Medical Imaging Interaction Toolkit  2018.04.99-3ec0dd08 Medical Imaging Interaction Toolkit
mitk::SlicedGeometry3D Class Reference

Describes the geometry of a data object consisting of slices. More...

#include <mitkSlicedGeometry3D.h>

Inheritance diagram for mitk::SlicedGeometry3D:
Collaboration diagram for mitk::SlicedGeometry3D:

## Public Types

typedef SlicedGeometry3D Self

typedef BaseGeometry Superclass

typedef itk::SmartPointer< SelfPointer

typedef itk::SmartPointer< const SelfConstPointer

Public Types inherited from mitk::BaseGeometry
typedef BaseGeometry Self

typedef itk::Object Superclass

typedef itk::SmartPointer< SelfPointer

typedef itk::SmartPointer< const SelfConstPointer

typedef GeometryTransformHolder::TransformType TransformType

typedef itk::BoundingBox< unsigned long, 3, ScalarTypeBoundingBoxType

typedef BoundingBoxType::BoundsArrayType BoundsArrayType

typedef BoundingBoxType::Pointer BoundingBoxPointer

## Public Member Functions

virtual std::vector< std::string > GetClassHierarchy () const override

virtual const char * GetClassName () const

Pointer Clone () const

virtual mitk::PlaneGeometryGetPlaneGeometry (int s) const
Returns the PlaneGeometry of the slice (s). More...

const PlaneGeometryGetGeometry2D (int s)

void SetGeometry2D (PlaneGeometry *geo, int s)

void ChangeImageGeometryConsideringOriginOffset (const bool isAnImageGeometry) override
When switching from an Image Geometry to a normal Geometry (and the other way around), you have to. More...

const mitk::BoundingBoxGetBoundingBox () const override

virtual unsigned int GetSlices () const
Get the number of slices. More...

virtual bool SetPlaneGeometry (mitk::PlaneGeometry *geometry2D, int s)
Set PlaneGeometry of slice s. More...

virtual bool IsValidSlice (int s=0) const
Check whether a slice exists. More...

virtual const BaseGeometryGetReferenceGeometry () const

virtual void SetReferenceGeometry (const BaseGeometry *referenceGeometry)

bool HasReferenceGeometry () const

Set the SliceNavigationController corresponding to this sliced geometry. More...

virtual bool GetEvenlySpaced () const
Set/Get whether the SlicedGeometry3D is evenly-spaced (m_EvenlySpaced) More...

virtual void SetEvenlySpaced (bool on=true)

virtual void SetDirectionVector (const mitk::Vector3D &directionVector)
Set/Get the vector between slices for the evenly-spaced case (m_EvenlySpaced==true). More...

virtual const mitk::Vector3DGetDirectionVector () const

itk::LightObject::Pointer InternalClone () const override

virtual void InitializeSlicedGeometry (unsigned int slices)
Tell this instance how many PlaneGeometries it shall manage. Bounding box and the PlaneGeometries must be set additionally by calling the respective methods! More...

virtual void InitializeEvenlySpaced (mitk::PlaneGeometry *geometry2D, unsigned int slices)
Completely initialize this instance as evenly-spaced with slices parallel to the provided PlaneGeometry that is used as the first slice and for spacing calculation. More...

virtual void InitializeEvenlySpaced (mitk::PlaneGeometry *geometry2D, mitk::ScalarType zSpacing, unsigned int slices)
Completely initialize this instance as evenly-spaced with slices parallel to the provided PlaneGeometry that is used as the first slice and for spacing calculation (except z-spacing). More...

virtual void InitializePlanes (const mitk::BaseGeometry *geometry3D, mitk::PlaneGeometry::PlaneOrientation planeorientation, bool top=true, bool frontside=true, bool rotated=false)
Completely initialize this instance as evenly-spaced plane slices parallel to a side of the provided BaseGeometry and using its spacing information. More...

void SetImageGeometry (const bool isAnImageGeometry) override
Define that this BaseGeometry is refering to an Image. More...

void ExecuteOperation (Operation *operation) override
executes affine operations (translate, rotate, scale) More...

Public Member Functions inherited from mitk::BaseGeometry
Pointer Clone () const

const Point3D GetOrigin () const
Get the origin, e.g. the upper-left corner of the plane. More...

void SetOrigin (const Point3D &origin)
Set the origin, i.e. the upper-left corner of the plane. More...

const mitk::Vector3D GetSpacing () const
Get the spacing (size of a pixel). More...

void SetSpacing (const mitk::Vector3D &aSpacing, bool enforceSetSpacing=false)
Set the spacing (m_Spacing). More...

VnlVector GetOriginVnl () const
Get the origin as VnlVector. More...

virtual unsigned int GetFrameOfReferenceID () const
Get the DICOM FrameOfReferenceID referring to the used world coordinate system. More...

virtual void SetFrameOfReferenceID (unsigned int _arg)
Set the DICOM FrameOfReferenceID referring to the used world coordinate system. More...

virtual unsigned long GetIndexToWorldTransformLastModified () const

void Modified () const override
Overload of function Modified() to prohibit several calls of Modified() using the ModifiedLock class. More...

virtual bool IsValid () const
Is this BaseGeometry in a state that is valid? More...

void Initialize ()
Initialize the BaseGeometry. More...

void InitializeGeometry (Self *newGeometry) const

mitk::AffineTransform3DGetIndexToWorldTransform ()
Get the transformation used to convert from index to world coordinates. More...

const mitk::AffineTransform3DGetIndexToWorldTransform () const
Get the transformation used to convert from index to world coordinates. More...

void SetIndexToWorldTransform (mitk::AffineTransform3D *transform)

void SetIndexToWorldTransformByVtkMatrix (vtkMatrix4x4 *vtkmatrix)
Convenience method for setting the ITK transform (m_IndexToWorldTransform) via an vtkMatrix4x4.The spacing of the new transform is copied to m_spacing. More...

void SetIndexToWorldTransformWithoutChangingSpacing (mitk::AffineTransform3D *transform)

void SetIndexToWorldTransformByVtkMatrixWithoutChangingSpacing (vtkMatrix4x4 *vtkmatrix)
Convenience method for setting the ITK transform (m_IndexToWorldTransform) via an vtkMatrix4x4. This function keeps the original spacing. More...

vtkMatrix4x4 * GetVtkMatrix ()

vtkLinearTransform * GetVtkTransform () const
Get the m_IndexToWorldTransform as a vtkLinearTransform. More...

void SetIdentity ()
Set the transform to identity, the spacing to 1 and origin to 0. More...

void Compose (const TransformType *other, bool pre=false)
Compose new IndexToWorldTransform with a given transform. More...

void Compose (const vtkMatrix4x4 *vtkmatrix, bool pre=false)
Compose new IndexToWorldTransform with a given vtkMatrix4x4. More...

void Translate (const Vector3D &vector)
Translate the origin by a vector. More...

void WorldToIndex (const mitk::Point3D &pt_mm, mitk::Point3D &pt_units) const
Convert world coordinates (in mm) of a point to (continuous!) index coordinates. More...

void WorldToIndex (const mitk::Vector3D &vec_mm, mitk::Vector3D &vec_units) const
Convert world coordinates (in mm) of a vector vec_mm to (continuous!) index coordinates. For further information about coordinates types, please see the Geometry documentation. More...

template<unsigned int VIndexDimension>
void WorldToIndex (const mitk::Point3D &pt_mm, itk::Index< VIndexDimension > &index) const
Convert world coordinates (in mm) of a point to (discrete!) index coordinates. This method rounds to integer indices! For further information about coordinates types, please see the Geometry documentation. More...

void IndexToWorld (const mitk::Vector3D &vec_units, mitk::Vector3D &vec_mm) const
Convert (continuous or discrete) index coordinates of a vector vec_units to world coordinates (in mm) For further information about coordinates types, please see the Geometry documentation. More...

void IndexToWorld (const mitk::Point3D &pt_units, mitk::Point3D &pt_mm) const
Convert (continuous or discrete) index coordinates of a point to world coordinates (in mm) For further information about coordinates types, please see the Geometry documentation. More...

template<unsigned int VIndexDimension>
void IndexToWorld (const itk::Index< VIndexDimension > &index, mitk::Point3D &pt_mm) const
Convert (discrete) index coordinates of a point to world coordinates (in mm) For further information about coordinates types, please see the Geometry documentation. More...

void IndexToWorld (const mitk::Point3D &atPt3d_units, const mitk::Vector3D &vec_units, mitk::Vector3D &vec_mm) const
Convert (continuous or discrete) index coordinates of a vector vec_units to world coordinates (in mm) More...

void WorldToIndex (const mitk::Point3D &atPt3d_mm, const mitk::Vector3D &vec_mm, mitk::Vector3D &vec_units) const
Convert world coordinates (in mm) of a vector vec_mm to (continuous!) index coordinates. More...

template<class TCoordRep >
void ItkPhysicalPointToWorld (const itk::Point< TCoordRep, 3 > &itkPhysicalPoint, mitk::Point3D &pt_mm) const
Deprecated for use with ITK version 3.10 or newer. Convert ITK physical coordinates of a point (in mm, but without a rotation) into MITK world coordinates (in mm) More...

template<class TCoordRep >
void WorldToItkPhysicalPoint (const mitk::Point3D &pt_mm, itk::Point< TCoordRep, 3 > &itkPhysicalPoint) const
Deprecated for use with ITK version 3.10 or newer. Convert world coordinates (in mm) of a point to ITK physical coordinates (in mm, but without a possible rotation) More...

virtual const BoundingBoxTypeGetBoundingBox ()

const BoundsArrayType GetBounds () const

void SetBounds (const BoundsArrayType &bounds)
Set the bounding box (in index/unit coordinates) More...

void SetFloatBounds (const float bounds[6])
Set the bounding box (in index/unit coordinates) via a float array. More...

void SetFloatBounds (const double bounds[6])
Set the bounding box (in index/unit coordinates) via a double array. More...

VnlVector GetMatrixColumn (unsigned int direction) const
Get a VnlVector along bounding-box in the specified direction, length is spacing. More...

mitk::BoundingBox::Pointer CalculateBoundingBoxRelativeToTransform (const mitk::AffineTransform3D *transform) const
Calculates a bounding-box around the geometry relative to a coordinate system defined by a transform. More...

ScalarType GetExtent (unsigned int direction) const
Set the time bounds (in ms) More...

ScalarType GetExtentInMM (int direction) const
Get the extent of the bounding-box in the specified direction in mm. More...

Vector3D GetAxisVector (unsigned int direction) const
Get vector along bounding-box in the specified direction in mm. More...

virtual bool Is2DConvertable ()
Checks, if the given geometry can be converted to 2D without information loss e.g. when a 2D image is saved, the matrix is usually cropped to 2x2, and when you load it back to MITK it will be filled with standard values. This function checks, if information would be lost during this procedure. More...

Point3D GetCenter () const
Get the center of the bounding-box in mm. More...

double GetDiagonalLength2 () const
Get the squared length of the diagonal of the bounding-box in mm. More...

double GetDiagonalLength () const
Get the length of the diagonal of the bounding-box in mm. More...

Point3D GetCornerPoint (int id) const
Get the position of the corner number id (in world coordinates) More...

Point3D GetCornerPoint (bool xFront=true, bool yFront=true, bool zFront=true) const
Get the position of a corner (in world coordinates) More...

void SetExtentInMM (int direction, ScalarType extentInMM)
Set the extent of the bounding-box in the specified direction in mm. More...

bool IsInside (const mitk::Point3D &p) const
Test whether the point p (world coordinates in mm) is inside the bounding box. More...

bool IsIndexInside (const mitk::Point3D &index) const
Test whether the point p ((continous!)index coordinates in units) is inside the bounding box. More...

template<unsigned int VIndexDimension>
bool IsIndexInside (const itk::Index< VIndexDimension > &index) const
Convenience method for working with ITK indices. More...

virtual bool GetImageGeometry () const
Is this an ImageGeometry? More...

virtual void ImageGeometryOn ()

virtual void ImageGeometryOff ()

const GeometryTransformHolderGetGeometryTransformHolder () const

Public Member Functions inherited from mitk::OperationActor
itkTypeMacroNoParent (OperationActor) virtual ~OperationActor()

## Static Public Member Functions

static const char * GetStaticNameOfClass ()

static Pointer New ()

static double CalculateSpacing (const mitk::Vector3D &spacing, const mitk::Vector3D &d)

Static Public Member Functions inherited from mitk::BaseGeometry
static const char * GetStaticNameOfClass ()

## Static Public Attributes

static const std::string SLICES

static const std::string DIRECTION_VECTOR

static const std::string EVENLY_SPACED

## Protected Member Functions

SlicedGeometry3D ()

SlicedGeometry3D (const SlicedGeometry3D &other)

~SlicedGeometry3D () override

virtual void ReinitializePlanes (const Point3D &center, const Point3D &referencePoint)

ScalarType GetLargestExtent (const BaseGeometry *geometry)

void PrintSelf (std::ostream &os, itk::Indent indent) const override

double CalculateSpacing (const mitk::Vector3D &direction) const

mitk::Vector3D AdjustNormal (const mitk::Vector3D &normal) const

void PreSetSpacing (const mitk::Vector3D &aSpacing) override
PreSetSpacing. More...

Protected Member Functions inherited from mitk::BaseGeometry
BaseGeometry ()

BaseGeometry (const BaseGeometry &other)

~BaseGeometry () override

void PrintSelf (std::ostream &os, itk::Indent indent) const override

virtual unsigned int GetNDimensions () const

bool IsBoundingBoxNull () const

bool IsIndexToWorldTransformNull () const

void SetVtkMatrixDeepCopy (vtkTransform *vtktransform)

void _SetSpacing (const mitk::Vector3D &aSpacing, bool enforceSetSpacing=false)

virtual void CheckBounds (const BoundsArrayType &)
CheckBounds. More...

virtual void CheckIndexToWorldTransform (mitk::AffineTransform3D *)
CheckIndexToWorldTransform. More...

## Protected Attributes

std::vector< PlaneGeometry::Pointerm_PlaneGeometries

bool m_EvenlySpaced

mitk::Vector3D m_DirectionVector

unsigned int m_Slices

const mitk::BaseGeometrym_ReferenceGeometry

Static Protected Member Functions inherited from mitk::BaseGeometry
static const std::string GetTransformAsString (TransformType *transformType)

## Detailed Description

Describes the geometry of a data object consisting of slices.

A PlaneGeometry can be requested for each slice. In the case of evenly-spaced, plane geometries (m_EvenlySpaced==true), only the 2D-geometry of the first slice has to be set (to an instance of PlaneGeometry). The 2D geometries of the other slices are calculated by shifting the first slice in the direction m_DirectionVector by m_Spacing.z * sliceNumber. The m_Spacing member (which is only relevant in the case m_EvenlySpaced==true) descibes the size of a voxel (in mm), i.e., m_Spacing.x is the voxel width in the x-direction of the plane. It is derived from the reference geometry of this SlicedGeometry3D, which usually would be the global geometry describing how datasets are to be resliced.

By default, slices are oriented in the direction of one of the main axes (x, y, z). However, by means of rotation, it is possible to realign the slices in any possible direction. In case of an inclined plane, the spacing is derived as a product of the (regular) geometry spacing and the direction vector of the plane.

SlicedGeometry3D and the associated PlaneGeometries have to be initialized in the method GenerateOutputInformation() of BaseProcess (or CopyInformation / UpdateOutputInformation of BaseData, if possible, e.g., by analyzing pic tags in Image) subclasses. See also

itk::ProcessObject::GenerateOutputInformation(),
itk::DataObject::CopyInformation() and itk::DataObject::UpdateOutputInformation().

Rule: everything is in mm (or ms for temporal information) if not stated otherwise.

Warning
The hull (i.e., transform, bounding-box and time-bounds) is only guaranteed to be up-to-date after calling UpdateInformation().

Definition at line 62 of file mitkSlicedGeometry3D.h.

## ◆ ConstPointer

 typedef itk::SmartPointer mitk::SlicedGeometry3D::ConstPointer

Definition at line 65 of file mitkSlicedGeometry3D.h.

## ◆ Pointer

Definition at line 65 of file mitkSlicedGeometry3D.h.

## ◆ Self

Definition at line 65 of file mitkSlicedGeometry3D.h.

## ◆ Superclass

Definition at line 65 of file mitkSlicedGeometry3D.h.

## ◆ SlicedGeometry3D() [1/2]

 mitk::SlicedGeometry3D::SlicedGeometry3D ( )
protected

## ◆ SlicedGeometry3D() [2/2]

 mitk::SlicedGeometry3D::SlicedGeometry3D ( const SlicedGeometry3D & other )
protected

## ◆ ~SlicedGeometry3D()

 mitk::SlicedGeometry3D::~SlicedGeometry3D ( )
overrideprotected

## Member Function Documentation

 mitk::Vector3D mitk::SlicedGeometry3D::AdjustNormal ( const mitk::Vector3D & normal ) const
protected

The extent of the slice stack, i.e. the number of slices, depends on the plane normal. For rotated geometries, the geometry's transform needs to be accounted in this calculation.

## ◆ CalculateSpacing() [1/2]

 static double mitk::SlicedGeometry3D::CalculateSpacing ( const mitk::Vector3D & spacing, const mitk::Vector3D & d )
static

## ◆ CalculateSpacing() [2/2]

 double mitk::SlicedGeometry3D::CalculateSpacing ( const mitk::Vector3D & direction ) const
protected

Calculate "directed spacing", i.e. the spacing in directions non-orthogonal to the coordinate axes. This is done via the ellipsoid equation.

## ◆ ChangeImageGeometryConsideringOriginOffset()

 void mitk::SlicedGeometry3D::ChangeImageGeometryConsideringOriginOffset ( const bool isAnImageGeometry )
overridevirtual

When switching from an Image Geometry to a normal Geometry (and the other way around), you have to.

Reimplemented from mitk::BaseGeometry.

## ◆ Clone()

 Pointer mitk::SlicedGeometry3D::Clone ( ) const

## ◆ ExecuteOperation()

 void mitk::SlicedGeometry3D::ExecuteOperation ( Operation * operation )
overridevirtual

executes affine operations (translate, rotate, scale)

Reimplemented from mitk::BaseGeometry.

## ◆ GetBoundingBox()

 const mitk::BoundingBox* mitk::SlicedGeometry3D::GetBoundingBox ( ) const
override

## ◆ GetClassHierarchy()

 virtual std::vector mitk::SlicedGeometry3D::GetClassHierarchy ( ) const
inlineoverridevirtual

Reimplemented from mitk::BaseGeometry.

Definition at line 65 of file mitkSlicedGeometry3D.h.

## ◆ GetClassName()

 virtual const char* mitk::SlicedGeometry3D::GetClassName ( ) const
virtual

Reimplemented from mitk::BaseGeometry.

## ◆ GetDirectionVector()

 virtual const mitk::Vector3D& mitk::SlicedGeometry3D::GetDirectionVector ( ) const
virtual

## ◆ GetEvenlySpaced()

 virtual bool mitk::SlicedGeometry3D::GetEvenlySpaced ( ) const
virtual

Set/Get whether the SlicedGeometry3D is evenly-spaced (m_EvenlySpaced)

If (a) m_EvenlySpaced==true, (b) we don't have a PlaneGeometry stored for the requested slice, and (c) the first slice (s=0) is a PlaneGeometry instance, then we calculate the geometry of the requested as the plane of the first slice shifted by m_Spacing.z * s in the direction of m_DirectionVector.

GetPlaneGeometry

## ◆ GetGeometry2D()

 const PlaneGeometry* mitk::SlicedGeometry3D::GetGeometry2D ( int s )
inline
Deprecated:
(as of 2014_10) Please use GetPlaneGeometry

Definition at line 96 of file mitkSlicedGeometry3D.h.

## ◆ GetLargestExtent()

 ScalarType mitk::SlicedGeometry3D::GetLargestExtent ( const BaseGeometry * geometry )
protected

## ◆ GetPlaneGeometry()

 virtual mitk::PlaneGeometry* mitk::SlicedGeometry3D::GetPlaneGeometry ( int s ) const
virtual

Returns the PlaneGeometry of the slice (s).

If (a) m_EvenlySpaced==true, (b) we don't have a PlaneGeometry stored for the requested slice, and (c) the first slice (s=0) is a PlaneGeometry instance, then we calculate the geometry of the requested as the plane of the first slice shifted by m_Spacing[3]*s in the direction of m_DirectionVector.

Warning
The PlaneGeometries are not necessarily up-to-date and not even initialized.

The PlaneGeometries have to be initialized in the method GenerateOutputInformation() of BaseProcess (or CopyInformation / UpdateOutputInformation of BaseData, if possible, e.g., by analyzing pic tags in Image) subclasses. See also

itk::ProcessObject::GenerateOutputInformation(),
itk::DataObject::CopyInformation() and
itk::DataObject::UpdateOutputInformation().

## ◆ GetReferenceGeometry()

 virtual const BaseGeometry* mitk::SlicedGeometry3D::GetReferenceGeometry ( ) const
virtual

## ◆ GetSlices()

 virtual unsigned int mitk::SlicedGeometry3D::GetSlices ( ) const
virtual

Get the number of slices.

## ◆ GetStaticNameOfClass()

 static const char* mitk::SlicedGeometry3D::GetStaticNameOfClass ( )
inlinestatic

Definition at line 65 of file mitkSlicedGeometry3D.h.

## ◆ HasReferenceGeometry()

 bool mitk::SlicedGeometry3D::HasReferenceGeometry ( ) const

## ◆ InitializeEvenlySpaced() [1/2]

 virtual void mitk::SlicedGeometry3D::InitializeEvenlySpaced ( mitk::PlaneGeometry * geometry2D, unsigned int slices )
virtual

Completely initialize this instance as evenly-spaced with slices parallel to the provided PlaneGeometry that is used as the first slice and for spacing calculation.

Initializes the bounding box according to the width/height of the PlaneGeometry and slices. The spacing is calculated from the PlaneGeometry.

Referenced by mitk::Image::InitializeByItk().

## ◆ InitializeEvenlySpaced() [2/2]

 virtual void mitk::SlicedGeometry3D::InitializeEvenlySpaced ( mitk::PlaneGeometry * geometry2D, mitk::ScalarType zSpacing, unsigned int slices )
virtual

Completely initialize this instance as evenly-spaced with slices parallel to the provided PlaneGeometry that is used as the first slice and for spacing calculation (except z-spacing).

Initializes the bounding box according to the width/height of the PlaneGeometry and slices. The x-/y-spacing is calculated from the PlaneGeometry.

## ◆ InitializePlanes()

 virtual void mitk::SlicedGeometry3D::InitializePlanes ( const mitk::BaseGeometry * geometry3D, mitk::PlaneGeometry::PlaneOrientation planeorientation, bool top = true, bool frontside = true, bool rotated = false )
virtual

Completely initialize this instance as evenly-spaced plane slices parallel to a side of the provided BaseGeometry and using its spacing information.

Initializes the bounding box according to the width/height of the BaseGeometry and the number of slices according to BaseGeometry::GetExtent(2).

Parameters
 geometry3D planeorientation side parallel to which the slices will be oriented top if true, create plane at top, otherwise at bottom (for PlaneOrientation Axial, for other plane locations respectively) frontside defines the side of the plane (the definition of front/back is somewhat arbitrary) rotated rotates the plane by 180 degree around its normal (the definition of rotated vs not rotated is somewhat arbitrary)

## ◆ InitializeSlicedGeometry()

 virtual void mitk::SlicedGeometry3D::InitializeSlicedGeometry ( unsigned int slices )
virtual

Tell this instance how many PlaneGeometries it shall manage. Bounding box and the PlaneGeometries must be set additionally by calling the respective methods!

Warning
Bounding box and the 2D-geometries must be set additionally: use SetBounds(), SetGeometry().

## ◆ InternalClone()

 itk::LightObject::Pointer mitk::SlicedGeometry3D::InternalClone ( ) const
overridevirtual

Implements mitk::BaseGeometry.

## ◆ IsValidSlice()

 virtual bool mitk::SlicedGeometry3D::IsValidSlice ( int s = 0 ) const
virtual

Check whether a slice exists.

## ◆ New()

 static Pointer mitk::SlicedGeometry3D::New ( )
static

Method for creation through the object factory.

## ◆ PreSetSpacing()

 void mitk::SlicedGeometry3D::PreSetSpacing ( const mitk::Vector3D & aSpacing )
overrideprotectedvirtual

PreSetSpacing.

These virtual function allows a different beahiour in subclasses. Do implement them in every subclass of BaseGeometry. If not needed, use {Superclass::PreSetSpacing();};

Reimplemented from mitk::BaseGeometry.

## ◆ PrintSelf()

 void mitk::SlicedGeometry3D::PrintSelf ( std::ostream & os, itk::Indent indent ) const
overrideprotected

## ◆ ReinitializePlanes()

 virtual void mitk::SlicedGeometry3D::ReinitializePlanes ( const Point3D & center, const Point3D & referencePoint )
protectedvirtual

Reinitialize plane stack after rotation. More precisely, the first plane of the stack needs to spatially aligned, in two respects:

1. Re-alignment with respect to the dataset center; this is necessary since the distance from the first plane to the center could otherwise continuously decrease or increase.
2. Re-alignment with respect to a given reference point; the reference point is a location which the user wants to be exactly touched by one plane of the plane stack. The first plane is minimally shifted to ensure this touching. Usually, the reference point would be the point around which the geometry is rotated.

## ◆ SetDirectionVector()

 virtual void mitk::SlicedGeometry3D::SetDirectionVector ( const mitk::Vector3D & directionVector )
virtual

Set/Get the vector between slices for the evenly-spaced case (m_EvenlySpaced==true).

If the direction-vector is (0,0,0) (the default) and the first 2D geometry is a PlaneGeometry, then the direction-vector will be calculated from the plane normal.

m_DirectionVector

## ◆ SetEvenlySpaced()

 virtual void mitk::SlicedGeometry3D::SetEvenlySpaced ( bool on = true )
virtual

## ◆ SetGeometry2D()

 void mitk::SlicedGeometry3D::SetGeometry2D ( PlaneGeometry * geo, int s )
inline
Deprecated:
(as of 2014_10) Please use SetPlaneGeometry

Definition at line 100 of file mitkSlicedGeometry3D.h.

## ◆ SetImageGeometry()

 void mitk::SlicedGeometry3D::SetImageGeometry ( const bool _arg )
overridevirtual

Define that this BaseGeometry is refering to an Image.

A geometry referring to an Image needs a slightly different definition of the position of the corners (see GetCornerPoint). The position of a voxel is defined by the position of its center. If we would use the origin (position of the (center of) the first voxel) as a corner and display this point, it would seem to be not at the corner but a bit within the image. Even worse for the opposite corner of the image: here the corner would appear outside the image (by half of the voxel diameter). Thus, we have to correct for this and to be able to do that, we need to know that the BaseGeometry is referring to an Image.

Reimplemented from mitk::BaseGeometry.

## ◆ SetPlaneGeometry()

 virtual bool mitk::SlicedGeometry3D::SetPlaneGeometry ( mitk::PlaneGeometry * geometry2D, int s )
virtual

Set PlaneGeometry of slice s.

## ◆ SetReferenceGeometry()

 virtual void mitk::SlicedGeometry3D::SetReferenceGeometry ( const BaseGeometry * referenceGeometry )
virtual

virtual

Set the SliceNavigationController corresponding to this sliced geometry.

The SNC needs to be informed when the number of slices in the geometry changes, which can occur whenthe slices are re-oriented by rotation.

## ◆ DIRECTION_VECTOR

 const std::string mitk::SlicedGeometry3D::DIRECTION_VECTOR
static

Definition at line 176 of file mitkSlicedGeometry3D.h.

## ◆ EVENLY_SPACED

 const std::string mitk::SlicedGeometry3D::EVENLY_SPACED
static

Definition at line 177 of file mitkSlicedGeometry3D.h.

## ◆ m_DirectionVector

 mitk::Vector3D mitk::SlicedGeometry3D::m_DirectionVector
mutableprotected

Vector between slices for the evenly-spaced case (m_EvenlySpaced==true). If the direction-vector is (0,0,0) (the default) and the first 2D geometry is a PlaneGeometry, then the direction-vector will be calculated from the plane normal.

Definition at line 305 of file mitkSlicedGeometry3D.h.

## ◆ m_EvenlySpaced

 bool mitk::SlicedGeometry3D::m_EvenlySpaced
protected

If (a) m_EvenlySpaced==true, (b) we don't have a PlaneGeometry stored for the requested slice, and (c) the first slice (s=0) is a PlaneGeometry instance, then we calculate the geometry of the requested as the plane of the first slice shifted by m_Spacing.z*s in the direction of m_DirectionVector.

GetPlaneGeometry

Definition at line 297 of file mitkSlicedGeometry3D.h.

## ◆ m_PlaneGeometries

 std::vector mitk::SlicedGeometry3D::m_PlaneGeometries
mutableprotected

Container for the 2D-geometries contained within this SliceGeometry3D.

Definition at line 286 of file mitkSlicedGeometry3D.h.

## ◆ m_ReferenceGeometry

 const mitk::BaseGeometry* mitk::SlicedGeometry3D::m_ReferenceGeometry
protected

Underlying BaseGeometry for this SlicedGeometry

Definition at line 311 of file mitkSlicedGeometry3D.h.

protected

SNC correcsponding to this geometry; used to reflect changes in the number of slices due to rotation.

Definition at line 316 of file mitkSlicedGeometry3D.h.

## ◆ m_Slices

 unsigned int mitk::SlicedGeometry3D::m_Slices
protected

Number of slices this SliceGeometry3D is descibing.

Definition at line 308 of file mitkSlicedGeometry3D.h.

## ◆ SLICES

 const std::string mitk::SlicedGeometry3D::SLICES
static

Definition at line 175 of file mitkSlicedGeometry3D.h.

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