage );

Note that this method is used to specify both the reference and gradient images. This is convenient when the DWI images are read in using the NRRD format. Like the Nrrd format, the reference images are those components of the vectorImage whose gradient direction is (0,0,0). If more than one reference image is present, they are averaged prior to applying the Stejskal-Tanner equations.

Outputs

The output image is an image of Tensors:

       Image< DiffusionTensor3D< TTensorPixelType >, 3 >

Parameters

Threshold - Threshold on the reference image data. The output tensor will be a null tensor for pixels in the reference image that have a value less than this.
BValue - See the documentation of SetBValue().
At least 6 gradient images must be specified for the filter to be able to run.

Template parameters: The class is templated over the pixel type of the reference and gradient images (expected to be scalar data types) and the internal representation of the DiffusionTensor3D pixel (double, float etc).

References:

[1] C.F.Westin, S.E.Maier, H.Mamata, A.Nabavi, F.A.Jolesz, R.Kikinis, "Processing and visualization for Diffusion tensor MRI", Medical image Analysis, 2002, pp 93-108.
[2] A Dual Tensor Basis Solution to the Stejskal-Tanner Equations for DT-MRI

WARNING:

Although this filter has been written to support multiple threads, please set the number of threads to 1.

         filter->SetNumberOfThreads(1);

This is due to buggy code in netlib/dsvdc, that is called by vnl_svd. (used to compute the psudo-inverse to find the dual tensor basis).

Author:: Thanks to Xiaodong Tao, GE, for contributing parts of this class. Also thanks to Casey Goodlet, UNC for patches to support multiple baseline images and other improvements.

Note:: This work is part of the National Alliance for Medical image Computing (NAMIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149.

Examples and Datasets: See Examples/Filtering/DiffusionTensor3DReconstructionImageFilter.cxx Sample DTI datasets may be obtained from verbatim ftp://public.kitware.com/pub/namic/DTI/Data/dwi.nhdr ftp://public.kitware.com/pub/namic/DTI/Data/dwi.img.gz ( gunzip this ) verbatim

See also:: DiffusionTensor3D SymmetricSecondRankTensor

Definition at line 122 of file itkDiffusionTensor3DReconstructionImageFilter.h.

Member Typedef Documentation

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef vnl_matrix< double > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::CoefficientMatrixType

Definition at line 172 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef SmartPointer<const Self> itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::ConstPointer

Reimplemented from itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 >, Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 131 of file itkDiffusionTensor3DReconstructionImageFilter.h.

typedef DataObject::Pointer itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::DataObjectPointer [inherited]

Smart Pointer type to a DataObject.

Reimplemented from itk::ProcessObject.

Definition at line 62 of file itkImageSource.h.

typedef std::vector<DataObjectPointer> itk::ProcessObject::DataObjectPointerArray [inherited]

STL Array of SmartPointers to DataObjects

Definition at line 103 of file itkProcessObject.h.

typedef DataObjectPointerArray::size_type itk::ProcessObject::DataObjectPointerArraySizeType [inherited]

Size type of an std::vector

Definition at line 112 of file itkProcessObject.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef VectorContainer< unsigned int, GradientDirectionType > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GradientDirectionContainerType

Container to hold gradient directions of the 'n' DW measurements

Definition at line 179 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef vnl_vector_fixed< double, 3 > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GradientDirectionType

Holds each magnetic field gradient used to acquire one DWImage

Definition at line 175 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef VectorImage< GradientPixelType, 3 > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GradientImagesType

An alternative typedef defining one (of the many) gradient images. It will be assumed that the vectorImage has the same dimension as the Reference image and a vector length parameter of n (number of gradient directions)

Definition at line 167 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef Image< GradientPixelType, 3 > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GradientImageType

Typedef defining one (of the many) gradient images.

Definition at line 161 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef TGradientImagePixelType itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GradientPixelType

Definition at line 145 of file itkDiffusionTensor3DReconstructionImageFilter.h.

typedef InputImageType::ConstPointer itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::InputImageConstPointer [inherited]

Definition at line 84 of file itkImageToImageFilter.h.

typedef InputImageType::PixelType itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::InputImagePixelType [inherited]

Definition at line 86 of file itkImageToImageFilter.h.

typedef InputImageType::Pointer itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::InputImagePointer [inherited]

Definition at line 83 of file itkImageToImageFilter.h.

typedef InputImageType::RegionType itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::InputImageRegionType [inherited]

Definition at line 85 of file itkImageToImageFilter.h.

typedef Image< TReferenceImagePixelType, 3 > itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::InputImageType [inherited]

Some convenient typedefs.

Definition at line 82 of file itkImageToImageFilter.h.

typedef ImageToImageFilterDetail::ImageRegionCopier<itkGetStaticConstMacro(OutputImageDimension), itkGetStaticConstMacro(InputImageDimension)> itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::InputToOutputRegionCopierType [protected, inherited]

Typedef for the region copier function object that converts an input region to an output region.

Definition at line 164 of file itkImageToImageFilter.h.

typedef int itk::LightObject::InternalReferenceCountType [protected, inherited]

Define the type of the reference count according to the target. This allows the use of atomic operations

Definition at line 139 of file itkLightObject.h.

typedef Superclass::OutputImagePixelType itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::OutputImagePixelType [inherited]

Reimplemented from itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 79 of file itkImageToImageFilter.h.

typedef OutputImageType::Pointer itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::OutputImagePointer [inherited]

Definition at line 69 of file itkImageSource.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef Superclass::OutputImageRegionType itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::OutputImageRegionType

Superclass typedefs.

Reimplemented from itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 >, Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 158 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef TensorImageType itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::OutputImageType

Some convenient typedefs.

Reimplemented from itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 155 of file itkDiffusionTensor3DReconstructionImageFilter.h.

typedef ImageToImageFilterDetail::ImageRegionCopier<itkGetStaticConstMacro(InputImageDimension), itkGetStaticConstMacro(OutputImageDimension)> itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::OutputToInputRegionCopierType [protected, inherited]

Typedef for the region copier function object that converts an output region to an input region.

Definition at line 169 of file itkImageToImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef SmartPointer<Self> itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::Pointer

Reimplemented from itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 >, Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 130 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef Superclass::InputImageType itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::ReferenceImageType

Reference image data, This image is aquired in the absence of a diffusion sensitizing field gradient

Definition at line 151 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef TReferenceImagePixelType itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::ReferencePixelType

Definition at line 141 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef DiffusionTensor3DReconstructionImageFilter itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::Self

Standard class typedefs.

Reimplemented from itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 >, Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 129 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef ImageToImageFilter< Image< TReferenceImagePixelType, 3>, Image< DiffusionTensor3D< TTensorPixelType >, 3 > > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::Superclass

Reimplemented from itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 >, Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 134 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef vnl_matrix_fixed< double, 6, 6 > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::TensorBasisMatrixType

Holds the tensor basis coefficients G_k

Definition at line 170 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef Image< TensorPixelType, 3 > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::TensorImageType

Definition at line 153 of file itkDiffusionTensor3DReconstructionImageFilter.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

typedef DiffusionTensor3D< TTensorPixelType > itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::TensorPixelType

Definition at line 147 of file itkDiffusionTensor3DReconstructionImageFilter.h.

Member Enumeration Documentation

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

enum itk::DiffusionTensor3DReconstructionImageFilter::GradientImageTypeEnumeration [protected]

enum to indicate if the gradient image is specified as a single multi- component image or as several separate images

Enumerator:

GradientIsInASingleImage
GradientIsInManyImages
Else

Definition at line 278 of file itkDiffusionTensor3DReconstructionImageFilter.h.

Constructor & Destructor Documentation

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::DiffusionTensor3DReconstructionImageFilter ( ) [protected]

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::~DiffusionTensor3DReconstructionImageFilter ( ) [inline, protected]

Definition at line 267 of file itkDiffusionTensor3DReconstructionImageFilter.h.

Member Function Documentation

virtual void itk::ProcessObject::AbortGenerateDataOff ( ) [virtual, inherited]

virtual void itk::ProcessObject::AbortGenerateDataOn ( ) [virtual, inherited]

Turn on and off the AbortGenerateData flag.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::AddGradientImage	(	const GradientDirectionType &	,
		const GradientImageType *	image
	)

Set method to add a gradient direction and its corresponding image.

virtual void itk::ProcessObject::AddInput ( DataObject * input ) [protected, virtual, inherited]

Protected methods for setting inputs. Subclasses make use of them for setting input.

unsigned long itk::Object::AddObserver	(	const EventObject &	event,
		Command *
	)			`[inherited]`

Allow people to add/remove/invoke observers (callbacks) to any ITK object. This is an implementation of the subject/observer design pattern. An observer is added by specifying an event to respond to and an itk::Command to execute. It returns an unsigned long tag which can be used later to remove the event or retrieve the command. The memory for the Command becomes the responsibility of this object, so don't pass the same instance of a command to two different objects

unsigned long itk::Object::AddObserver	(	const EventObject &	event,
		Command *
	)			const `[inherited]`

Allow people to add/remove/invoke observers (callbacks) to any ITK object. This is an implementation of the subject/observer design pattern. An observer is added by specifying an event to respond to and an itk::Command to execute. It returns an unsigned long tag which can be used later to remove the event or retrieve the command. The memory for the Command becomes the responsibility of this object, so don't pass the same instance of a command to two different objects

virtual void itk::ProcessObject::AddOutput ( DataObject * output ) [protected, virtual, inherited]

Protected methods for setting outputs. Subclasses make use of them for getting output.

virtual void itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::AfterThreadedGenerateData ( void ) [inline, protected, virtual, inherited]

If an imaging filter needs to perform processing after all processing threads have completed, the filter can can provide an implementation for AfterThreadedGenerateData(). The execution flow in the default GenerateData() method will be: 1) Allocate the output buffer 2) Call BeforeThreadedGenerateData() 3) Spawn threads, calling ThreadedGenerateData() in each thread. 4) Call AfterThreadedGenerateData() Note that this flow of control is only available if a filter provides a ThreadedGenerateData() method and NOT a GenerateData() method.

Definition at line 265 of file itkImageSource.h.

virtual void itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::AllocateOutputs ( ) [protected, virtual, inherited]

The GenerateData method normally allocates the buffers for all of the outputs of a filter. Some filters may want to override this default behavior. For example, a filter may have multiple outputs with varying resolution. Or a filter may want to process data in place by grafting its input to its output.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::BeforeThreadedGenerateData ( void ) [protected, virtual]

If an imaging filter needs to perform processing after the buffer has been allocated but before threads are spawned, the filter can can provide an implementation for BeforeThreadedGenerateData(). The execution flow in the default GenerateData() method will be: 1) Allocate the output buffer 2) Call BeforeThreadedGenerateData() 3) Spawn threads, calling ThreadedGenerateData() in each thread. 4) Call AfterThreadedGenerateData() Note that this flow of control is only available if a filter provides a ThreadedGenerateData() method and NOT a GenerateData() method.

Reimplemented from itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

static void itk::LightObject::BreakOnError ( ) [static, inherited]

This method is called when itkExceptionMacro executes. It allows the debugger to break on error.

virtual void itk::ProcessObject::CacheInputReleaseDataFlags ( ) [protected, virtual, inherited]

Cache the state of any ReleaseDataFlag's on the inputs. While the filter is executing, we need to set the ReleaseDataFlag's on the inputs to false in case the current filter is implemented using a mini-pipeline (which will try to release the inputs). After the filter finishes, we restore the state of the ReleaseDataFlag's before the call to ReleaseInputs().

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::CallCopyInputRegionToOutputRegion	(	OutputImageRegionType &	destRegion,
		const InputImageRegionType &	srcRegion
	)			`[protected, virtual, inherited]`

This function calls the actual region copier to do the mapping from input image space to output image space. It uses a Function object used for dispatching to various routines to copy an input region (start index and size) to an output region. For most filters, this is a trivial copy because most filters require the input dimension to match the output dimension. However, some filters like itk::UnaryFunctorImageFilter can support output images of a higher dimension that the input.

This function object is used by the default implementation of GenerateOutputInformation(). It can also be used in routines like ThreadedGenerateData() where a filter may need to map an input region to an output region.

The default copier uses a "dispatch pattern" to call one of three overloaded functions depending on whether the input and output images are the same dimension, the input is a higher dimension that the output, or the input is of a lower dimension than the output. The use of an overloaded function is required for proper compilation of the various cases.

For the latter two cases, trivial implementations are used. If the input image is a higher dimension than the output, the first portion of the input region is copied to the output region. If the input region is a lower dimension than the output, the input region information is copied into the first portion of the output region and the rest of the output region is set to zero.

If a filter needs a different default behavior, it can override this method.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::CallCopyOutputRegionToInputRegion	(	InputImageRegionType &	destRegion,
		const OutputImageRegionType &	srcRegion
	)			`[protected, virtual, inherited]`

This function calls the actual region copier to do the mapping from output image space to input image space. It uses a Function object used for dispatching to various routines to copy an output region (start index and size) to an input region. For most filters, this is a trivial copy because most filters require the input dimension to match the output dimension. However, some filters like itk::ExtractImageFilter can support output images of a lower dimension that the input.

This function object can be used by GenerateOutputInformation() to copy the input LargestPossibleRegion to the output LargestPossibleRegion and can also be used in GenerateData or ThreadedGenerateData() where a filter may need to map an output region to an input region.

The default copier uses a "dispatch pattern" to call one of three overloaded functions depending on whether the input and output images are the same dimension, the input is a higher dimension that the output, or the input is of a lower dimension than the output. The use of an overloaded function is required for proper compilation of the various cases.

For the latter two cases, trivial implementations are used. If the input image is a higher dimension than the output, the output region information is copied into the first portion of the input region and the rest of the input region is set to zero. If the input region is a lower dimension than the output, the first portion of the output region is copied to the input region.

If a filter needs a different default behavior, it can override this method. The ExtractImageFilter overrides this function object so that if the input image is a higher dimension than the output image, the filter can control "where" in the input image the output subimage is extracted (as opposed to mapping to first few dimensions of the input).

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::ComputeTensorBasis ( ) [protected]

virtual LightObject::Pointer itk::Object::CreateAnother ( ) const [virtual, inherited]

Create an object from an instance, potentially deferring to a factory. This method allows you to create an instance of an object that is exactly the same type as the referring object. This is useful in cases where an object has been cast back to a base class.

Reimplemented from itk::LightObject.

virtual void itk::Object::DebugOff ( ) const [virtual, inherited]

Turn debugging output off.

virtual void itk::Object::DebugOn ( ) const [virtual, inherited]

Turn debugging output on.

virtual void itk::LightObject::Delete ( ) [virtual, inherited]

Delete an itk object. This method should always be used to delete an object when the new operator was used to create it. Using the C delete method will not work with reference counting.

virtual void itk::ProcessObject::EnlargeOutputRequestedRegion ( DataObject * ) [inline, virtual, inherited]

Give the process object a chance to indictate that it will produce more output than it was requested to produce. For example, many imaging filters must compute the entire output at once or can only produce output in complete slices. Such filters cannot handle smaller requested regions. These filters must provide an implementation of this method, setting the output requested region to the size they will produce. By default, a process object does not modify the size of the output requested region.

Definition at line 225 of file itkProcessObject.h.

virtual void itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GenerateData ( void ) [protected, virtual, inherited]

A version of GenerateData() specific for image processing filters. This implementation will split the processing across multiple threads. The buffer is allocated by this method. Then the BeforeThreadedGenerateData() method is called (if provided). Then, a series of threads are spawned each calling ThreadedGenerateData(). After all the threads have completed processing, the AfterThreadedGenerateData() method is called (if provided). If an image processing filter cannot be threaded, the filter should provide an implementation of GenerateData(). That implementation is responsible for allocating the output buffer. If a filter an be threaded, it should NOT provide a GenerateData() method but should provide a ThreadedGenerateData() instead.

See also:: ThreadedGenerateData()

Reimplemented from itk::ProcessObject.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GenerateInputRequestedRegion ( void ) [protected, virtual, inherited]

What is the input requested region that is required to produce the output requested region? The base assumption for image processing filters is that the input requested region can be set to match the output requested region. If a filter requires more input (for instance a filter that uses neighborhoods needs more input than output to avoid introducing artificial boundary conditions) or less input (for instance a magnify filter) will have to override this method. In doing so, it should call its superclass' implementation as its first step. Note that imaging filters operate differently than the classes to this point in the class hierachy. Up till now, the base assumption has been that the largest possible region will be requested of the input.

This implementation of GenerateInputRequestedRegion() only processes the inputs that are a subclass of the ImageBase<InputImageDimension>. If an input is another type of DataObject (including an Image of a different dimension), they are skipped by this method. The subclasses of ImageToImageFilter are responsible for providing an implementation of GenerateInputRequestedRegion() when there are multiple inputs of different types.

See also:: ProcessObject::GenerateInputRequestedRegion(), ImageSource::GenerateInputRequestedRegion()

Reimplemented from itk::ProcessObject.

virtual void itk::ProcessObject::GenerateOutputInformation ( ) [protected, virtual, inherited]

Generate the information decribing the output data. The default implementation of this method will copy information from the input to the output. A filter may override this method if its output will have different information than its input. For instance, a filter that shrinks an image will need to provide an implementation for this method that changes the spacing of the pixels. Such filters should call their superclass' implementation of this method prior to changing the information values they need (i.e. GenerateOutputInformation() should call Superclass::GenerateOutputInformation() prior to changing the information.

virtual void itk::ProcessObject::GenerateOutputRequestedRegion ( DataObject * output ) [protected, virtual, inherited]

Given one output whose requested region has been set, how should the requested regions for the remaining outputs of the process object be set? By default, all the outputs are set to the same requested region. If a filter needs to produce different requested regions for each output, for instance an image processing filter producing several outputs at different resolutions, then that filter may override this method and set the requested regions appropriatedly.

Note that a filter producing multiple outputs of different types is required to override this method. The default implementation can only correctly handle multiple outputs of the same type.

Reimplemented in itk::MultiResolutionPyramidImageFilter< TInputImage, TOutputImage >, itk::RecursiveMultiResolutionPyramidImageFilter< TInputImage, TOutputImage >, itk::watershed::BoundaryResolver< TPixelType, TDimension >, itk::watershed::EquivalenceRelabeler< TScalarType, TImageDimension >, itk::watershed::Relabeler< TScalarType, TImageDimension >, itk::watershed::Segmenter< TInputImage >, itk::watershed::SegmentTreeGenerator< TScalarType >, itk::watershed::Relabeler< ScalarType, itkGetStaticConstMacro(ImageDimension)>, itk::watershed::Segmenter< InputImageType >, and itk::watershed::SegmentTreeGenerator< ScalarType >.

virtual const bool& itk::ProcessObject::GetAbortGenerateData ( ) [virtual, inherited]

Get the AbortGenerateData flag for the process object. Process objects may handle premature termination of execution in different ways.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

virtual const TTensorPixelType& itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GetBValue ( ) [virtual]

The BValue $ (s/mm^2) $ value used in normalizing the tensors to physically meaningful units. See equation (24) of the first reference for a description of how this is applied to the tensor estimation. Equation (1) of the same reference describes the physical significance.

Command* itk::Object::GetCommand ( unsigned long tag ) [inherited]

Get the command associated with the given tag. NOTE: This returns a pointer to a Command, but it is safe to asign this to a Command::Pointer. Since Command inherits from LightObject, at this point in the code, only a pointer or a reference to the Command can be used.

bool itk::Object::GetDebug ( ) const [inherited]

Get the value of the debug flag.

static bool itk::Object::GetGlobalWarningDisplay ( ) [static, inherited]

This is a global flag that controls whether any debug, warning or error messages are displayed.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

virtual GradientDirectionType itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GetGradientDirection ( unsigned int idx ) const [inline, virtual]

Return the gradient direction. idx is 0 based

Definition at line 213 of file itkDiffusionTensor3DReconstructionImageFilter.h.

References itkExceptionMacro.

const InputImageType* itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GetInput ( unsigned int idx ) [inherited]

Set/Get the image input of this process object.

Reimplemented from itk::ProcessObject.

const InputImageType* itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GetInput ( void ) [inherited]

Set/Get the image input of this process object.

const DataObject* itk::ProcessObject::GetInput ( unsigned int idx ) const [protected, inherited]

Method used internally for getting an input.

Reimplemented in itk::MeshToMeshFilter< TInputMesh, TOutputMesh >, and itk::MeshToMeshFilter< TInput, TOutput >.

DataObjectPointerArray& itk::ProcessObject::GetInputs ( ) [inline, inherited]

Return an array with all the inputs of this process object. This is useful for tracing back in the pipeline to construct graphs etc.

Definition at line 108 of file itkProcessObject.h.

MetaDataDictionary& itk::Object::GetMetaDataDictionary ( void ) [inherited]

Returns:: A reference to this objects MetaDataDictionary.

Warning:: This reference may be changed.

const MetaDataDictionary& itk::Object::GetMetaDataDictionary ( void ) const [inherited]

Returns:: A constant reference to this objects MetaDataDictionary.

virtual unsigned long itk::Object::GetMTime ( ) const [virtual, inherited]

Return this objects modified time.

Referenced by itk::SpatialObject< ::itk::GetMeshDimension< TMesh >::PointDimension >::GetObjectMTime().

MultiThreader* itk::ProcessObject::GetMultiThreader ( ) [inline, inherited]

Return the multithreader used by this class.

Definition at line 284 of file itkProcessObject.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

virtual const char* itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GetNameOfClass ( ) const [virtual]

Runtime information support.

Reimplemented from itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 >, Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

DataObjectPointerArraySizeType itk::ProcessObject::GetNumberOfInputs ( ) const [inline, inherited]

Get the size of the input vector. This is merely the size of the input vector, not the number of inputs that have valid DataObject's assigned. Use GetNumberOfValidRequiredInputs() to determine how many inputs are non-null.

Definition at line 118 of file itkProcessObject.h.

DataObjectPointerArraySizeType itk::ProcessObject::GetNumberOfOutputs ( ) const [inline, inherited]

Return an array with all the outputs of this process object. This is useful for tracing forward in the pipeline to contruct graphs etc.

Definition at line 135 of file itkProcessObject.h.

virtual const unsigned int& itk::ProcessObject::GetNumberOfRequiredInputs ( ) [protected, virtual, inherited]

Protected methods for setting inputs. Subclasses make use of them for setting input.

virtual const unsigned int& itk::ProcessObject::GetNumberOfRequiredOutputs ( ) [protected, virtual, inherited]

Protected methods for setting outputs. Subclasses make use of them for getting output.

virtual const int& itk::ProcessObject::GetNumberOfThreads ( ) [virtual, inherited]

Get/Set the number of threads to create when executing.

Referenced by itk::BSplineScatteredDataPointSetToImageFilter< TInputPointSet, TOutputImage >::SplitRequestedRegion().

virtual DataObjectPointerArraySizeType itk::ProcessObject::GetNumberOfValidRequiredInputs ( ) const [virtual, inherited]

Get the number of valid inputs. This is the number of non-null entries in the input vector in the first NumberOfRequiredInputs slots. This method is used to determine whether the necessary required inputs have been set. Subclasses of ProcessObject may override this implementation if the required inputs are not the first slots in input vector.

Reimplemented in itk::MultiResolutionPDEDeformableRegistration< TFixedImage, TMovingImage, TDeformationField, TRealType >, and itk::PDEDeformableRegistrationFilter< TFixedImage, TMovingImage, TDeformationField >.

const DataObject* itk::ProcessObject::GetOutput ( unsigned int idx ) const [protected, inherited]

Method used internally for getting an output.

OutputImageType* itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GetOutput ( void ) [inherited]

Get the output data of this process object. The output of this function is not valid until an appropriate Update() method has been called, either explicitly or implicitly. Both the filter itself and the data object have Update() methods, and both methods update the data. Here are three ways to use GetOutput() and make sure the data is valid. In these examples, image is a pointer to some Image object, and the particular ProcessObjects involved are filters. The same examples apply to non-image (e.g. Mesh) data as well.

   anotherFilter->SetInput( someFilter->GetOutput() );
   anotherFilter->Update();

In this situation, someFilter and anotherFilter are said to constitute a pipeline.

   image = someFilter->GetOutput();
   image->Update();

   someFilter->Update();
   image = someFilter->GetOutput();

(In the above example, the two lines of code can be in either order.)

Note that Update() is not called automatically except within a pipeline as in the first example. When streaming (using a StreamingImageFilter) is activated, it may be more efficient to use a pipeline than to call Update() once for each filter in turn.

For an image, the data generated is for the requested Region, which can be set using ImageBase::SetRequestedRegion(). By default, the largest possible region is requested.

For Filters which have multiple outputs of different types, the GetOutput() method assumes the output is of OutputImageType. For the GetOutput(unsigned int) method, a dynamic_cast is performed incase the filter has outputs of different types or image types. Derived classes should have names get methods for these outputs.

OutputImageType* itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GetOutput ( unsigned int idx ) [inherited]

Get the output data of this process object. The output of this function is not valid until an appropriate Update() method has been called, either explicitly or implicitly. Both the filter itself and the data object have Update() methods, and both methods update the data. Here are three ways to use GetOutput() and make sure the data is valid. In these examples, image is a pointer to some Image object, and the particular ProcessObjects involved are filters. The same examples apply to non-image (e.g. Mesh) data as well.

   anotherFilter->SetInput( someFilter->GetOutput() );
   anotherFilter->Update();

In this situation, someFilter and anotherFilter are said to constitute a pipeline.

   image = someFilter->GetOutput();
   image->Update();

   someFilter->Update();
   image = someFilter->GetOutput();

(In the above example, the two lines of code can be in either order.)

Note that Update() is not called automatically except within a pipeline as in the first example. When streaming (using a StreamingImageFilter) is activated, it may be more efficient to use a pipeline than to call Update() once for each filter in turn.

For an image, the data generated is for the requested Region, which can be set using ImageBase::SetRequestedRegion(). By default, the largest possible region is requested.

For Filters which have multiple outputs of different types, the GetOutput() method assumes the output is of OutputImageType. For the GetOutput(unsigned int) method, a dynamic_cast is performed incase the filter has outputs of different types or image types. Derived classes should have names get methods for these outputs.

Reimplemented from itk::ProcessObject.

DataObjectPointerArray& itk::ProcessObject::GetOutputs ( ) [inline, inherited]

Return an array with all the outputs of this process object. This is useful for tracing forward in the pipeline to contruct graphs etc.

Definition at line 133 of file itkProcessObject.h.

virtual const float& itk::ProcessObject::GetProgress ( ) [virtual, inherited]

Get the execution progress of a process object. The progress is a floating number in [0,1] with 0 meaning no progress and 1 meaning the filter has completed execution.

Referenced by itk::XMLFilterWatcher::ShowProgress().

virtual int itk::LightObject::GetReferenceCount ( ) const [inline, virtual, inherited]

Gets the reference count on this object.

Definition at line 106 of file itkLightObject.h.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

virtual ReferenceImageType* itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GetReferenceImage ( ) [inline, virtual]

Get reference image

Definition at line 209 of file itkDiffusionTensor3DReconstructionImageFilter.h.

References itk::ProcessObject::GetInput().

virtual const bool& itk::ProcessObject::GetReleaseDataBeforeUpdateFlag ( ) [virtual, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released/reallocated during an Update(). In limited memory scenarios, a user may want to force the elements of a pipeline to release any bulk data that is going to be regenerated anyway during an Update() in order to control peak memory allocation. Note that this flag is different from the ReleaseDataFlag. ReleaseDataFlag manages the deallocation of a ProcessObject's bulk output data once that data has been consumed by a downstream ProcessObject. The ReleaseDataBeforeUpdateFlag manages the deallocation/reallocation of bulk data during a pipeline update to control peak memory utilization. Default value is on.

virtual bool itk::ProcessObject::GetReleaseDataFlag ( ) const [virtual, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released after being used by a downstream ProcessObject. Default value is off. Another options for controlling memory utilization is the ReleaseDataBeforeUpdateFlag.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

virtual ReferencePixelType itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::GetThreshold ( ) const [virtual]

Threshold on the reference image data. The output tensor will be a null tensor for pixels in the reference image that have a value less than this threshold.

static void itk::Object::GlobalWarningDisplayOff ( ) [inline, static, inherited]

This is a global flag that controls whether any debug, warning or error messages are displayed.

Definition at line 100 of file itkObject.h.

References itk::Object::SetGlobalWarningDisplay().

static void itk::Object::GlobalWarningDisplayOn ( ) [inline, static, inherited]

This is a global flag that controls whether any debug, warning or error messages are displayed.

Definition at line 98 of file itkObject.h.

References itk::Object::SetGlobalWarningDisplay().

virtual void itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GraftNthOutput	(	unsigned int	idx,
		DataObject *	output
	)			`[virtual, inherited]`

Graft the specified data object onto this ProcessObject's idx'th output. This is similar to the GraftOutput method except it allows you to specify which output is affected. The specified index must be a valid output number (less than ProcessObject::GetNumberOfOutputs()). See the GraftOutput for general usage information.

virtual void itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::GraftOutput ( DataObject * output ) [virtual, inherited]

Graft the specified DataObject onto this ProcessObject's output. This method grabs a handle to the specified DataObject's bulk data to used as its output's own bulk data. It also copies the region ivars (RequestedRegion, BufferedRegion, LargestPossibleRegion) and meta-data (Spacing, Origin) from the specified data object into this filter's output data object. Most importantly, however, it leaves the Source ivar untouched so the original pipeline routing is intact. This method is used when a process object is implemented using a mini-pipeline which is defined in its GenerateData() method. The usage is:

    // setup the mini-pipeline to process the input to this filter
    firstFilterInMiniPipeline->SetInput( this->GetInput() );

    // setup the mini-pipeline to calculate the correct regions
    // and write to the appropriate bulk data block
    lastFilterInMiniPipeline->GraftOutput( this->GetOutput() );

    // execute the mini-pipeline
    lastFilterInMiniPipeline->Update();

    // graft the mini-pipeline output back onto this filter's output.
    // this is needed to get the appropriate regions passed back.
    this->GraftOutput( lastFilterInMiniPipeline->GetOutput() );

For proper pipeline execution, a filter using a mini-pipeline must implement the GenerateInputRequestedRegion(), GenerateOutputRequestedRegion(), GenerateOutputInformation() and EnlargeOutputRequestedRegion() methods as necessary to reflect how the mini-pipeline will execute (in other words, the outer filter's pipeline mechanism must be consistent with what the mini-pipeline will do).

bool itk::Object::HasObserver ( const EventObject & event ) const [inherited]

Return true if an observer is registered for this event.

void itk::Object::InvokeEvent ( const EventObject & ) [inherited]

Call Execute on all the Commands observing this event id.

void itk::Object::InvokeEvent ( const EventObject & ) const [inherited]

Call Execute on all the Commands observing this event id. The actions triggered by this call doesn't modify this object.

virtual DataObjectPointer itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::MakeOutput ( unsigned int idx ) [virtual, inherited]

Make a DataObject of the correct type to used as the specified output. Every ProcessObject subclass must be able to create a DataObject that can be used as a specified output. This method is automatically called when DataObject::DisconnectPipeline() is called. DataObject::DisconnectPipeline, disconnects a data object from being an output of its current source. When the data object is disconnected, the ProcessObject needs to construct a replacement output data object so that the ProcessObject is in a valid state. So DataObject::DisconnectPipeline eventually calls ProcessObject::MakeOutput. Note that MakeOutput always returns a SmartPointer to a DataObject. If a subclass of ImageSource has multiple outputs of different types, then that class must provide an implementation of MakeOutput().

Reimplemented from itk::ProcessObject.

virtual void itk::Object::Modified ( ) const [virtual, inherited]

Update the modification time for this object. Many filters rely on the modification time to determine if they need to recompute their data.

Referenced by itk::NarrowBandImageFilterBase< TInputImage, Image< TOutputPixelType,::itk::GetImageDimension< TInputImage >::ImageDimension > >::InsertNarrowBandNode(), itk::MatrixOffsetTransformBase< TScalarType, 3, 3 >::SetCenter(), itk::MatrixOffsetTransformBase< TScalarType, 3, 3 >::SetMatrix(), itk::NarrowBandImageFilterBase< TInputImage, Image< TOutputPixelType,::itk::GetImageDimension< TInputImage >::ImageDimension > >::SetNarrowBand(), itk::NarrowBandImageFilterBase< TInputImage, Image< TOutputPixelType,::itk::GetImageDimension< TInputImage >::ImageDimension > >::SetNarrowBandInnerRadius(), itk::NarrowBandImageFilterBase< TInputImage, Image< TOutputPixelType,::itk::GetImageDimension< TInputImage >::ImageDimension > >::SetNarrowBandTotalRadius(), itk::MatrixOffsetTransformBase< TScalarType, 3, 3 >::SetOffset(), itk::ThresholdLabelerImageFilter< TInputImage, TOutputImage >::SetRealThresholds(), itk::ThresholdLabelerImageFilter< TInputImage, TOutputImage >::SetThresholds(), itk::Statistics::GoodnessOfFitFunctionBase< TInputHistogram >::SetTotalObservedScale(), and itk::MatrixOffsetTransformBase< TScalarType, 3, 3 >::SetTranslation().

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

static Pointer itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::New ( ) [static]

Method for creation through the object factory.

Reimplemented from itk::Object.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::PopBackInput ( ) [virtual, inherited]

Push/Pop the input of this process object. These methods allow a filter to model its input vector as a queue or stack. These routines may not be appropriate for all filters, especially filters with different types of inputs. These routines follow the semantics of STL.

The routines are useful for applications that need to process "rolling" sets of images. For instance, if an application has 10 images and they need to run a filter on images 1, 2, 3, 4, then run the filter on images 2, 3, 4, 5, then run the filter on images 3, 4, 5, 6, the application can accomplish this by popping an input off the front of the input list and push a new image onto the back of input list. Again, this only makes sense for filters that single type of input.

Other uses are also possible. For a single input filter, pushing and popping inputs allow the application to temporarily replace an input to a filter.

Reimplemented from itk::ProcessObject.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::PopFrontInput ( ) [virtual, inherited]

Push/Pop the input of this process object. These methods allow a filter to model its input vector as a queue or stack. These routines may not be appropriate for all filters, especially filters with different types of inputs. These routines follow the semantics of STL.

The routines are useful for applications that need to process "rolling" sets of images. For instance, if an application has 10 images and they need to run a filter on images 1, 2, 3, 4, then run the filter on images 2, 3, 4, 5, then run the filter on images 3, 4, 5, 6, the application can accomplish this by popping an input off the front of the input list and push a new image onto the back of input list. Again, this only makes sense for filters that single type of input.

Other uses are also possible. For a single input filter, pushing and popping inputs allow the application to temporarily replace an input to a filter.

Reimplemented from itk::ProcessObject.

virtual void itk::ProcessObject::PrepareOutputs ( ) [virtual, inherited]

An opportunity to deallocate a ProcessObject's bulk data storage. Some filters may wish to reuse existing bulk data storage to avoid unnecessary deallocation/allocation sequences. The default implementation calls Initialize() on each output. DataObject::Initialize() frees its bulk data by default.

Reimplemented in itk::WatershedImageFilter< TInputImage >.

void itk::LightObject::Print	(	std::ostream &	os,
		Indent	indent = `0`
	)			const `[inherited]`

Cause the object to print itself out.

Referenced by itk::WeakPointer< ProcessObject >::Print().

virtual void itk::LightObject::PrintHeader	(	std::ostream &	os,
		Indent	indent
	)			const `[protected, virtual, inherited]`

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.

bool itk::Object::PrintObservers	(	std::ostream &	os,
		Indent	indent
	)			const `[protected, inherited]`

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::PrintSelf	(	std::ostream &	os,
		Indent	indent
	)			const `[protected, 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 itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 >, Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

virtual void itk::LightObject::PrintTrailer	(	std::ostream &	os,
		Indent	indent
	)			const `[protected, virtual, inherited]`

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.

virtual void itk::ProcessObject::PropagateRequestedRegion ( DataObject * output ) [virtual, inherited]

Send the requested region information back up the pipeline (to the filters that preceed this one).

Reimplemented in itk::StreamingImageFilter< TInputImage, TOutputImage >, and itk::VTKImageImport< TOutputImage >.

virtual void itk::ProcessObject::PropagateResetPipeline ( ) [protected, virtual, inherited]

Called to allocate the input array. Copies old inputs. Propagate a call to ResetPipeline() up the pipeline. Called only from DataObject.

void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::PushBackInput ( const DataObject * input ) [inline, protected, virtual, inherited]

PushBackInput(), PushFronInput() in the public section force the input to be the type expected by an ImageToImageFilter. However, these methods end of "hiding" the versions from the superclass (ProcessObject) whose arguments are DataObjects. Here, we re-expose the versions from ProcessObject to avoid warnings about hiding methods from the superclass.

Reimplemented from itk::ProcessObject.

Definition at line 251 of file itkImageToImageFilter.h.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::PushBackInput ( const InputImageType * image ) [virtual, inherited]

Push/Pop the input of this process object. These methods allow a filter to model its input vector as a queue or stack. These routines may not be appropriate for all filters, especially filters with different types of inputs. These routines follow the semantics of STL.

The routines are useful for applications that need to process "rolling" sets of images. For instance, if an application has 10 images and they need to run a filter on images 1, 2, 3, 4, then run the filter on images 2, 3, 4, 5, then run the filter on images 3, 4, 5, 6, the application can accomplish this by popping an input off the front of the input list and push a new image onto the back of input list. Again, this only makes sense for filters that single type of input.

Other uses are also possible. For a single input filter, pushing and popping inputs allow the application to temporarily replace an input to a filter.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::PushFrontInput ( const InputImageType * image ) [virtual, inherited]

Push/Pop the input of this process object. These methods allow a filter to model its input vector as a queue or stack. These routines may not be appropriate for all filters, especially filters with different types of inputs. These routines follow the semantics of STL.

The routines are useful for applications that need to process "rolling" sets of images. For instance, if an application has 10 images and they need to run a filter on images 1, 2, 3, 4, then run the filter on images 2, 3, 4, 5, then run the filter on images 3, 4, 5, 6, the application can accomplish this by popping an input off the front of the input list and push a new image onto the back of input list. Again, this only makes sense for filters that single type of input.

Other uses are also possible. For a single input filter, pushing and popping inputs allow the application to temporarily replace an input to a filter.

void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::PushFrontInput ( const DataObject * input ) [inline, protected, virtual, inherited]

PushBackInput(), PushFronInput() in the public section force the input to be the type expected by an ImageToImageFilter. However, these methods end of "hiding" the versions from the superclass (ProcessObject) whose arguments are DataObjects. Here, we re-expose the versions from ProcessObject to avoid warnings about hiding methods from the superclass.

Reimplemented from itk::ProcessObject.

Definition at line 253 of file itkImageToImageFilter.h.

virtual void itk::Object::Register ( ) const [virtual, inherited]

Increase the reference count (mark as used by another object).

Reimplemented from itk::LightObject.

virtual void itk::ProcessObject::ReleaseDataBeforeUpdateFlagOff ( ) [virtual, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released/reallocated during an Update(). In limited memory scenarios, a user may want to force the elements of a pipeline to release any bulk data that is going to be regenerated anyway during an Update() in order to control peak memory allocation. Note that this flag is different from the ReleaseDataFlag. ReleaseDataFlag manages the deallocation of a ProcessObject's bulk output data once that data has been consumed by a downstream ProcessObject. The ReleaseDataBeforeUpdateFlag manages the deallocation/reallocation of bulk data during a pipeline update to control peak memory utilization. Default value is on.

virtual void itk::ProcessObject::ReleaseDataBeforeUpdateFlagOn ( ) [virtual, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released/reallocated during an Update(). In limited memory scenarios, a user may want to force the elements of a pipeline to release any bulk data that is going to be regenerated anyway during an Update() in order to control peak memory allocation. Note that this flag is different from the ReleaseDataFlag. ReleaseDataFlag manages the deallocation of a ProcessObject's bulk output data once that data has been consumed by a downstream ProcessObject. The ReleaseDataBeforeUpdateFlag manages the deallocation/reallocation of bulk data during a pipeline update to control peak memory utilization. Default value is on.

void itk::ProcessObject::ReleaseDataFlagOff ( ) [inline, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released after being used by a downstream ProcessObject. Default value is off. Another options for controlling memory utilization is the ReleaseDataBeforeUpdateFlag.

Definition at line 257 of file itkProcessObject.h.

void itk::ProcessObject::ReleaseDataFlagOn ( ) [inline, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released after being used by a downstream ProcessObject. Default value is off. Another options for controlling memory utilization is the ReleaseDataBeforeUpdateFlag.

Definition at line 256 of file itkProcessObject.h.

virtual void itk::ProcessObject::ReleaseInputs ( ) [protected, virtual, inherited]

A filter may need to release its input's bulk data after it has finished calculating a new output. The filter may need to release the inputs because the user has turned on the ReleaseDataFlag or it may need to release the inputs because the filter is an "in place" filter and it has overwritten its input with its output data. The implementation here simply checks the ReleaseDataFlag of the inputs. InPlaceImageFilter overrides this method so release the input it has overwritten.

See also:: InPlaceImageFilter::ReleaseInputs()

void itk::Object::RemoveAllObservers ( ) [inherited]

Remove all observers .

virtual void itk::ProcessObject::RemoveInput ( DataObject * input ) [protected, virtual, inherited]

Protected methods for setting inputs. Subclasses make use of them for setting input.

void itk::Object::RemoveObserver ( unsigned long tag ) [inherited]

Remove the observer with this tag value.

virtual void itk::ProcessObject::RemoveOutput ( DataObject * output ) [protected, virtual, inherited]

Protected methods for setting outputs. Subclasses make use of them for getting output.

virtual void itk::ProcessObject::ResetPipeline ( ) [virtual, inherited]

Reset the pipeline. If an exception is thrown during an Update(), the pipeline may be in an inconsistent state. This method clears the internal state of the pipeline so Update() can be called.

virtual void itk::ProcessObject::RestoreInputReleaseDataFlags ( ) [protected, virtual, inherited]

Restore the cached input ReleaseDataFlags.

virtual void itk::ProcessObject::SetAbortGenerateData ( bool _arg ) [virtual, inherited]

Set the AbortGenerateData flag for the process object. Process objects may handle premature termination of execution in different ways.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

virtual void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::SetBValue ( TTensorPixelType _arg ) [virtual]

The BValue $ (s/mm^2) $ value used in normalizing the tensors to physically meaningful units. See equation (24) of the first reference for a description of how this is applied to the tensor estimation. Equation (1) of the same reference describes the physical significance.

void itk::Object::SetDebug ( bool debugFlag ) const [inherited]

Set the value of the debug flag. A non-zero value turns debugging on.

static void itk::Object::SetGlobalWarningDisplay ( bool flag ) [static, inherited]

This is a global flag that controls whether any debug, warning or error messages are displayed.

Referenced by itk::Object::GlobalWarningDisplayOff(), and itk::Object::GlobalWarningDisplayOn().

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::SetGradientImage	(	GradientDirectionContainerType *	,
		const GradientImagesType *	image
	)

Another set method to add a gradient directions and its corresponding image. The image here is a VectorImage. The user is expected to pass the gradient directions in a container. The ith element of the container corresponds to the gradient direction of the ith component image the VectorImage. For the baseline image, a vector of all zeros should be set.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::SetInput ( const InputImageType * image ) [virtual, inherited]

Set/Get the image input of this process object.

virtual void itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::SetInput	(	unsigned	int,
		const Image< TReferenceImagePixelType, 3 > *	image
	)			`[virtual, inherited]`

Set/Get the image input of this process object.

void itk::Object::SetMetaDataDictionary ( const MetaDataDictionary & rhs ) [inherited]

Returns:: Set the MetaDataDictionary

virtual void itk::ProcessObject::SetNthInput	(	unsigned int	num,
		DataObject *	input
	)			`[protected, virtual, inherited]`

Protected methods for setting inputs. Subclasses make use of them for setting input.

Reimplemented in itk::ImageToVectorImageFilter< TInputImage >.

Referenced by itk::watershed::BoundaryResolver< TPixelType, TDimension >::SetBoundaryA(), itk::watershed::BoundaryResolver< TPixelType, TDimension >::SetBoundaryB(), itk::watershed::EquivalenceRelabeler< TScalarType, TImageDimension >::SetEquivalencyTable(), itk::SegmentationLevelSetImageFilter< TInputImage, TFeatureImage, TOutputPixelType >::SetFeatureImage(), itk::NarrowBandLevelSetImageFilter< TInputImage, TFeatureImage, TOutputPixelType, Image< TOutputPixelType,::itk::GetImageDimension< TInputImage >::ImageDimension > >::SetFeatureImage(), itk::WatershedImageFilter< TInputImage >::SetInput(), itk::watershed::SegmentTreeGenerator< ScalarType >::SetInputEquivalencyTable(), itk::watershed::Segmenter< InputImageType >::SetInputImage(), itk::watershed::Relabeler< ScalarType, itkGetStaticConstMacro(ImageDimension)>::SetInputImage(), itk::watershed::EquivalenceRelabeler< TScalarType, TImageDimension >::SetInputImage(), itk::watershed::SegmentTreeGenerator< ScalarType >::SetInputSegmentTable(), itk::watershed::Relabeler< ScalarType, itkGetStaticConstMacro(ImageDimension)>::SetInputSegmentTree(), itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::SetReferenceImage(), and itk::ChangeInformationImageFilter< TInputImage >::SetReferenceImage().

virtual void itk::ProcessObject::SetNthOutput	(	unsigned int	num,
		DataObject *	output
	)			`[protected, virtual, inherited]`

Protected methods for setting outputs. Subclasses make use of them for getting output.

Referenced by itk::watershed::BoundaryResolver< TPixelType, TDimension >::BoundaryResolver(), itk::watershed::EquivalenceRelabeler< TScalarType, TImageDimension >::EquivalenceRelabeler(), itk::watershed::Segmenter< InputImageType >::SetBoundary(), itk::watershed::BoundaryResolver< TPixelType, TDimension >::SetEquivalencyTable(), itk::watershed::Segmenter< InputImageType >::SetOutputImage(), itk::watershed::Relabeler< ScalarType, itkGetStaticConstMacro(ImageDimension)>::SetOutputImage(), itk::watershed::EquivalenceRelabeler< TScalarType, TImageDimension >::SetOutputImage(), and itk::watershed::Segmenter< InputImageType >::SetSegmentTable().

void itk::ProcessObject::SetNumberOfInputs ( unsigned int num ) [protected, inherited]

Called to allocate the input array. Copies old inputs.

void itk::ProcessObject::SetNumberOfOutputs ( unsigned int num ) [protected, inherited]

Called to allocate the output array. Copies old outputs.

virtual void itk::ProcessObject::SetNumberOfRequiredInputs ( unsigned int _arg ) [protected, virtual, inherited]

Protected methods for setting inputs. Subclasses make use of them for setting input.

virtual void itk::ProcessObject::SetNumberOfRequiredOutputs ( unsigned int _arg ) [protected, virtual, inherited]

Protected methods for setting outputs. Subclasses make use of them for getting output.

virtual void itk::ProcessObject::SetNumberOfThreads ( int _arg ) [virtual, inherited]

Get/Set the number of threads to create when executing.

virtual void itk::ProcessObject::SetProgress ( float _arg ) [virtual, inherited]

Set the execution progress of a process object. The progress is a floating number in [0,1] with 0 meaning no progress and 1 meaning the filter has completed execution. The ProgressEvent is NOT invoked.

virtual void itk::Object::SetReferenceCount ( int ) [virtual, inherited]

Sets the reference count (use with care)

Reimplemented from itk::LightObject.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::SetReferenceImage ( ReferenceImageType * referenceImage ) [inline]

Set method to set the reference image.

Definition at line 195 of file itkDiffusionTensor3DReconstructionImageFilter.h.

References itkExceptionMacro, and itk::ProcessObject::SetNthInput().

virtual void itk::ProcessObject::SetReleaseDataBeforeUpdateFlag ( bool _arg ) [virtual, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released/reallocated during an Update(). In limited memory scenarios, a user may want to force the elements of a pipeline to release any bulk data that is going to be regenerated anyway during an Update() in order to control peak memory allocation. Note that this flag is different from the ReleaseDataFlag. ReleaseDataFlag manages the deallocation of a ProcessObject's bulk output data once that data has been consumed by a downstream ProcessObject. The ReleaseDataBeforeUpdateFlag manages the deallocation/reallocation of bulk data during a pipeline update to control peak memory utilization. Default value is on.

virtual void itk::ProcessObject::SetReleaseDataFlag ( bool flag ) [virtual, inherited]

Turn on/off the flags to control whether the bulk data belonging to the outputs of this ProcessObject are released after being used by a downstream ProcessObject. Default value is off. Another options for controlling memory utilization is the ReleaseDataBeforeUpdateFlag.

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

virtual void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::SetThreshold ( ReferencePixelType _arg ) [virtual]

Threshold on the reference image data. The output tensor will be a null tensor for pixels in the reference image that have a value less than this threshold.

virtual int itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::SplitRequestedRegion	(	int	i,
		int	num,
		OutputImageRegionType &	splitRegion
	)			`[protected, virtual, inherited]`

Split the output's RequestedRegion into "num" pieces, returning region "i" as "splitRegion". This method is called "num" times. The regions must not overlap. The method returns the number of pieces that the routine is capable of splitting the output RequestedRegion, i.e. return value is less than or equal to "num".

template<class TReferenceImagePixelType , class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>

void itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >::ThreadedGenerateData	(	const OutputImageRegionType &	outputRegionForThread,
		int
	)			`[protected]`

virtual void itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::ThreadedGenerateData	(	const OutputImageRegionType &	outputRegionForThread,
		int	threadId
	)			`[protected, virtual, inherited]`

If an imaging filter can be implemented as a multithreaded algorithm, the filter will provide an implementation of ThreadedGenerateData(). This superclass will automatically split the output image into a number of pieces, spawn multiple threads, and call ThreadedGenerateData() in each thread. Prior to spawning threads, the BeforeThreadedGenerateData() method is called. After all the threads have completed, the AfterThreadedGenerateData() method is called. If an image processing filter cannot support threading, that filter should provide an implementation of the GenerateData() method instead of providing an implementation of ThreadedGenerateData(). If a filter provides a GenerateData() method as its implementation, then the filter is responsible for allocating the output data. If a filter provides a ThreadedGenerateData() method as its implementation, then the output memory will allocated automatically by this superclass. The ThreadedGenerateData() method should only produce the output specified by "outputThreadRegion" parameter. ThreadedGenerateData() cannot write to any other portion of the output image (as this is responsibility of a different thread).

See also:: GenerateData(), SplitRequestedRegion()

static ITK_THREAD_RETURN_TYPE itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::ThreaderCallback ( void * arg ) [static, protected, inherited]

Static function used as a "callback" by the MultiThreader. The threading library will call this routine for each thread, which will delegate the control to ThreadedGenerateData().

virtual void itk::Object::UnRegister ( ) const [virtual, inherited]

Decrease the reference count (release by another object).

Reimplemented from itk::LightObject.

virtual void itk::ProcessObject::Update ( ) [virtual, inherited]

Bring this filter up-to-date. Update() checks modified times against last execution times, and re-executes objects if necessary. A side effect of this method is that the whole pipeline may execute in order to bring this filter up-to-date. This method updates the currently prescribed requested region. If no requested region has been set on the output, then the requested region will be set to the largest possible region. Once the requested region is set, Update() will make sure the specified requested region is up-to-date. This is a confusing side effect to users who are just calling Update() on a filter. A first call to Update() will cause the largest possible region to be updated. A second call to Update() will update that same region. If a modification to the upstream pipeline cause a filter to have a different largest possible region, this second call to Update() will not cause the output requested region to be reset to the new largest possible region. Instead, the output requested region will be the same as the last time Update() was called. To have a filter always to produce its largest possible region, users should call UpdateLargestPossibleRegion() instead.

Reimplemented in itk::CoreAtomImageToUnaryCorrespondenceMatrixProcess< TSourceImage >, itk::MedialNodePairCorrespondenceProcess< TSourceImage >, itk::MedialNodeTripletCorrespondenceProcess< TSourceImage >, itk::CoreAtomImageToDistanceMatrixProcess< TSourceImage >, itk::ImageFileWriter< TInputImage >, and itk::ImageSeriesWriter< TInputImage, TOutputImage >.

virtual void itk::ProcessObject::UpdateLargestPossibleRegion ( ) [virtual, inherited]

Like Update(), but sets the output requested region to the largest possible region for the output. This is the method users should call if they want the entire dataset to be processed. If a user wants to update the same output region as a previous call to Update() or a previous call to UpdateLargestPossibleRegion(), then they should call the method Update().

virtual void itk::ProcessObject::UpdateOutputData ( DataObject * output ) [virtual, inherited]

Actually generate new output

Reimplemented in itk::StreamingImageFilter< TInputImage, TOutputImage >.

virtual void itk::ProcessObject::UpdateOutputInformation ( ) [virtual, inherited]

Update the information decribing the output data. This method transverses up the pipeline gathering modified time information. On the way back down the pipeline, this method calls GenerateOutputInformation() to set any necessary information about the output data objects. For instance, a filter that shrinks an image will need to provide an implementation for GenerateOutputInformation() that changes the spacing of the pixels. Such filters should call their superclass' implementation of GenerateOutputInformation prior to changing the information values they need (i.e. GenerateOutputInformation() should call Superclass::GenerateOutputInformation() prior to changing the information.

Reimplemented in itk::watershed::Segmenter< TInputImage >, itk::VTKImageImport< TOutputImage >, and itk::watershed::Segmenter< InputImageType >.

void itk::ProcessObject::UpdateProgress ( float amount ) [inherited]

Update the progress of the process object.

Sets the Progress ivar to amount and invokes any observers for the ProgressEvent. The parameter amount should be in [0,1] and is the cumulative (not incremental) progress.

Member Data Documentation

const unsigned int itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::InputImageDimension [static, inherited]

ImageDimension constants

Definition at line 90 of file itkImageToImageFilter.h.

TimeStamp itk::ProcessObject::m_OutputInformationMTime [protected, inherited]

Time when GenerateOutputInformation was last called.

Definition at line 431 of file itkProcessObject.h.

InternalReferenceCountType itk::LightObject::m_ReferenceCount [mutable, protected, inherited]

Number of uses of this object by other objects.

Definition at line 144 of file itkLightObject.h.

SimpleFastMutexLock itk::LightObject::m_ReferenceCountLock [mutable, protected, inherited]

Mutex lock to protect modification to the reference count

Definition at line 147 of file itkLightObject.h.

bool itk::ProcessObject::m_Updating [protected, inherited]

These ivars are made protected so filters like itkStreamingImageFilter can access them directly. This flag indicates when the pipeline is executing. It prevents infinite recursion when pipelines have loops.

Definition at line 428 of file itkProcessObject.h.

const unsigned int itk::ImageToImageFilter< Image< TReferenceImagePixelType, 3 > , Image< DiffusionTensor3D< TTensorPixelType >, 3 > >::OutputImageDimension [static, inherited]

ImageDimension constants

Reimplemented from itk::ImageSource< Image< DiffusionTensor3D< TTensorPixelType >, 3 > >.

Definition at line 92 of file itkImageToImageFilter.h.

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

itkDiffusionTensor3DReconstructionImageFilter.h

itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType > Class Template Reference [Multithreaded Filters, Objects Related to Tensor Images]

Public Types

Public Member Functions

Static Public Member Functions

Static Public Attributes

Protected Types

Protected Member Functions

Static Protected Member Functions

Protected Attributes

Detailed Description

template<class TReferenceImagePixelType, class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double> class itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >

Member Typedef Documentation

Member Enumeration Documentation

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation

itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType > Class Template Reference
[Multithreaded Filters, Objects Related to Tensor Images]

template<class TReferenceImagePixelType, class TGradientImagePixelType = TReferenceImagePixelType, class TTensorPixelType = double>
class itk::DiffusionTensor3DReconstructionImageFilter< TReferenceImagePixelType, TGradientImagePixelType, TTensorPixelType >