Modify an image's geometric meta-data, changing its "physical" extent. More...

#include <sitkTransformGeometryImageFilter.h>

Inheritance diagram for itk::simple::TransformGeometryImageFilter:

Collaboration diagram for itk::simple::TransformGeometryImageFilter:

Public Types
using	PixelIDTypeList = NonLabelPixelIDTypeList

using	Self = TransformGeometryImageFilter

Public Types inherited from itk::simple::ImageFilter
using	Self = ImageFilter

Public Types inherited from itk::simple::ProcessObject
using	Self = ProcessObject

Public Member Functions
Image	Execute (const Image &image, const Transform &transform)

Image	Execute (Image &&image, const Transform &transform)

std::string	GetName () const

std::string	ToString () const

	TransformGeometryImageFilter ()

virtual	~TransformGeometryImageFilter ()

Public Member Functions inherited from itk::simple::ImageFilter
	ImageFilter ()

virtual	~ImageFilter ()=0

Public Member Functions inherited from itk::simple::ProcessObject
virtual void	Abort ()

virtual int	AddCommand (itk::simple::EventEnum event, const std::function< void()> &func)
	Directly add a callback to observe an event. More...

virtual int	AddCommand (itk::simple::EventEnum event, itk::simple::Command &cmd)
	Add a Command Object to observer the event. More...

virtual float	GetProgress () const
	An Active Measurement of the progress of execution. More...

virtual bool	HasCommand (itk::simple::EventEnum event) const
	Query of this object has any registered commands for event. More...

	ProcessObject ()

virtual void	RemoveAllCommands ()
	Remove all registered commands. More...

virtual	~ProcessObject ()

virtual void	DebugOn ()

virtual void	DebugOff ()

virtual bool	GetDebug () const

virtual void	SetDebug (bool debugFlag)

virtual void	SetNumberOfThreads (unsigned int n)

virtual unsigned int	GetNumberOfThreads () const

virtual void	SetNumberOfWorkUnits (unsigned int n)

virtual unsigned int	GetNumberOfWorkUnits () const

Private Types
using	MemberFunctionType = Image(Self::)(const Image image, const Transform *transform)

Private Member Functions
template<class TImageType >
Image	ExecuteInternal (const Image image, const Transform transform)

Private Attributes
bool	m_InPlace {false}

std::unique_ptr< detail::MemberFunctionFactory< MemberFunctionType > >	m_MemberFactory

Friends
struct	detail::MemberFunctionAddressor< MemberFunctionType >

Additional Inherited Members
Static Public Member Functions inherited from itk::simple::ProcessObject
static bool	GetGlobalDefaultDebug ()

static void	GlobalDefaultDebugOff ()

static void	GlobalDefaultDebugOn ()

static void	SetGlobalDefaultDebug (bool debugFlag)

static void	GlobalWarningDisplayOn ()

static void	GlobalWarningDisplayOff ()

static void	SetGlobalWarningDisplay (bool flag)

static bool	GetGlobalWarningDisplay ()

static double	GetGlobalDefaultCoordinateTolerance ()
	Access the global tolerance to determine congruent spaces. More...

static void	SetGlobalDefaultCoordinateTolerance (double)
	Access the global tolerance to determine congruent spaces. More...

static double	GetGlobalDefaultDirectionTolerance ()
	Access the global tolerance to determine congruent spaces. More...

static void	SetGlobalDefaultDirectionTolerance (double)
	Access the global tolerance to determine congruent spaces. More...

static bool	SetGlobalDefaultThreader (const std::string &threader)
	Set/Get the default threader used for process objects. More...

static std::string	GetGlobalDefaultThreader ()
	Set/Get the default threader used for process objects. More...

static void	SetGlobalDefaultNumberOfThreads (unsigned int n)

static unsigned int	GetGlobalDefaultNumberOfThreads ()
	Set/Get the default threader used for process objects. More...

Protected Member Functions inherited from itk::simple::ImageFilter
void	CheckImageMatchingDimension (const Image &image1, const Image &image2, const std::string &image2Name)

void	CheckImageMatchingPixelType (const Image &image1, const Image &image2, const std::string &image2Name)

void	CheckImageMatchingSize (const Image &image1, const Image &image2, const std::string &image2Name)

Protected Member Functions inherited from itk::simple::ProcessObject
virtual unsigned long	AddITKObserver (const itk::EventObject &, itk::Command *)

virtual itk::ProcessObject *	GetActiveProcess ()

virtual void	OnActiveProcessDelete ()

virtual void	onCommandDelete (const itk::simple::Command *cmd) noexcept

virtual void	PreUpdate (itk::ProcessObject *p)

virtual void	RemoveITKObserver (EventCommand &e)

Protected Member Functions inherited from itk::simple::NonCopyable
	NonCopyable ()=default

	NonCopyable (const NonCopyable &)=delete

NonCopyable &	operator= (const NonCopyable &)=delete

Static Protected Member Functions inherited from itk::simple::ImageFilter
template<class TImageType >
static void	FixNonZeroIndex (TImageType *img)

Static Protected Member Functions inherited from itk::simple::ProcessObject
template<class TImageType >
static TImageType::ConstPointer	CastImageToITK (const Image &img)

template<class TPixelType , unsigned int VImageDimension, unsigned int VLength, template< typename, unsigned int > class TVector>
static Image	CastITKToImage (itk::Image< TVector< TPixelType, VLength >, VImageDimension > *img)

template<unsigned int VImageDimension, unsigned int VLength, template< unsigned int > class TVector>
static Image	CastITKToImage (itk::Image< TVector< VLength >, VImageDimension > *img)

template<class TImageType >
static Image	CastITKToImage (TImageType *img)

static const itk::EventObject &	GetITKEventObject (EventEnum e)

template<typename T >
static std::ostream &	ToStringHelper (std::ostream &os, const T &v)

static std::ostream &	ToStringHelper (std::ostream &os, const char &v)

static std::ostream &	ToStringHelper (std::ostream &os, const signed char &v)

static std::ostream &	ToStringHelper (std::ostream &os, const unsigned char &v)

Detailed Description

Modify an image's geometric meta-data, changing its "physical" extent.

The TransformGeometryImageFilter "physically" changes the image in space using the given transformation. The resulting image is an image with the same voxel values as the input, but with different physical space representation as affected by the transform.

The specific transformation type can be any type derived from the MatrixOffsetTransformBase and the TranslationTransform . The modification of the geometric meta-data is an alternative to resampling the moving image onto the fixed image grid, after registration. The advantages of using this approach over resampling are two-fold, it does not introduce artifacts into the result because the original intensity information is not modified, and it is computationally more efficient.

When the filter is used with a rigid or translation transformation the resulting image can be saved in any desired format. When the filter is used with an affine transformation the resulting image should be saved in a format that supports a non ortho-normal direction cosine matrix (e.g. nrrd).

Let us call the transform operation from the fixed image to moving image TfmF2M . Given a set of points from the fixed image in physical space (i.e. physicalFixedImagePoints ), the aim is to convert those points into the moving image physical space as physicalMovingImagePoints = TfmF2M( physicalFixedImagePoints ) , and then be able to get the image values as movingContinuousIndexPoints = movingImage->TransformPhysicalPointToContinuousIndex( physicalMovingImagePoints ) .

We desire to change the moving image direction cosine \(\mathbf{D}\) and origin \(\mathbf{o}\) such that we can compute the moving image points as movingContinuousIndexPoints = newMovingImage->TransformPhysicalPointToContinuousIndex( physicalFixedImagePoints )

Let us introduce the notation that will be used to formalize the transformation:

Image-related parameters:

\(\mathbf{D}\) : direction cosine matrix

\(\mathbf{o}\) : origin vector

\(\mathbf{S}\) : spacing

\(\mathbf{ci}\) : continuous index

\(\mathbf{D}^{'}\) : new direction cosine matrix

\(\mathbf{o}^{'}\) : new origin vector

Image content in corresponding space:

\(\mathbf{f}_{p}\) : fixed image points in physical space

\(\mathbf{m}_{p}\) : moving image points in physical space

Rigid transform-related parameters:

\(\mathbf{R}\) : rotation matrix

\(\mathbf{c}\) : center of rotation vector

\(\mathbf{t}\) : translation vector

The TransformPhysicalPointToContinuousIndex method performs then: \begin{eqnarray*} \mathbf{ci} &= \mathbf{S}^{-1}\mathbf{D}^{-1}( \mathbf{m}_{p} - \mathbf{o} ) \ \mathbf{m}_{p} &= \mathbf{R}(\mathbf{f}_{p} - \mathbf{c}) + \mathbf{c} + \mathbf{t} \end{eqnarray*}

After substitution:

\begin{eqnarray*} \mathbf{m}_{c} &= \underbrace{\mathbf{R}^{-1}\mathbf{D}}_\text{new cosine}\mathbf{S} * \mathbf{i} + \underbrace{\mathbf{R}^{-1} * \mathbf{o} - \mathbf{R}^{-1} * \mathbf{c} - \mathbf{R}^{-1}*t}_\text{new origin} + \mathbf{c} \ \ \mathbf{D}^{'} &= \mathbf{R}^{-1}\mathbf{D} \ \mathbf{o}^{'} &= \mathbf{R}^{-1} * ( \mathbf{o} - \mathbf{c} - \mathbf{t} ) + \mathbf{c} \end{eqnarray*}