diff --git a/Modules/ImageStatistics/mitkImageStatisticsCalculator.cpp b/Modules/ImageStatistics/mitkImageStatisticsCalculator.cpp
index e3b1331652..7f79376ae7 100644
--- a/Modules/ImageStatistics/mitkImageStatisticsCalculator.cpp
+++ b/Modules/ImageStatistics/mitkImageStatisticsCalculator.cpp
@@ -1,1928 +1,1928 @@
 /*===================================================================
 
 The Medical Imaging Interaction Toolkit (MITK)
 
 Copyright (c) German Cancer Research Center,
 Division of Medical and Biological Informatics.
 All rights reserved.
 
 This software is distributed WITHOUT ANY WARRANTY; without
 even the implied warranty of MERCHANTABILITY or FITNESS FOR
 A PARTICULAR PURPOSE.
 
 See LICENSE.txt or http://www.mitk.org for details.
 
 ===================================================================*/
 
 
 #include "mitkImageStatisticsCalculator.h"
 #include "mitkImageAccessByItk.h"
 #include "mitkImageCast.h"
 #include "mitkExtractImageFilter.h"
 #include "mitkImageTimeSelector.h"
 #include "mitkITKImageImport.h"
 
 #include <itkScalarImageToHistogramGenerator.h>
 
 #include <itkChangeInformationImageFilter.h>
 #include <itkExtractImageFilter.h>
 #include <itkMinimumMaximumImageCalculator.h>
 #include <itkStatisticsImageFilter.h>
 #include <itkLabelStatisticsImageFilter.h>
 #include <itkMaskImageFilter.h>
 
 #include <itkImageRegionConstIterator.h>
 #include <itkImageRegionIterator.h>
 
 #include <itkCastImageFilter.h>
 #include <itkVTKImageImport.h>
 #include <itkVTKImageExport.h>
 
 #include <vtkPoints.h>
 #include <vtkCellArray.h>
 #include <vtkPolyData.h>
 #include <vtkLinearExtrusionFilter.h>
 #include <vtkPolyDataToImageStencil.h>
 #include <vtkImageStencil.h>
 #include <vtkImageImport.h>
 #include <vtkImageExport.h>
 #include <vtkImageData.h>
 
 #include <itkFFTConvolutionImageFilter.h>
 #include <itkConstantBoundaryCondition.h>
 #include <itkImageDuplicator.h>
 
 #include <itkContinuousIndex.h>
 #include <itkNumericTraits.h>
 #include <list>
 
 #include <exception>
 
 //#define DEBUG_HOTSPOTSEARCH
 
 #define _USE_MATH_DEFINES
 #include <math.h>
 
 #if ( ( VTK_MAJOR_VERSION <= 5 ) && ( VTK_MINOR_VERSION<=8)  )
   #include "mitkvtkLassoStencilSource.h"
 #else
   #include "vtkLassoStencilSource.h"
 #endif
 
 namespace mitk
 {
 ImageStatisticsCalculator::ImageStatisticsCalculator()
 : m_MaskingMode( MASKING_MODE_NONE ),
   m_MaskingModeChanged( false ),
   m_IgnorePixelValue(0.0),
   m_DoIgnorePixelValue(false),
   m_IgnorePixelValueChanged(false),
   m_PlanarFigureAxis (0),
   m_PlanarFigureSlice (0),
   m_PlanarFigureCoordinate0 (0),
   m_PlanarFigureCoordinate1 (0),
   m_HotspotRadiusInMM(6.2035049089940),   // radius of a 1cm3 sphere in mm
   m_CalculateHotspot(false),
   m_HotspotRadiusInMMChanged(false),
   m_HotspotMustBeCompletelyInsideImage(true)
 {
   m_EmptyHistogram = HistogramType::New();
   m_EmptyHistogram->SetMeasurementVectorSize(1);
   HistogramType::SizeType histogramSize(1);
   histogramSize.Fill( 256 );
   m_EmptyHistogram->Initialize( histogramSize );
 
   m_EmptyStatistics.Reset();
 
 }
 
 ImageStatisticsCalculator::~ImageStatisticsCalculator()
 {
 }
 
 
 ImageStatisticsCalculator::Statistics::Statistics(bool withHotspotStatistics)
 :m_HotspotStatistics(withHotspotStatistics ? new Statistics(false) : NULL)
 {
   Reset();
 }
 
 ImageStatisticsCalculator::Statistics::Statistics(const Statistics& other)
 :m_HotspotStatistics( NULL)
 {
   this->SetLabel( other.GetLabel() );
   this->SetN( other.GetN() );
   this->SetMin( other.GetMin() );
   this->SetMax( other.GetMax() );
   this->SetMedian( other.GetMedian() );
   this->SetMean( other.GetMean() );
   this->SetVariance( other.GetVariance() );
   this->SetSigma( other.GetSigma() );
   this->SetRMS( other.GetRMS() );
   this->SetMaxIndex( other.GetMaxIndex() );
   this->SetMinIndex( other.GetMinIndex() );
   this->SetHotspotIndex( other.GetHotspotIndex() );
 
   if (other.m_HotspotStatistics)
   {
     this->m_HotspotStatistics = new Statistics(false);
     *this->m_HotspotStatistics = *other.m_HotspotStatistics;
   }
 }
 
 bool ImageStatisticsCalculator::Statistics::HasHotspotStatistics() const
 {
   return m_HotspotStatistics != NULL;
 }
 
 void ImageStatisticsCalculator::Statistics::SetHasHotspotStatistics(bool hasHotspotStatistics)
 {
   m_HasHotspotStatistics = hasHotspotStatistics;
 }
 
 
 ImageStatisticsCalculator::Statistics::~Statistics()
 {
   delete m_HotspotStatistics;
 }
 
 double ImageStatisticsCalculator::Statistics::GetVariance() const
 {
   return this->Variance;
 }
 
 void ImageStatisticsCalculator::Statistics::SetVariance( const double value )
 {
   if( this->Variance != value )
   {
     if( value < 0.0 )
     {
       this->Variance = 0.0; // if given value is negative set variance to 0.0
     }
     else
     {
       this->Variance = value;
     }
   }
 }
 
 double ImageStatisticsCalculator::Statistics::GetSigma() const
 {
   return this->Sigma;
 }
 
 void ImageStatisticsCalculator::Statistics::SetSigma( const double value )
 {
   if( this->Sigma != value )
   {
     // for some compiler the value != value works to check for NaN but not for all
     // but we can always be sure that the standard deviation is a positive value
     if( value != value || value < 0.0 )
     {
       // if standard deviation is NaN we just assume 0.0
       this->Sigma = 0.0;
     }
     else
     {
       this->Sigma = value;
     }
   }
 }
 
 void ImageStatisticsCalculator::Statistics::Reset(unsigned int dimension)
 {
   SetLabel(0);
   SetN( 0 );
   SetMin( 0.0 );
   SetMax( 0.0 );
   SetMedian( 0.0 );
   SetVariance( 0.0 );
   SetMean( 0.0 );
   SetSigma( 0.0 );
   SetRMS( 0.0 );
 
   vnl_vector<int> zero;
   zero.set_size(dimension);
   for(unsigned int i = 0; i < dimension; ++i)
   {
     zero[i] = 0;
   }
 
   SetMaxIndex(zero);
   SetMinIndex(zero);
   SetHotspotIndex(zero);
 
   if (m_HotspotStatistics != NULL)
   {
     m_HotspotStatistics->Reset(dimension);
   }
 }
 
 const ImageStatisticsCalculator::Statistics&
 ImageStatisticsCalculator::Statistics::GetHotspotStatistics() const
 {
   if (m_HotspotStatistics)
   {
     return *m_HotspotStatistics;
   }
   else
   {
     throw std::logic_error("Object has no hostspot statistics, see HasHotspotStatistics()");
   }
 }
 
 ImageStatisticsCalculator::Statistics&
 ImageStatisticsCalculator::Statistics::GetHotspotStatistics()
 {
   if (m_HotspotStatistics)
   {
     return *m_HotspotStatistics;
   }
   else
   {
     throw std::logic_error("Object has no hostspot statistics, see HasHotspotStatistics()");
   }
 }
 
 ImageStatisticsCalculator::Statistics&
 ImageStatisticsCalculator::Statistics::operator=(ImageStatisticsCalculator::Statistics const& other)
 {
   if (this == &other)
     return *this;
 
   this->SetLabel( other.GetLabel() );
   this->SetN( other.GetN() );
   this->SetMin( other.GetMin() );
   this->SetMax( other.GetMax() );
   this->SetMean( other.GetMean() );
   this->SetMedian( other.GetMedian() );
   this->SetVariance( other.GetVariance() );
   this->SetSigma( other.GetSigma() );
   this->SetRMS( other.GetRMS() );
   this->SetMinIndex( other.GetMinIndex() );
   this->SetMaxIndex( other.GetMaxIndex() );
   this->SetHotspotIndex( other.GetHotspotIndex() );
 
   delete this->m_HotspotStatistics;
   this->m_HotspotStatistics = NULL;
 
   if (other.m_HotspotStatistics)
   {
     this->m_HotspotStatistics = new Statistics(false);
     *this->m_HotspotStatistics = *other.m_HotspotStatistics;
   }
 
   return *this;
 
 }
 
 void ImageStatisticsCalculator::SetImage( const mitk::Image *image )
 {
   if ( m_Image != image )
   {
     m_Image = image;
     this->Modified();
 
     unsigned int numberOfTimeSteps = image->GetTimeSteps();
 
     // Initialize vectors to time-size of this image
     m_ImageHistogramVector.resize( numberOfTimeSteps );
     m_MaskedImageHistogramVector.resize( numberOfTimeSteps );
     m_PlanarFigureHistogramVector.resize( numberOfTimeSteps );
 
     m_ImageStatisticsVector.resize( numberOfTimeSteps );
     m_MaskedImageStatisticsVector.resize( numberOfTimeSteps );
     m_PlanarFigureStatisticsVector.resize( numberOfTimeSteps );
 
     m_ImageStatisticsTimeStampVector.resize( numberOfTimeSteps );
     m_MaskedImageStatisticsTimeStampVector.resize( numberOfTimeSteps );
     m_PlanarFigureStatisticsTimeStampVector.resize( numberOfTimeSteps );
 
     m_ImageStatisticsCalculationTriggerVector.resize( numberOfTimeSteps );
     m_MaskedImageStatisticsCalculationTriggerVector.resize( numberOfTimeSteps );
     m_PlanarFigureStatisticsCalculationTriggerVector.resize( numberOfTimeSteps );
 
     for ( unsigned int t = 0; t < image->GetTimeSteps(); ++t )
     {
       m_ImageStatisticsTimeStampVector[t].Modified();
       m_ImageStatisticsCalculationTriggerVector[t] = true;
     }
   }
 }
 
 
 void ImageStatisticsCalculator::SetImageMask( const mitk::Image *imageMask )
 {
   if ( m_Image.IsNull() )
   {
     itkExceptionMacro( << "Image needs to be set first!" );
   }
 
   if ( m_Image->GetTimeSteps() != imageMask->GetTimeSteps() )
   {
     itkExceptionMacro( << "Image and image mask need to have equal number of time steps!" );
   }
 
   if ( m_ImageMask != imageMask )
   {
     m_ImageMask = imageMask;
     this->Modified();
 
     for ( unsigned int t = 0; t < m_Image->GetTimeSteps(); ++t )
     {
       m_MaskedImageStatisticsTimeStampVector[t].Modified();
       m_MaskedImageStatisticsCalculationTriggerVector[t] = true;
     }
   }
 }
 
 
 void ImageStatisticsCalculator::SetPlanarFigure( mitk::PlanarFigure *planarFigure )
 {
   if ( m_Image.IsNull() )
   {
     itkExceptionMacro( << "Image needs to be set first!" );
   }
 
   if ( m_PlanarFigure != planarFigure )
   {
     m_PlanarFigure = planarFigure;
     this->Modified();
 
     for ( unsigned int t = 0; t < m_Image->GetTimeSteps(); ++t )
     {
       m_PlanarFigureStatisticsTimeStampVector[t].Modified();
       m_PlanarFigureStatisticsCalculationTriggerVector[t] = true;
     }
   }
 }
 
 
 void ImageStatisticsCalculator::SetMaskingMode( unsigned int mode )
 {
   if ( m_MaskingMode != mode )
   {
     m_MaskingMode = mode;
     m_MaskingModeChanged = true;
     this->Modified();
   }
 }
 
 
 void ImageStatisticsCalculator::SetMaskingModeToNone()
 {
   if ( m_MaskingMode != MASKING_MODE_NONE )
   {
     m_MaskingMode = MASKING_MODE_NONE;
     m_MaskingModeChanged = true;
     this->Modified();
   }
 }
 
 
 void ImageStatisticsCalculator::SetMaskingModeToImage()
 {
   if ( m_MaskingMode != MASKING_MODE_IMAGE )
   {
     m_MaskingMode = MASKING_MODE_IMAGE;
     m_MaskingModeChanged = true;
     this->Modified();
   }
 }
 
 
 void ImageStatisticsCalculator::SetMaskingModeToPlanarFigure()
 {
   if ( m_MaskingMode != MASKING_MODE_PLANARFIGURE )
   {
     m_MaskingMode = MASKING_MODE_PLANARFIGURE;
     m_MaskingModeChanged = true;
     this->Modified();
   }
 }
 
 void ImageStatisticsCalculator::SetIgnorePixelValue(double value)
 {
   if ( m_IgnorePixelValue != value )
   {
     m_IgnorePixelValue = value;
     if(m_DoIgnorePixelValue)
     {
       m_IgnorePixelValueChanged = true;
     }
     this->Modified();
   }
 }
 
 double ImageStatisticsCalculator::GetIgnorePixelValue()
 {
   return m_IgnorePixelValue;
 }
 
 void ImageStatisticsCalculator::SetDoIgnorePixelValue(bool value)
 {
   if ( m_DoIgnorePixelValue != value )
   {
     m_DoIgnorePixelValue = value;
     m_IgnorePixelValueChanged = true;
     this->Modified();
   }
 }
 
 bool ImageStatisticsCalculator::GetDoIgnorePixelValue()
 {
   return m_DoIgnorePixelValue;
 }
 
 void ImageStatisticsCalculator::SetHotspotRadiusInMM(double value)
 {
   if ( m_HotspotRadiusInMM != value )
   {
     m_HotspotRadiusInMM = value;
     if(m_CalculateHotspot)
     {
       m_HotspotRadiusInMMChanged = true;
       //MITK_INFO <<"Hotspot radius changed, new convolution required";
     }
     this->Modified();
   }
 }
 
 double ImageStatisticsCalculator::GetHotspotRadiusInMM()
 {
   return m_HotspotRadiusInMM;
 }
 
 void ImageStatisticsCalculator::SetCalculateHotspot(bool on)
 {
   if ( m_CalculateHotspot != on )
   {
     m_CalculateHotspot = on;
     m_HotspotRadiusInMMChanged = true;
     //MITK_INFO <<"Hotspot calculation changed, new convolution required";
     this->Modified();
   }
 }
 
 bool ImageStatisticsCalculator::IsHotspotCalculated()
 {
   return m_CalculateHotspot;
 }
 
 void ImageStatisticsCalculator::SetHotspotMustBeCompletlyInsideImage(bool hotspotMustBeCompletelyInsideImage, bool warn)
 {
   m_HotspotMustBeCompletelyInsideImage = hotspotMustBeCompletelyInsideImage;
   if (!m_HotspotMustBeCompletelyInsideImage && warn)
   {
     MITK_WARN << "Hotspot calculation will extrapolate pixels at image borders. Be aware of the consequences for the hotspot location.";
   }
 }
 
 bool ImageStatisticsCalculator::GetHotspotMustBeCompletlyInsideImage() const
 {
   return m_HotspotMustBeCompletelyInsideImage;
 }
 
 bool ImageStatisticsCalculator::ComputeStatistics( unsigned int timeStep )
 {
 
   if (m_Image.IsNull() )
   {
     mitkThrow() << "Image not set!";
   }
 
   if (!m_Image->IsInitialized())
   {
     mitkThrow() << "Image not initialized!";
   }
 
   if ( m_Image->GetReferenceCount() == 1 )
   {
     // Image no longer valid; we are the only ones to still hold a reference on it
     return false;
   }
 
   if ( timeStep >= m_Image->GetTimeSteps() )
   {
     throw std::runtime_error( "Error: invalid time step!" );
   }
 
   // If a mask was set but we are the only ones to still hold a reference on
   // it, delete it.
   if ( m_ImageMask.IsNotNull() && (m_ImageMask->GetReferenceCount() == 1) )
   {
     m_ImageMask = NULL;
   }
 
   // Check if statistics is already up-to-date
   unsigned long imageMTime = m_ImageStatisticsTimeStampVector[timeStep].GetMTime();
   unsigned long maskedImageMTime = m_MaskedImageStatisticsTimeStampVector[timeStep].GetMTime();
   unsigned long planarFigureMTime = m_PlanarFigureStatisticsTimeStampVector[timeStep].GetMTime();
 
   bool imageStatisticsCalculationTrigger = m_ImageStatisticsCalculationTriggerVector[timeStep];
   bool maskedImageStatisticsCalculationTrigger = m_MaskedImageStatisticsCalculationTriggerVector[timeStep];
   bool planarFigureStatisticsCalculationTrigger = m_PlanarFigureStatisticsCalculationTriggerVector[timeStep];
 
   if ( !m_IgnorePixelValueChanged
     && !m_HotspotRadiusInMMChanged
     && ((m_MaskingMode != MASKING_MODE_NONE) || (imageMTime > m_Image->GetMTime() && !imageStatisticsCalculationTrigger))
     && ((m_MaskingMode != MASKING_MODE_IMAGE) || (maskedImageMTime > m_ImageMask->GetMTime() && !maskedImageStatisticsCalculationTrigger))
     && ((m_MaskingMode != MASKING_MODE_PLANARFIGURE) || (planarFigureMTime > m_PlanarFigure->GetMTime() && !planarFigureStatisticsCalculationTrigger)) )
   {
     // Statistics is up to date!
     if ( m_MaskingModeChanged )
     {
       m_MaskingModeChanged = false;
     }
     else
     {
       return false;
     }
   }
 
   // Reset state changed flag
   m_MaskingModeChanged = false;
   m_IgnorePixelValueChanged = false;
 
   // Depending on masking mode, extract and/or generate the required image
   // and mask data from the user input
   this->ExtractImageAndMask( timeStep );
 
 
   StatisticsContainer *statisticsContainer;
   HistogramContainer *histogramContainer;
   switch ( m_MaskingMode )
   {
   case MASKING_MODE_NONE:
   default:
     if(!m_DoIgnorePixelValue)
     {
       statisticsContainer = &m_ImageStatisticsVector[timeStep];
       histogramContainer = &m_ImageHistogramVector[timeStep];
 
       m_ImageStatisticsTimeStampVector[timeStep].Modified();
       m_ImageStatisticsCalculationTriggerVector[timeStep] = false;
     }
     else
     {
       statisticsContainer = &m_MaskedImageStatisticsVector[timeStep];
       histogramContainer = &m_MaskedImageHistogramVector[timeStep];
 
       m_MaskedImageStatisticsTimeStampVector[timeStep].Modified();
       m_MaskedImageStatisticsCalculationTriggerVector[timeStep] = false;
     }
     break;
 
   case MASKING_MODE_IMAGE:
     statisticsContainer = &m_MaskedImageStatisticsVector[timeStep];
     histogramContainer = &m_MaskedImageHistogramVector[timeStep];
 
     m_MaskedImageStatisticsTimeStampVector[timeStep].Modified();
     m_MaskedImageStatisticsCalculationTriggerVector[timeStep] = false;
     break;
 
   case MASKING_MODE_PLANARFIGURE:
     statisticsContainer = &m_PlanarFigureStatisticsVector[timeStep];
     histogramContainer = &m_PlanarFigureHistogramVector[timeStep];
 
     m_PlanarFigureStatisticsTimeStampVector[timeStep].Modified();
     m_PlanarFigureStatisticsCalculationTriggerVector[timeStep] = false;
     break;
   }
 
   // Calculate statistics and histogram(s)
   if ( m_InternalImage->GetDimension() == 3 )
   {
     if ( m_MaskingMode == MASKING_MODE_NONE && !m_DoIgnorePixelValue )
     {
       AccessFixedDimensionByItk_2(
         m_InternalImage,
         InternalCalculateStatisticsUnmasked,
         3,
         statisticsContainer,
         histogramContainer );
     }
     else
     {
       AccessFixedDimensionByItk_3(
         m_InternalImage,
         InternalCalculateStatisticsMasked,
         3,
         m_InternalImageMask3D.GetPointer(),
         statisticsContainer,
         histogramContainer );
     }
   }
   else if ( m_InternalImage->GetDimension() == 2 )
   {
     if ( m_MaskingMode == MASKING_MODE_NONE && !m_DoIgnorePixelValue )
     {
       AccessFixedDimensionByItk_2(
         m_InternalImage,
         InternalCalculateStatisticsUnmasked,
         2,
         statisticsContainer,
         histogramContainer );
     }
     else
     {
       AccessFixedDimensionByItk_3(
         m_InternalImage,
         InternalCalculateStatisticsMasked,
         2,
         m_InternalImageMask2D.GetPointer(),
         statisticsContainer,
         histogramContainer );
     }
   }
   else
   {
     MITK_ERROR << "ImageStatistics: Image dimension not supported!";
   }
 
 
   // Release unused image smart pointers to free memory
   m_InternalImage = mitk::Image::ConstPointer();
   m_InternalImageMask3D = MaskImage3DType::Pointer();
   m_InternalImageMask2D = MaskImage2DType::Pointer();
   return true;
 }
 
 
 const ImageStatisticsCalculator::HistogramType *
 ImageStatisticsCalculator::GetHistogram( unsigned int timeStep, unsigned int label ) const
 {
   if ( m_Image.IsNull() || (timeStep >= m_Image->GetTimeSteps()) )
   {
     return NULL;
   }
 
   switch ( m_MaskingMode )
   {
   case MASKING_MODE_NONE:
   default:
     {
       if(m_DoIgnorePixelValue)
         return m_MaskedImageHistogramVector[timeStep][label];
 
       return m_ImageHistogramVector[timeStep][label];
     }
 
   case MASKING_MODE_IMAGE:
     return m_MaskedImageHistogramVector[timeStep][label];
 
   case MASKING_MODE_PLANARFIGURE:
     return m_PlanarFigureHistogramVector[timeStep][label];
   }
 }
 
 const ImageStatisticsCalculator::HistogramContainer &
 ImageStatisticsCalculator::GetHistogramVector( unsigned int timeStep ) const
 {
   if ( m_Image.IsNull() || (timeStep >= m_Image->GetTimeSteps()) )
   {
     return m_EmptyHistogramContainer;
   }
 
   switch ( m_MaskingMode )
   {
   case MASKING_MODE_NONE:
   default:
     {
       if(m_DoIgnorePixelValue)
         return m_MaskedImageHistogramVector[timeStep];
 
       return m_ImageHistogramVector[timeStep];
     }
 
   case MASKING_MODE_IMAGE:
     return m_MaskedImageHistogramVector[timeStep];
 
   case MASKING_MODE_PLANARFIGURE:
     return m_PlanarFigureHistogramVector[timeStep];
   }
 }
 
 
 const ImageStatisticsCalculator::Statistics &
 ImageStatisticsCalculator::GetStatistics( unsigned int timeStep, unsigned int label ) const
 {
   if ( m_Image.IsNull() || (timeStep >= m_Image->GetTimeSteps()) )
   {
     return m_EmptyStatistics;
   }
 
   switch ( m_MaskingMode )
   {
   case MASKING_MODE_NONE:
   default:
     {
       if(m_DoIgnorePixelValue)
         return m_MaskedImageStatisticsVector[timeStep][label];
 
       return m_ImageStatisticsVector[timeStep][label];
     }
   case MASKING_MODE_IMAGE:
     return m_MaskedImageStatisticsVector[timeStep][label];
 
   case MASKING_MODE_PLANARFIGURE:
     return m_PlanarFigureStatisticsVector[timeStep][label];
   }
 }
 
 const ImageStatisticsCalculator::StatisticsContainer &
 ImageStatisticsCalculator::GetStatisticsVector( unsigned int timeStep ) const
 {
   if ( m_Image.IsNull() || (timeStep >= m_Image->GetTimeSteps()) )
   {
     return m_EmptyStatisticsContainer;
   }
 
   switch ( m_MaskingMode )
   {
   case MASKING_MODE_NONE:
   default:
     {
       if(m_DoIgnorePixelValue)
         return m_MaskedImageStatisticsVector[timeStep];
 
       return m_ImageStatisticsVector[timeStep];
     }
   case MASKING_MODE_IMAGE:
     return m_MaskedImageStatisticsVector[timeStep];
 
   case MASKING_MODE_PLANARFIGURE:
     return m_PlanarFigureStatisticsVector[timeStep];
   }
 }
 
 
 
 void ImageStatisticsCalculator::ExtractImageAndMask( unsigned int timeStep )
 {
   if ( m_Image.IsNull() )
   {
     throw std::runtime_error( "Error: image empty!" );
   }
 
   if ( timeStep >= m_Image->GetTimeSteps() )
   {
     throw std::runtime_error( "Error: invalid time step!" );
   }
 
   ImageTimeSelector::Pointer imageTimeSelector = ImageTimeSelector::New();
   imageTimeSelector->SetInput( m_Image );
   imageTimeSelector->SetTimeNr( timeStep );
   imageTimeSelector->UpdateLargestPossibleRegion();
   mitk::Image *timeSliceImage = imageTimeSelector->GetOutput();
 
 
   switch ( m_MaskingMode )
   {
   case MASKING_MODE_NONE:
     {
       m_InternalImage = timeSliceImage;
       m_InternalImageMask2D = NULL;
       m_InternalImageMask3D = NULL;
 
       if(m_DoIgnorePixelValue)
       {
         if( m_InternalImage->GetDimension() == 3 )
         {
           CastToItkImage( timeSliceImage, m_InternalImageMask3D );
           m_InternalImageMask3D->FillBuffer(1);
         }
         if( m_InternalImage->GetDimension() == 2 )
         {
           CastToItkImage( timeSliceImage, m_InternalImageMask2D );
           m_InternalImageMask2D->FillBuffer(1);
         }
       }
       break;
     }
 
   case MASKING_MODE_IMAGE:
     {
       if ( m_ImageMask.IsNotNull() && (m_ImageMask->GetReferenceCount() > 1) )
       {
         if ( timeStep < m_ImageMask->GetTimeSteps() )
         {
           ImageTimeSelector::Pointer maskedImageTimeSelector = ImageTimeSelector::New();
           maskedImageTimeSelector->SetInput( m_ImageMask );
           maskedImageTimeSelector->SetTimeNr( timeStep );
           maskedImageTimeSelector->UpdateLargestPossibleRegion();
           mitk::Image *timeSliceMaskedImage = maskedImageTimeSelector->GetOutput();
 
           m_InternalImage = timeSliceImage;
           CastToItkImage( timeSliceMaskedImage, m_InternalImageMask3D );
         }
         else
         {
           throw std::runtime_error( "Error: image mask has not enough time steps!" );
         }
       }
       else
       {
         throw std::runtime_error( "Error: image mask empty!" );
       }
       break;
     }
 
   case MASKING_MODE_PLANARFIGURE:
     {
       m_InternalImageMask2D = NULL;
 
       if ( m_PlanarFigure.IsNull() )
       {
         throw std::runtime_error( "Error: planar figure empty!" );
       }
       if ( !m_PlanarFigure->IsClosed() )
       {
         throw std::runtime_error( "Masking not possible for non-closed figures" );
       }
 
       const Geometry3D *imageGeometry = timeSliceImage->GetGeometry();
       if ( imageGeometry == NULL )
       {
         throw std::runtime_error( "Image geometry invalid!" );
       }
 
       const Geometry2D *planarFigureGeometry2D = m_PlanarFigure->GetGeometry2D();
       if ( planarFigureGeometry2D == NULL )
       {
         throw std::runtime_error( "Planar-Figure not yet initialized!" );
       }
 
       const PlaneGeometry *planarFigureGeometry =
         dynamic_cast< const PlaneGeometry * >( planarFigureGeometry2D );
       if ( planarFigureGeometry == NULL )
       {
         throw std::runtime_error( "Non-planar planar figures not supported!" );
       }
 
       // Find principal direction of PlanarFigure in input image
       unsigned int axis;
       if ( !this->GetPrincipalAxis( imageGeometry,
         planarFigureGeometry->GetNormal(), axis ) )
       {
         throw std::runtime_error( "Non-aligned planar figures not supported!" );
       }
       m_PlanarFigureAxis = axis;
 
 
       // Find slice number corresponding to PlanarFigure in input image
       MaskImage3DType::IndexType index;
       imageGeometry->WorldToIndex( planarFigureGeometry->GetOrigin(), index );
 
       unsigned int slice = index[axis];
       m_PlanarFigureSlice = slice;
 
 
       // Extract slice with given position and direction from image
       unsigned int dimension = timeSliceImage->GetDimension();
 
       if (dimension != 2)
       {
         ExtractImageFilter::Pointer imageExtractor = ExtractImageFilter::New();
         imageExtractor->SetInput( timeSliceImage );
         imageExtractor->SetSliceDimension( axis );
         imageExtractor->SetSliceIndex( slice );
         imageExtractor->Update();
         m_InternalImage = imageExtractor->GetOutput();
       }
       else
       {
         m_InternalImage = timeSliceImage;
       }
 
       // Compute mask from PlanarFigure
       AccessFixedDimensionByItk_1(
         m_InternalImage,
         InternalCalculateMaskFromPlanarFigure,
         2, axis );
     }
   }
 
   if(m_DoIgnorePixelValue)
   {
     if ( m_InternalImage->GetDimension() == 3 )
     {
       AccessFixedDimensionByItk_1(
           m_InternalImage,
           InternalMaskIgnoredPixels,
           3,
           m_InternalImageMask3D.GetPointer() );
     }
     else if ( m_InternalImage->GetDimension() == 2 )
     {
       AccessFixedDimensionByItk_1(
           m_InternalImage,
           InternalMaskIgnoredPixels,
           2,
           m_InternalImageMask2D.GetPointer() );
     }
   }
 }
 
 
 bool ImageStatisticsCalculator::GetPrincipalAxis(
   const Geometry3D *geometry, Vector3D vector,
   unsigned int &axis )
 {
   vector.Normalize();
   for ( unsigned int i = 0; i < 3; ++i )
   {
     Vector3D axisVector = geometry->GetAxisVector( i );
     axisVector.Normalize();
 
     if ( fabs( fabs( axisVector * vector ) - 1.0) < mitk::eps )
     {
       axis = i;
       return true;
     }
   }
 
   return false;
 }
 
 
 template < typename TPixel, unsigned int VImageDimension >
 void ImageStatisticsCalculator::InternalCalculateStatisticsUnmasked(
   const itk::Image< TPixel, VImageDimension > *image,
   StatisticsContainer *statisticsContainer,
   HistogramContainer* histogramContainer )
 {
   typedef itk::Image< TPixel, VImageDimension > ImageType;
   typedef typename ImageType::IndexType IndexType;
 
   typedef itk::Statistics::ScalarImageToHistogramGenerator< ImageType >
     HistogramGeneratorType;
 
   statisticsContainer->clear();
   histogramContainer->clear();
 
   // Progress listening...
   typedef itk::SimpleMemberCommand< ImageStatisticsCalculator > ITKCommandType;
   ITKCommandType::Pointer progressListener;
   progressListener = ITKCommandType::New();
   progressListener->SetCallbackFunction( this,
     &ImageStatisticsCalculator::UnmaskedStatisticsProgressUpdate );
 
 
   // Issue 100 artificial progress events since ScalarIMageToHistogramGenerator
   // does not (yet?) support progress reporting
   this->InvokeEvent( itk::StartEvent() );
   for ( unsigned int i = 0; i < 100; ++i )
   {
     this->UnmaskedStatisticsProgressUpdate();
   }
 
   // Calculate statistics (separate filter)
   typedef itk::StatisticsImageFilter< ImageType > StatisticsFilterType;
   typename StatisticsFilterType::Pointer statisticsFilter = StatisticsFilterType::New();
   statisticsFilter->SetInput( image );
 
   unsigned long observerTag = statisticsFilter->AddObserver( itk::ProgressEvent(), progressListener );
   statisticsFilter->Update();
   statisticsFilter->RemoveObserver( observerTag );
   this->InvokeEvent( itk::EndEvent() );
 
   // Calculate minimum and maximum
   typedef itk::MinimumMaximumImageCalculator< ImageType > MinMaxFilterType;
   typename MinMaxFilterType::Pointer minMaxFilter = MinMaxFilterType::New();
   minMaxFilter->SetImage( image );
   unsigned long observerTag2 = minMaxFilter->AddObserver( itk::ProgressEvent(), progressListener );
   minMaxFilter->Compute();
   minMaxFilter->RemoveObserver( observerTag2 );
   this->InvokeEvent( itk::EndEvent() );
 
   Statistics statistics; statistics.Reset();
   statistics.SetLabel(1);
   statistics.SetN(image->GetBufferedRegion().GetNumberOfPixels());
   statistics.SetMin(statisticsFilter->GetMinimum());
   statistics.SetMax(statisticsFilter->GetMaximum());
   statistics.SetMean(statisticsFilter->GetMean());
   statistics.SetMedian(0.0);
   statistics.SetVariance(statisticsFilter->GetVariance());
   statistics.SetSigma(statisticsFilter->GetSigma());
   statistics.SetRMS(sqrt( statistics.GetMean() * statistics.GetMean() + statistics.GetSigma() * statistics.GetSigma() ));
 
   statistics.GetMinIndex().set_size(image->GetImageDimension());
   statistics.GetMaxIndex().set_size(image->GetImageDimension());
 
   vnl_vector<int> tmpMaxIndex;
   vnl_vector<int> tmpMinIndex;
 
   tmpMaxIndex.set_size(image->GetImageDimension() );
   tmpMinIndex.set_size(image->GetImageDimension() );
 
   for (unsigned int i=0; i<statistics.GetMaxIndex().size(); i++)
   {
     tmpMaxIndex[i] = minMaxFilter->GetIndexOfMaximum()[i];
     tmpMinIndex[i] = minMaxFilter->GetIndexOfMinimum()[i];
   }
 
   statistics.SetMinIndex(tmpMaxIndex);
   statistics.SetMinIndex(tmpMinIndex);
 
   if( IsHotspotCalculated() && VImageDimension == 3 )
   {
     typedef itk::Image< unsigned short, VImageDimension > MaskImageType;
     typename MaskImageType::Pointer nullMask;
     bool isHotspotDefined(false);
     Statistics hotspotStatistics = this->CalculateHotspotStatistics(image, nullMask.GetPointer(), m_HotspotRadiusInMM, isHotspotDefined, 0 );
     if (isHotspotDefined)
     {
       statistics.SetHasHotspotStatistics(true);
       statistics.GetHotspotStatistics() = hotspotStatistics;
     }
     else
     {
       statistics.SetHasHotspotStatistics(false);
     }
 
     if(statistics.GetHotspotStatistics().HasHotspotStatistics() )
     {
       MITK_DEBUG << "Hotspot statistics available";
       statistics.SetHotspotIndex(hotspotStatistics.GetHotspotIndex());
     }
     else
     {
       MITK_ERROR << "No hotspot statistics available!";
     }
   }
 
   statisticsContainer->push_back( statistics );
 
    // Calculate histogram
   typename HistogramGeneratorType::Pointer histogramGenerator = HistogramGeneratorType::New();
   histogramGenerator->SetInput( image );
   histogramGenerator->SetMarginalScale( 100 );
   histogramGenerator->SetNumberOfBins( 768 );
   histogramGenerator->SetHistogramMin( statistics.GetMin() );
   histogramGenerator->SetHistogramMax( statistics.GetMax() );
   histogramGenerator->Compute();
 
   histogramContainer->push_back( histogramGenerator->GetOutput() );
 }
 
 template < typename TPixel, unsigned int VImageDimension >
 void ImageStatisticsCalculator::InternalMaskIgnoredPixels(
   const itk::Image< TPixel, VImageDimension > *image,
   itk::Image< unsigned short, VImageDimension > *maskImage )
 {
   typedef itk::Image< TPixel, VImageDimension > ImageType;
   typedef itk::Image< unsigned short, VImageDimension > MaskImageType;
 
   itk::ImageRegionIterator<MaskImageType>
       itmask(maskImage, maskImage->GetLargestPossibleRegion());
   itk::ImageRegionConstIterator<ImageType>
       itimage(image, image->GetLargestPossibleRegion());
 
   itmask.GoToBegin();
   itimage.GoToBegin();
 
   while( !itmask.IsAtEnd() )
   {
     if(m_IgnorePixelValue == itimage.Get())
     {
       itmask.Set(0);
     }
 
     ++itmask;
     ++itimage;
   }
 }
 
 template < typename TPixel, unsigned int VImageDimension >
 void ImageStatisticsCalculator::InternalCalculateStatisticsMasked(
   const itk::Image< TPixel, VImageDimension > *image,
   itk::Image< unsigned short, VImageDimension > *maskImage,
   StatisticsContainer* statisticsContainer,
   HistogramContainer* histogramContainer )
 {
   typedef itk::Image< TPixel, VImageDimension > ImageType;
   typedef itk::Image< unsigned short, VImageDimension > MaskImageType;
 
   typedef typename ImageType::IndexType IndexType;
   typedef typename ImageType::PointType PointType;
   typedef typename ImageType::SpacingType SpacingType;
 
   typedef itk::LabelStatisticsImageFilter< ImageType, MaskImageType > LabelStatisticsFilterType;
 
   typedef itk::ChangeInformationImageFilter< MaskImageType > ChangeInformationFilterType;
 
   typedef itk::ExtractImageFilter< ImageType, ImageType > ExtractImageFilterType;
 
   statisticsContainer->clear();
   histogramContainer->clear();
 
   // Make sure that mask is set
   if ( maskImage == NULL  )
   {
     itkExceptionMacro( << "Mask image needs to be set!" );
   }
 
 
   // Make sure that spacing of mask and image are the same
   SpacingType imageSpacing = image->GetSpacing();
   SpacingType maskSpacing = maskImage->GetSpacing();
   PointType zeroPoint; zeroPoint.Fill( 0.0 );
   if ( (zeroPoint + imageSpacing).SquaredEuclideanDistanceTo( (zeroPoint + maskSpacing) ) > mitk::eps )
   {
     itkExceptionMacro( << "Mask needs to have same spacing as image! (Image spacing: " << imageSpacing << "; Mask spacing: " << maskSpacing << ")" );
   }
 
   // Make sure that orientation of mask and image are the same
   typedef typename ImageType::DirectionType DirectionType;
   DirectionType imageDirection = image->GetDirection();
   DirectionType maskDirection = maskImage->GetDirection();
   for( int i = 0; i < imageDirection.ColumnDimensions; ++i )
   {
     for( int j = 0; j < imageDirection.ColumnDimensions; ++j )
     {
       double differenceDirection = imageDirection[i][j] - maskDirection[i][j];
       if ( fabs( differenceDirection ) > 0.001 /*mitk::eps*/ ) // TODO: temp fix (bug 17121)
       {
         itkExceptionMacro( << "Mask needs to have same direction as image! (Image direction: " << imageDirection << "; Mask direction: " << maskDirection << ")" );
       }
     }
   }
 
   // Make sure that the voxels of mask and image are correctly "aligned", i.e., voxel boundaries are the same in both images
   PointType imageOrigin = image->GetOrigin();
   PointType maskOrigin = maskImage->GetOrigin();
   long offset[ImageType::ImageDimension];
 
   typedef itk::ContinuousIndex<double, VImageDimension> ContinousIndexType;
   ContinousIndexType maskOriginContinousIndex, imageOriginContinousIndex;
 
   image->TransformPhysicalPointToContinuousIndex(maskOrigin, maskOriginContinousIndex);
   image->TransformPhysicalPointToContinuousIndex(imageOrigin, imageOriginContinousIndex);
 
   for ( unsigned int i = 0; i < ImageType::ImageDimension; ++i )
   {
     double misalignment = maskOriginContinousIndex[i] - floor( maskOriginContinousIndex[i] + 0.5 );
     if ( fabs( misalignment ) > 0.001 /*mitk::eps*/ ) // TODO: temp fix, check for a better solution to allow 'small' alignment errors (bug 17121)
     {
       itkExceptionMacro( << "Pixels/voxels of mask and image are not sufficiently aligned! (Misalignment: " << misalignment << ")" );
     }
 
     double indexCoordDistance = maskOriginContinousIndex[i] - imageOriginContinousIndex[i];
-    offset[i] = (int) indexCoordDistance + image->GetBufferedRegion().GetIndex()[i];
+    offset[i] = int( indexCoordDistance + image->GetBufferedRegion().GetIndex()[i] + 0.5 );
   }
 
   // Adapt the origin and region (index/size) of the mask so that the origin of both are the same
   typename ChangeInformationFilterType::Pointer adaptMaskFilter;
   adaptMaskFilter = ChangeInformationFilterType::New();
   adaptMaskFilter->ChangeOriginOn();
   adaptMaskFilter->ChangeRegionOn();
   adaptMaskFilter->SetInput( maskImage );
   adaptMaskFilter->SetOutputOrigin( image->GetOrigin() );
   adaptMaskFilter->SetOutputOffset( offset );
   adaptMaskFilter->Update();
   typename MaskImageType::Pointer adaptedMaskImage = adaptMaskFilter->GetOutput();
 
   // Make sure that mask region is contained within image region
   if ( !image->GetLargestPossibleRegion().IsInside( adaptedMaskImage->GetLargestPossibleRegion() ) )
   {
     itkExceptionMacro( << "Mask region needs to be inside of image region! (Image region: "
       << image->GetLargestPossibleRegion() << "; Mask region: " << adaptedMaskImage->GetLargestPossibleRegion() << ")" );
   }
 
 
   // If mask region is smaller than image region, extract the sub-sampled region from the original image
   typename ImageType::SizeType imageSize = image->GetBufferedRegion().GetSize();
   typename ImageType::SizeType maskSize = maskImage->GetBufferedRegion().GetSize();
   bool maskSmallerImage = false;
   for ( unsigned int i = 0; i < ImageType::ImageDimension; ++i )
   {
     if ( maskSize[i] < imageSize[i] )
     {
       maskSmallerImage = true;
     }
   }
 
   typename ImageType::ConstPointer adaptedImage;
   if ( maskSmallerImage )
   {
     typename ExtractImageFilterType::Pointer extractImageFilter = ExtractImageFilterType::New();
     extractImageFilter->SetInput( image );
     extractImageFilter->SetExtractionRegion( adaptedMaskImage->GetBufferedRegion() );
     extractImageFilter->Update();
     adaptedImage = extractImageFilter->GetOutput();
   }
   else
   {
     adaptedImage = image;
   }
 
   // Initialize Filter
   typedef itk::StatisticsImageFilter< ImageType > StatisticsFilterType;
   typename StatisticsFilterType::Pointer statisticsFilter = StatisticsFilterType::New();
   statisticsFilter->SetInput( adaptedImage );
 
   statisticsFilter->Update();
 
   int numberOfBins = ( m_DoIgnorePixelValue && (m_MaskingMode == MASKING_MODE_NONE) ) ? 768 : 384;
   typename LabelStatisticsFilterType::Pointer labelStatisticsFilter;
   labelStatisticsFilter = LabelStatisticsFilterType::New();
   labelStatisticsFilter->SetInput( adaptedImage );
   labelStatisticsFilter->SetLabelInput( adaptedMaskImage );
   labelStatisticsFilter->UseHistogramsOn();
   labelStatisticsFilter->SetHistogramParameters( numberOfBins, statisticsFilter->GetMinimum(), statisticsFilter->GetMaximum() );
 
 
   // Add progress listening
   typedef itk::SimpleMemberCommand< ImageStatisticsCalculator > ITKCommandType;
   ITKCommandType::Pointer progressListener;
   progressListener = ITKCommandType::New();
   progressListener->SetCallbackFunction( this,
     &ImageStatisticsCalculator::MaskedStatisticsProgressUpdate );
   unsigned long observerTag = labelStatisticsFilter->AddObserver(
     itk::ProgressEvent(), progressListener );
 
   // Execute filter
   this->InvokeEvent( itk::StartEvent() );
 
   // Make sure that only the mask region is considered (otherwise, if the mask region is smaller
   // than the image region, the Update() would result in an exception).
   labelStatisticsFilter->GetOutput()->SetRequestedRegion( adaptedMaskImage->GetLargestPossibleRegion() );
 
 
   // Execute the filter
   labelStatisticsFilter->Update();
   this->InvokeEvent( itk::EndEvent() );
   labelStatisticsFilter->RemoveObserver( observerTag );
 
   // Find all relevant labels of mask (other than 0)
   std::list< int > relevantLabels;
   bool maskNonEmpty = false;
   unsigned int i;
   for ( i = 1; i < 4096; ++i )
   {
     if ( labelStatisticsFilter->HasLabel( i ) )
     {
       relevantLabels.push_back( i );
       maskNonEmpty = true;
     }
   }
 
   if ( maskNonEmpty )
   {
     std::list< int >::iterator it;
     for ( it = relevantLabels.begin(), i = 0;
       it != relevantLabels.end();
       ++it, ++i )
     {
       Statistics statistics; // restore previous code
       histogramContainer->push_back( HistogramType::ConstPointer( labelStatisticsFilter->GetHistogram( (*it) ) ) );
 
       statistics.SetLabel (*it);
       statistics.SetN(labelStatisticsFilter->GetCount( *it ));
       statistics.SetMin(labelStatisticsFilter->GetMinimum( *it ));
       statistics.SetMax(labelStatisticsFilter->GetMaximum( *it ));
       statistics.SetMean(labelStatisticsFilter->GetMean( *it ));
       statistics.SetMedian(labelStatisticsFilter->GetMedian( *it ));
       statistics.SetVariance(labelStatisticsFilter->GetVariance( *it ));
       statistics.SetSigma(labelStatisticsFilter->GetSigma( *it ));
       statistics.SetRMS(sqrt( statistics.GetMean() * statistics.GetMean()
         + statistics.GetSigma() * statistics.GetSigma() ));
 
       // restrict image to mask area for min/max index calculation
       typedef itk::MaskImageFilter< ImageType, MaskImageType, ImageType > MaskImageFilterType;
       typename MaskImageFilterType::Pointer masker = MaskImageFilterType::New();
       masker->SetOutsideValue( (statistics.GetMin()+statistics.GetMax())/2 );
       masker->SetInput1(adaptedImage);
       masker->SetInput2(adaptedMaskImage);
       masker->Update();
       // get index of minimum and maximum
       typedef itk::MinimumMaximumImageCalculator< ImageType > MinMaxFilterType;
       typename MinMaxFilterType::Pointer minMaxFilter = MinMaxFilterType::New();
       minMaxFilter->SetImage( masker->GetOutput() );
       unsigned long observerTag2 = minMaxFilter->AddObserver( itk::ProgressEvent(), progressListener );
       minMaxFilter->Compute();
       minMaxFilter->RemoveObserver( observerTag2 );
       this->InvokeEvent( itk::EndEvent() );
 
 
       typename MinMaxFilterType::IndexType tempMaxIndex = minMaxFilter->GetIndexOfMaximum();
       typename MinMaxFilterType::IndexType tempMinIndex = minMaxFilter->GetIndexOfMinimum();
 
       // FIX BUG 14644
       //If a PlanarFigure is used for segmentation the
       //adaptedImage is a single slice (2D). Adding the
       // 3. dimension.
 
       vnl_vector<int> maxIndex;
       vnl_vector<int> minIndex;
       maxIndex.set_size(m_Image->GetDimension());
       minIndex.set_size(m_Image->GetDimension());
 
       if (m_MaskingMode == MASKING_MODE_PLANARFIGURE && m_Image->GetDimension()==3)
       {
         maxIndex[m_PlanarFigureCoordinate0] = tempMaxIndex[0];
         maxIndex[m_PlanarFigureCoordinate1] = tempMaxIndex[1];
         maxIndex[m_PlanarFigureAxis] = m_PlanarFigureSlice;
 
         minIndex[m_PlanarFigureCoordinate0] = tempMinIndex[0] ;
         minIndex[m_PlanarFigureCoordinate1] = tempMinIndex[1];
         minIndex[m_PlanarFigureAxis] = m_PlanarFigureSlice;
       } else
       {
         for (unsigned int i = 0; i<maxIndex.size(); i++)
         {
           maxIndex[i] = tempMaxIndex[i];
           minIndex[i] = tempMinIndex[i];
         }
       }
     // FIX END
       statistics.SetMaxIndex(maxIndex);
       statistics.SetMinIndex(minIndex);
       /*****************************************************Calculate Hotspot Statistics**********************************************/
 
       if(IsHotspotCalculated() && VImageDimension == 3)
       {
         bool isDefined(false);
         Statistics hotspotStatistics = CalculateHotspotStatistics(adaptedImage.GetPointer(), adaptedMaskImage.GetPointer(),GetHotspotRadiusInMM(), isDefined, *it);
         statistics.GetHotspotStatistics() = hotspotStatistics;
         if(statistics.GetHotspotStatistics().HasHotspotStatistics())
         {
           MITK_DEBUG << "Hotspot statistics available";
           statistics.SetHotspotIndex( hotspotStatistics.GetHotspotIndex() );
         }
         else
         {
           MITK_ERROR << "No hotspot statistics available!";
         }
       }
       statisticsContainer->push_back( statistics );
     }
   }
   else
   {
     histogramContainer->push_back( HistogramType::ConstPointer( m_EmptyHistogram ) );
     statisticsContainer->push_back( Statistics() );
   }
 }
 
 template <typename TPixel, unsigned int VImageDimension  >
 ImageStatisticsCalculator::ImageExtrema
 ImageStatisticsCalculator::CalculateExtremaWorld(
   const itk::Image<TPixel, VImageDimension> *inputImage,
   itk::Image<unsigned short, VImageDimension> *maskImage,
   double neccessaryDistanceToImageBorderInMM,
   unsigned int label)
 {
   typedef itk::Image< TPixel, VImageDimension > ImageType;
   typedef itk::Image< unsigned short, VImageDimension > MaskImageType;
 
   typedef itk::ImageRegionConstIteratorWithIndex<MaskImageType> MaskImageIteratorType;
   typedef itk::ImageRegionConstIteratorWithIndex<ImageType> InputImageIndexIteratorType;
 
   typename ImageType::SpacingType spacing = inputImage->GetSpacing();
 
   ImageExtrema minMax;
   minMax.Defined = false;
   minMax.MaxIndex.set_size(VImageDimension);
   minMax.MaxIndex.set_size(VImageDimension);
 
   typename ImageType::RegionType allowedExtremaRegion = inputImage->GetLargestPossibleRegion();
 
   bool keepDistanceToImageBorders( neccessaryDistanceToImageBorderInMM > 0 );
   if (keepDistanceToImageBorders)
   {
     long distanceInPixels[VImageDimension];
     for(unsigned short dimension = 0; dimension < VImageDimension; ++dimension)
     {
       // To confirm that the whole hotspot is inside the image we have to keep a specific distance to the image-borders, which is as long as
       // the radius. To get the amount of indices we divide the radius by spacing and add 0.5 because voxels are center based:
       // For example with a radius of 2.2 and a spacing of 1 two indices are enough because 2.2 / 1 + 0.5 = 2.7 => 2.
       // But with a radius of 2.7 we need 3 indices because 2.7 / 1 + 0.5 = 3.2 => 3
       distanceInPixels[dimension] = int( neccessaryDistanceToImageBorderInMM / spacing[dimension] + 0.5);
     }
 
     allowedExtremaRegion.ShrinkByRadius(distanceInPixels);
   }
 
   InputImageIndexIteratorType imageIndexIt(inputImage, allowedExtremaRegion);
 
   float maxValue = itk::NumericTraits<float>::min();
   float minValue = itk::NumericTraits<float>::max();
 
   typename ImageType::IndexType maxIndex;
   typename ImageType::IndexType minIndex;
 
   for(unsigned short i = 0; i < VImageDimension; ++i)
   {
     maxIndex[i] = 0;
     minIndex[i] = 0;
   }
 
   if (maskImage != NULL)
   {
     MaskImageIteratorType maskIt(maskImage, maskImage->GetLargestPossibleRegion());
     typename ImageType::IndexType imageIndex;
     typename ImageType::PointType worldPosition;
     typename ImageType::IndexType maskIndex;
 
     for(maskIt.GoToBegin(); !maskIt.IsAtEnd(); ++maskIt)
     {
       imageIndex = maskIndex = maskIt.GetIndex();
 
       if(maskIt.Get() == label)
       {
         if( allowedExtremaRegion.IsInside(imageIndex) )
         {
           imageIndexIt.SetIndex( imageIndex );
           double value = imageIndexIt.Get();
           minMax.Defined = true;
 
           //Calculate minimum, maximum and corresponding index-values
           if( value > maxValue )
           {
             maxIndex = imageIndexIt.GetIndex();
             maxValue = value;
           }
 
           if(value < minValue )
           {
             minIndex = imageIndexIt.GetIndex();
             minValue = value;
           }
         }
       }
     }
   }
   else
   {
     for(imageIndexIt.GoToBegin(); !imageIndexIt.IsAtEnd(); ++imageIndexIt)
     {
       double value = imageIndexIt.Get();
       minMax.Defined = true;
 
       //Calculate minimum, maximum and corresponding index-values
       if( value > maxValue )
       {
         maxIndex = imageIndexIt.GetIndex();
         maxValue = value;
       }
 
       if(value < minValue )
       {
         minIndex = imageIndexIt.GetIndex();
         minValue = value;
       }
     }
   }
 
   minMax.MaxIndex.set_size(VImageDimension);
   minMax.MinIndex.set_size(VImageDimension);
 
   for(unsigned int i = 0; i < minMax.MaxIndex.size(); ++i)
   {
     minMax.MaxIndex[i] = maxIndex[i];
   }
 
   for(unsigned int i = 0; i < minMax.MinIndex.size(); ++i)
   {
     minMax.MinIndex[i] = minIndex[i];
   }
 
   minMax.Max = maxValue;
   minMax.Min = minValue;
 
   return minMax;
 }
 
 template <unsigned int VImageDimension>
 itk::Size<VImageDimension>
 ImageStatisticsCalculator
 ::CalculateConvolutionKernelSize(double spacing[VImageDimension], double radiusInMM)
 {
   typedef itk::Image< float, VImageDimension > KernelImageType;
   typedef typename KernelImageType::SizeType SizeType;
   SizeType maskSize;
 
   for(unsigned int i = 0; i < VImageDimension; ++i)
   {
     maskSize[i] = static_cast<int>( 2 * radiusInMM / spacing[i]);
 
     // We always want an uneven size to have a clear center point in the convolution mask
     if(maskSize[i] % 2 == 0 )
     {
       ++maskSize[i];
     }
   }
   return maskSize;
 }
 
 template <unsigned int VImageDimension>
 itk::SmartPointer< itk::Image<float, VImageDimension> >
 ImageStatisticsCalculator
 ::GenerateHotspotSearchConvolutionKernel(double mmPerPixel[VImageDimension], double radiusInMM)
 {
   std::stringstream ss;
   for (unsigned int i = 0; i < VImageDimension; ++i)
   {
     ss << mmPerPixel[i];
     if (i < VImageDimension -1)
       ss << ",";
   }
   MITK_DEBUG << "Update convolution kernel for spacing (" << ss.str() << ") and radius " << radiusInMM << "mm";
 
 
   double radiusInMMSquared = radiusInMM * radiusInMM;
   typedef itk::Image< float, VImageDimension > KernelImageType;
   typename KernelImageType::Pointer convolutionKernel = KernelImageType::New();
 
   // Calculate size and allocate mask image
   typedef typename KernelImageType::SizeType SizeType;
   SizeType maskSize = this->CalculateConvolutionKernelSize<VImageDimension>(mmPerPixel, radiusInMM);
 
   Point3D convolutionMaskCenterIndex; convolutionMaskCenterIndex.Fill(0.0);
   for(unsigned int i = 0; i < VImageDimension; ++i)
   {
     convolutionMaskCenterIndex[i] = 0.5 * (double)(maskSize[i]-1);
   }
 
   typedef typename KernelImageType::IndexType IndexType;
   IndexType maskIndex;
   maskIndex.Fill(0);
 
   typedef typename KernelImageType::RegionType RegionType;
   RegionType maskRegion;
   maskRegion.SetSize(maskSize);
   maskRegion.SetIndex(maskIndex);
 
   convolutionKernel->SetRegions(maskRegion);
   convolutionKernel->SetSpacing(mmPerPixel);
   convolutionKernel->Allocate();
 
   // Fill mask image values by subsampling the image grid
   typedef itk::ImageRegionIteratorWithIndex<KernelImageType> MaskIteratorType;
   MaskIteratorType maskIt(convolutionKernel,maskRegion);
 
   int numberOfSubVoxelsPerDimension = 2; // per dimension!
   int numberOfSubVoxels = ::pow( static_cast<float>(numberOfSubVoxelsPerDimension), static_cast<float>(VImageDimension) );
   double subVoxelSizeInPixels = 1.0 / (double)numberOfSubVoxelsPerDimension;
   double valueOfOneSubVoxel = 1.0 / (double)numberOfSubVoxels;
   double maskValue = 0.0;
   Point3D subVoxelIndexPosition;
   double distanceSquared = 0.0;
 
   typedef itk::ContinuousIndex<double, VImageDimension> ContinuousIndexType;
   for(maskIt.GoToBegin(); !maskIt.IsAtEnd(); ++maskIt)
   {
     ContinuousIndexType indexPoint(maskIt.GetIndex());
     Point3D voxelPosition;
     for (unsigned int dimension = 0; dimension < VImageDimension; ++dimension)
     {
       voxelPosition[dimension] = indexPoint[dimension];
     }
 
     maskValue = 0.0;
     Vector3D subVoxelOffset; subVoxelOffset.Fill(0.0);
     // iterate sub-voxels by iterating all possible offsets
     for (subVoxelOffset[0] = -0.5 + subVoxelSizeInPixels / 2.0;
         subVoxelOffset[0] < +0.5;
         subVoxelOffset[0] += subVoxelSizeInPixels)
     {
       for (subVoxelOffset[1] = -0.5 + subVoxelSizeInPixels / 2.0;
           subVoxelOffset[1] < +0.5;
           subVoxelOffset[1] += subVoxelSizeInPixels)
       {
         for (subVoxelOffset[2] = -0.5 + subVoxelSizeInPixels / 2.0;
             subVoxelOffset[2] < +0.5;
             subVoxelOffset[2] += subVoxelSizeInPixels)
         {
           subVoxelIndexPosition = voxelPosition + subVoxelOffset; // this COULD be integrated into the for-loops if neccessary (add voxelPosition to initializer and end condition)
          distanceSquared =
               (subVoxelIndexPosition[0]-convolutionMaskCenterIndex[0]) * mmPerPixel[0] * (subVoxelIndexPosition[0]-convolutionMaskCenterIndex[0]) * mmPerPixel[0]
             + (subVoxelIndexPosition[1]-convolutionMaskCenterIndex[1]) * mmPerPixel[1] * (subVoxelIndexPosition[1]-convolutionMaskCenterIndex[1]) * mmPerPixel[1]
             + (subVoxelIndexPosition[2]-convolutionMaskCenterIndex[2]) * mmPerPixel[2] * (subVoxelIndexPosition[2]-convolutionMaskCenterIndex[2]) * mmPerPixel[2];
 
           if (distanceSquared <= radiusInMMSquared)
           {
             maskValue += valueOfOneSubVoxel;
           }
         }
       }
     }
     maskIt.Set( maskValue );
   }
 
   return convolutionKernel;
 }
 
 template <typename TPixel, unsigned int VImageDimension>
 itk::SmartPointer<itk::Image<TPixel, VImageDimension> >
 ImageStatisticsCalculator::GenerateConvolutionImage( const itk::Image<TPixel, VImageDimension>* inputImage )
 {
   double mmPerPixel[VImageDimension];
   for (unsigned int dimension = 0; dimension < VImageDimension; ++dimension)
   {
     mmPerPixel[dimension] = inputImage->GetSpacing()[dimension];
   }
 
   // update convolution kernel
   typedef itk::Image< float, VImageDimension > KernelImageType;
   typename KernelImageType::Pointer convolutionKernel = this->GenerateHotspotSearchConvolutionKernel<VImageDimension>(mmPerPixel, m_HotspotRadiusInMM);
 
   // update convolution image
   typedef itk::Image< TPixel, VImageDimension > InputImageType;
   typedef itk::Image< TPixel, VImageDimension > ConvolutionImageType;
   typedef itk::FFTConvolutionImageFilter<InputImageType,
                                          KernelImageType,
                                          ConvolutionImageType> ConvolutionFilterType;
 
   typename ConvolutionFilterType::Pointer convolutionFilter = ConvolutionFilterType::New();
   typedef itk::ConstantBoundaryCondition<InputImageType, InputImageType> BoundaryConditionType;
   BoundaryConditionType boundaryCondition;
   boundaryCondition.SetConstant(0.0);
 
   if (GetHotspotMustBeCompletlyInsideImage())
   {
     // overwrite default boundary condition
     convolutionFilter->SetBoundaryCondition(&boundaryCondition);
   }
 
   convolutionFilter->SetInput(inputImage);
   convolutionFilter->SetKernelImage(convolutionKernel);
   convolutionFilter->SetNormalize(true);
   MITK_DEBUG << "Update Convolution image for hotspot search";
   convolutionFilter->UpdateLargestPossibleRegion();
 
   typename ConvolutionImageType::Pointer convolutionImage = convolutionFilter->GetOutput();
   convolutionImage->SetSpacing( inputImage->GetSpacing() ); // only workaround because convolution filter seems to ignore spacing of input image
 
   m_HotspotRadiusInMMChanged = false;
   return convolutionImage;
 }
 
 template < typename TPixel, unsigned int VImageDimension>
 void
 ImageStatisticsCalculator
 ::FillHotspotMaskPixels( itk::Image<TPixel, VImageDimension>* maskImage,
                          itk::Point<double, VImageDimension> sphereCenter,
                          double sphereRadiusInMM)
 {
   typedef itk::Image< TPixel, VImageDimension > MaskImageType;
   typedef itk::ImageRegionIteratorWithIndex<MaskImageType> MaskImageIteratorType;
 
   MaskImageIteratorType maskIt(maskImage, maskImage->GetLargestPossibleRegion());
 
   typename MaskImageType::IndexType maskIndex;
   typename MaskImageType::PointType worldPosition;
 
   for(maskIt.GoToBegin(); !maskIt.IsAtEnd(); ++maskIt)
   {
     maskIndex = maskIt.GetIndex();
     maskImage->TransformIndexToPhysicalPoint(maskIndex, worldPosition);
     maskIt.Set( worldPosition.EuclideanDistanceTo(sphereCenter) <= sphereRadiusInMM ? 1 : 0 );
   }
 }
 
 template < typename TPixel, unsigned int VImageDimension>
 ImageStatisticsCalculator::Statistics
 ImageStatisticsCalculator::CalculateHotspotStatistics(
     const itk::Image<TPixel, VImageDimension>* inputImage,
     itk::Image<unsigned short, VImageDimension>* maskImage,
     double radiusInMM,
     bool& isHotspotDefined,
     unsigned int label)
 {
   // get convolution image (updated in GenerateConvolutionImage())
   typedef itk::Image< TPixel, VImageDimension > InputImageType;
   typedef itk::Image< TPixel, VImageDimension > ConvolutionImageType;
   typedef itk::Image< float, VImageDimension > KernelImageType;
   typedef itk::Image< unsigned short, VImageDimension > MaskImageType;
 
   //typename ConvolutionImageType::Pointer convolutionImage = dynamic_cast<ConvolutionImageType*>(this->GenerateConvolutionImage(inputImage));
   typename ConvolutionImageType::Pointer convolutionImage = this->GenerateConvolutionImage(inputImage);
 
   if (convolutionImage.IsNull())
   {
     MITK_ERROR << "Empty convolution image in CalculateHotspotStatistics(). We should never reach this state (logic error).";
     throw std::logic_error("Empty convolution image in CalculateHotspotStatistics()");
   }
 
   // find maximum in convolution image, given the current mask
   double requiredDistanceToBorder = m_HotspotMustBeCompletelyInsideImage ? m_HotspotRadiusInMM : -1.0;
   ImageExtrema convolutionImageInformation = CalculateExtremaWorld(convolutionImage.GetPointer(), maskImage, requiredDistanceToBorder, label);
 
   isHotspotDefined = convolutionImageInformation.Defined;
 
   if (!isHotspotDefined)
   {
     m_EmptyStatistics.Reset(VImageDimension);
     MITK_ERROR << "No origin of hotspot-sphere was calculated! Returning empty statistics";
     return m_EmptyStatistics;
   }
   else
   {
     // create a binary mask around the "hotspot" region, fill the shape of a sphere around our hotspot center
     typedef itk::ImageDuplicator< InputImageType > DuplicatorType;
     typename DuplicatorType::Pointer copyMachine = DuplicatorType::New();
     copyMachine->SetInputImage(inputImage);
     copyMachine->Update();
 
     typedef itk::CastImageFilter< InputImageType, MaskImageType > CastFilterType;
     typename CastFilterType::Pointer caster = CastFilterType::New();
     caster->SetInput( copyMachine->GetOutput() );
     caster->Update();
     typename MaskImageType::Pointer hotspotMaskITK = caster->GetOutput();
 
     typedef typename InputImageType::IndexType IndexType;
     IndexType maskCenterIndex;
     for (unsigned int d =0; d< VImageDimension;++d) maskCenterIndex[d]=convolutionImageInformation.MaxIndex[d];
     typename ConvolutionImageType::PointType maskCenter;
     inputImage->TransformIndexToPhysicalPoint(maskCenterIndex,maskCenter);
 
     this->FillHotspotMaskPixels(hotspotMaskITK.GetPointer(), maskCenter, radiusInMM);
 
     // calculate statistics within the binary mask
     typedef itk::LabelStatisticsImageFilter< InputImageType, MaskImageType> LabelStatisticsFilterType;
     typename LabelStatisticsFilterType::Pointer labelStatisticsFilter;
     labelStatisticsFilter = LabelStatisticsFilterType::New();
     labelStatisticsFilter->SetInput( inputImage );
     labelStatisticsFilter->SetLabelInput( hotspotMaskITK );
     labelStatisticsFilter->Update();
 
     Statistics hotspotStatistics;
     hotspotStatistics.SetHotspotIndex(convolutionImageInformation.MaxIndex);
     hotspotStatistics.SetMean(convolutionImageInformation.Max);
 
     if ( labelStatisticsFilter->HasLabel( 1 ) )
     {
       hotspotStatistics.SetLabel (1);
       hotspotStatistics.SetN(labelStatisticsFilter->GetCount(1));
       hotspotStatistics.SetMin(labelStatisticsFilter->GetMinimum(1));
       hotspotStatistics.SetMax(labelStatisticsFilter->GetMaximum(1));
       hotspotStatistics.SetMedian(labelStatisticsFilter->GetMedian(1));
       hotspotStatistics.SetVariance(labelStatisticsFilter->GetVariance(1));
       hotspotStatistics.SetSigma(labelStatisticsFilter->GetSigma(1));
       hotspotStatistics.SetRMS(sqrt( hotspotStatistics.GetMean() * hotspotStatistics.GetMean()
             + hotspotStatistics.GetSigma() * hotspotStatistics.GetSigma() ));
 
       MITK_DEBUG << "Statistics for inside hotspot: Mean " << hotspotStatistics.GetMean()
         << ", SD " << hotspotStatistics.GetSigma()
         << ", Max " << hotspotStatistics.GetMax()
         << ", Min " << hotspotStatistics.GetMin();
     }
     else
     {
       MITK_ERROR << "Uh oh! Unable to calculate statistics for hotspot region...";
       return m_EmptyStatistics;
     }
 
     return hotspotStatistics;
   }
 }
 
 template < typename TPixel, unsigned int VImageDimension >
 void ImageStatisticsCalculator::InternalCalculateMaskFromPlanarFigure(
   const itk::Image< TPixel, VImageDimension > *image, unsigned int axis )
 {
   typedef itk::Image< TPixel, VImageDimension > ImageType;
 
   typedef itk::CastImageFilter< ImageType, MaskImage2DType > CastFilterType;
 
   // Generate mask image as new image with same header as input image and
   // initialize with 1.
   typename CastFilterType::Pointer castFilter = CastFilterType::New();
   castFilter->SetInput( image );
   castFilter->Update();
   castFilter->GetOutput()->FillBuffer( 1 );
 
   // all PolylinePoints of the PlanarFigure are stored in a vtkPoints object.
   // These points are used by the vtkLassoStencilSource to create
   // a vtkImageStencil.
   const mitk::Geometry2D *planarFigureGeometry2D = m_PlanarFigure->GetGeometry2D();
   const typename PlanarFigure::PolyLineType planarFigurePolyline = m_PlanarFigure->GetPolyLine( 0 );
   const mitk::Geometry3D *imageGeometry3D = m_Image->GetGeometry( 0 );
 
   // Determine x- and y-dimensions depending on principal axis
   int i0, i1;
   switch ( axis )
   {
     case 0:
       i0 = 1;
       i1 = 2;
       break;
 
     case 1:
       i0 = 0;
       i1 = 2;
       break;
 
     case 2:
     default:
       i0 = 0;
       i1 = 1;
       break;
   }
   m_PlanarFigureCoordinate0= i0;
   m_PlanarFigureCoordinate1= i1;
 
   // store the polyline contour as vtkPoints object
   bool outOfBounds = false;
   vtkSmartPointer<vtkPoints> points = vtkSmartPointer<vtkPoints>::New();
   typename PlanarFigure::PolyLineType::const_iterator it;
   for ( it = planarFigurePolyline.begin();
         it != planarFigurePolyline.end();
         ++it )
   {
     Point3D point3D;
 
     // Convert 2D point back to the local index coordinates of the selected
     // image
     planarFigureGeometry2D->Map( it->Point, point3D );
 
     // Polygons (partially) outside of the image bounds can not be processed
     // further due to a bug in vtkPolyDataToImageStencil
     if ( !imageGeometry3D->IsInside( point3D ) )
     {
       outOfBounds = true;
     }
 
     imageGeometry3D->WorldToIndex( point3D, point3D );
 
     points->InsertNextPoint( point3D[i0], point3D[i1], 0 );
   }
 
   // mark a malformed 2D planar figure ( i.e. area = 0 ) as out of bounds
   // this can happen when all control points of a rectangle lie on the same line = two of the three extents are zero
   double bounds[6] = {0, 0, 0, 0, 0, 0};
   points->GetBounds( bounds );
   bool extent_x = (fabs(bounds[0] - bounds[1])) < mitk::eps;
   bool extent_y = (fabs(bounds[2] - bounds[3])) < mitk::eps;
   bool extent_z = (fabs(bounds[4] - bounds[5])) < mitk::eps;
 
   // throw an exception if a closed planar figure is deformed, i.e. has only one non-zero extent
   if ( m_PlanarFigure->IsClosed() &&
        ((extent_x && extent_y) || (extent_x && extent_z)  || (extent_y && extent_z)))
   {
     mitkThrow() << "Figure has a zero area and cannot be used for masking.";
   }
 
   if ( outOfBounds )
   {
     throw std::runtime_error( "Figure at least partially outside of image bounds!" );
   }
 
   // create a vtkLassoStencilSource and set the points of the Polygon
   vtkSmartPointer<vtkLassoStencilSource> lassoStencil = vtkSmartPointer<vtkLassoStencilSource>::New();
   lassoStencil->SetShapeToPolygon();
   lassoStencil->SetPoints( points );
 
   // Export from ITK to VTK (to use a VTK filter)
   typedef itk::VTKImageImport< MaskImage2DType > ImageImportType;
   typedef itk::VTKImageExport< MaskImage2DType > ImageExportType;
 
   typename ImageExportType::Pointer itkExporter = ImageExportType::New();
   itkExporter->SetInput( castFilter->GetOutput() );
 
   vtkSmartPointer<vtkImageImport> vtkImporter = vtkSmartPointer<vtkImageImport>::New();
   this->ConnectPipelines( itkExporter, vtkImporter );
 
   // Apply the generated image stencil to the input image
   vtkSmartPointer<vtkImageStencil> imageStencilFilter = vtkSmartPointer<vtkImageStencil>::New();
   imageStencilFilter->SetInputConnection( vtkImporter->GetOutputPort() );
   imageStencilFilter->SetStencil( lassoStencil->GetOutput() );
   imageStencilFilter->ReverseStencilOff();
   imageStencilFilter->SetBackgroundValue( 0 );
   imageStencilFilter->Update();
 
   // Export from VTK back to ITK
   vtkSmartPointer<vtkImageExport> vtkExporter = vtkImageExport::New(); // TODO: this is WRONG, should be vtkSmartPointer<vtkImageExport>::New(), but bug # 14455
   vtkExporter->SetInputConnection( imageStencilFilter->GetOutputPort() );
   vtkExporter->Update();
 
   typename ImageImportType::Pointer itkImporter = ImageImportType::New();
   this->ConnectPipelines( vtkExporter, itkImporter );
   itkImporter->Update();
 
   // Store mask
   m_InternalImageMask2D = itkImporter->GetOutput();
 }
 
 
 void ImageStatisticsCalculator::UnmaskedStatisticsProgressUpdate()
 {
   // Need to throw away every second progress event to reach a final count of
   // 100 since two consecutive filters are used in this case
   static int updateCounter = 0;
   if ( updateCounter++ % 2 == 0 )
   {
     this->InvokeEvent( itk::ProgressEvent() );
   }
 }
 
 
 void ImageStatisticsCalculator::MaskedStatisticsProgressUpdate()
 {
   this->InvokeEvent( itk::ProgressEvent() );
 }
 
 }