itkGradientImageToBloxBoundaryPointImageFilter.txx

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/*=========================================================================

  Program:   Insight Segmentation & Registration Toolkit
  Module:    $RCSfile: itkGradientImageToBloxBoundaryPointImageFilter.txx,v $
  Language:  C++
  Date:      $Date: 2009-05-08 12:48:09 $
  Version:   $Revision: 1.14 $

  Copyright (c) Insight Software Consortium. All rights reserved.
  See ITKCopyright.txt or http://www.itk.org/HTML/Copyright.htm for details.

     This software is distributed WITHOUT ANY WARRANTY; without even
     the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
     PURPOSE.  See the above copyright notices for more information.

=========================================================================*/
#ifndef __itkGradientImageToBloxBoundaryPointImageFilter_txx
#define __itkGradientImageToBloxBoundaryPointImageFilter_txx

#include "itkProgressReporter.h"
#include "itkGradientImageToBloxBoundaryPointImageFilter.h"
#include "itkImageRegionConstIterator.h"

namespace itk
{

template< typename TInputImage >
GradientImageToBloxBoundaryPointImageFilter< TInputImage >
::GradientImageToBloxBoundaryPointImageFilter()
{
  itkDebugMacro(<< "GradientImageToBloxBoundaryPointImageFilter::GradientImageToBloxBoundaryPointImageFilter() called");

  // The default threshold level is 128 (for no particular reason)
  m_Threshold = 128;

  for( unsigned int j = 0; j < NDimensions; j++ )
    {
    m_BloxResolution[j] = 10.0;
    }
}

template< typename TInputImage >
void
GradientImageToBloxBoundaryPointImageFilter< TInputImage >
::SetBloxResolution(float bloxResolution[])
{
  unsigned int j = 0;
  for( j = 0; j < NDimensions; j++ )
    {
    if( bloxResolution[j] != m_BloxResolution[j] ) break;
    }
  if( j < NDimensions )
    {
    this->Modified();
    for( j = 0; j < Superclass::ImageDimension; j++ )
      {
      m_BloxResolution[j] = bloxResolution[j];
      if( m_BloxResolution[j] < 1 )
        {
        m_BloxResolution[j] = 1;
        }
      }
    }
}


template< typename TInputImage >
void
GradientImageToBloxBoundaryPointImageFilter< TInputImage >
::SetBloxResolution(float bloxResolution)
{
  unsigned int j = 0;
  for( j = 0; j < NDimensions; j++ )
    {
    if( bloxResolution != m_BloxResolution[j] ) break;
    }
  if( j < NDimensions )
    {
    this->Modified();
    for( j = 0; j < NDimensions; j++ )
      {
      m_BloxResolution[j] = bloxResolution;
      if( m_BloxResolution[j] < 1 )
        {
        m_BloxResolution[j] = 1;
        }
      }
    }
}

template< typename TInputImage >
void
GradientImageToBloxBoundaryPointImageFilter< TInputImage >
::GenerateInputRequestedRegion()
{
  itkDebugMacro(<< "GradientImageToBloxBoundaryPointImageFilter::GenerateInputRequestedRegion() called");

  // call the superclass' implementation of this method
  Superclass::GenerateInputRequestedRegion();

  // get pointers to the input and output
  InputImagePointer  inputPtr =
    const_cast< TInputImage * >( this->GetInput());
  OutputImagePointer outputPtr = this->GetOutput();

  if ( !inputPtr || !outputPtr )
    {
    return;
    }

  // we need to compute the input requested region (size and start index)
  const typename TOutputImage::SizeType& outputRequestedRegionSize
    = outputPtr->GetRequestedRegion().GetSize();
  const typename TOutputImage::IndexType& outputRequestedRegionStartIndex
    = outputPtr->GetRequestedRegion().GetIndex();

  typedef typename SizeType::SizeValueType    SizeValueType;
  typedef typename IndexType::IndexValueType  IndexValueType;

  SizeType  inputRequestedRegionSize;
  IndexType inputRequestedRegionStartIndex;

  for (unsigned int i = 0; i < TInputImage::ImageDimension; i++)
    {
    inputRequestedRegionSize[i] =  static_cast<SizeValueType>(
      outputRequestedRegionSize[i] * m_BloxResolution[i] );
    inputRequestedRegionStartIndex[i] =  static_cast<IndexValueType>(
      outputRequestedRegionStartIndex[i] * m_BloxResolution[i] );
    }

  typename TInputImage::RegionType inputRequestedRegion;
  inputRequestedRegion.SetSize( inputRequestedRegionSize );
  inputRequestedRegion.SetIndex( inputRequestedRegionStartIndex );

  inputPtr->SetRequestedRegion( inputRequestedRegion );
}

template< typename TInputImage >
void
GradientImageToBloxBoundaryPointImageFilter< TInputImage >
::GenerateOutputInformation()
{
  // call the superclass' implementation of this method
  Superclass::GenerateOutputInformation();

  // get pointers to the input and output
  InputImageConstPointer  inputPtr  = this->GetInput();
  OutputImagePointer      outputPtr = this->GetOutput();

  if ( !inputPtr || !outputPtr )
    {
    return;
    }

  // we need to compute the output spacing, the output image size, and the
  // output image start index
  const typename TInputImage::SpacingType& inputSpacing = inputPtr->GetSpacing();
  const typename TInputImage::SizeType&   inputSize = inputPtr->GetLargestPossibleRegion().GetSize();
  const typename TInputImage::IndexType&  inputStartIndex = inputPtr->GetLargestPossibleRegion().GetIndex();

  typename TOutputImage::SpacingType outputSpacing;
  typedef typename SizeType::SizeValueType    SizeValueType;
  typedef typename IndexType::IndexValueType  IndexValueType;

  SizeType  outputSize;
  IndexType outputStartIndex;

  for (unsigned int i = 0; i < TOutputImage::ImageDimension; i++)
    {
    outputSpacing[i] = inputSpacing[i] * m_BloxResolution[i];

    outputSize[i] = static_cast<SizeValueType>(
      vcl_floor(static_cast<float>( inputSize[i] )/ m_BloxResolution[i]));

    if( outputSize[i] < 1 )
      {
      outputSize[i] = 1;
      }

    outputStartIndex[i] = static_cast<IndexValueType>(
      vcl_ceil(static_cast<float>( inputStartIndex[i] ) / m_BloxResolution[i] ));
    }

  outputPtr->SetSpacing( outputSpacing );

#ifdef ITK_USE_CENTERED_PIXEL_COORDINATES_CONSISTENTLY
  // compute origin offset
  // The physical center's of the input and output should be the same
  ContinuousIndex<double, TOutputImage::ImageDimension> inputCenterIndex;
  ContinuousIndex<double, TOutputImage::ImageDimension> outputCenterIndex;
  for( unsigned int j = 0; j < TOutputImage::ImageDimension; j++ )
    {
    inputCenterIndex[j] = inputStartIndex[j] + (inputSize[j] - 1) / 2.0;
    outputCenterIndex[j] = outputStartIndex[j] + (outputSize[j] - 1) / 2.0;
    }

  typename TOutputImage::PointType inputCenterPoint;
  typename TOutputImage::PointType outputCenterPoint;
  inputPtr->TransformContinuousIndexToPhysicalPoint(inputCenterIndex, inputCenterPoint);
  outputPtr->TransformContinuousIndexToPhysicalPoint(outputCenterIndex, outputCenterPoint);

  typename TOutputImage::PointType outputOrigin = outputPtr->GetOrigin();
  outputOrigin = outputOrigin + (inputCenterPoint - outputCenterPoint);
  outputPtr->SetOrigin(outputOrigin);
#endif

  typename TOutputImage::RegionType outputLargestPossibleRegion;
  outputLargestPossibleRegion.SetSize( outputSize );
  outputLargestPossibleRegion.SetIndex( outputStartIndex );

  outputPtr->SetLargestPossibleRegion( outputLargestPossibleRegion );
}

template< typename TInputImage >
void
GradientImageToBloxBoundaryPointImageFilter< TInputImage >
::GenerateData()
{
  itkDebugMacro(<< "GradientImageToBloxBoundaryPointImageFilter::GenerateData() called");

  // Get the input and output pointers
  InputImageConstPointer  inputPtr  = this->GetInput(0);
  OutputImagePointer      outputPtr = this->GetOutput(0);

  // Allocate the output
  typename TOutputImage::RegionType outputRequestedRegion = outputPtr->GetRequestedRegion();
  outputPtr->SetBufferedRegion( outputRequestedRegion );
  outputPtr->Allocate();

  typename TInputImage::RegionType inputRequestedRegion = inputPtr->GetRequestedRegion();

  // Create a progress reporter
  ProgressReporter progress(this, 0, inputRequestedRegion.GetNumberOfPixels());

  // Position to figure out pixel location
  TPositionType inputPosition;

  // Create an iterator to walk the input image
  typedef ImageRegionConstIterator<TInputImage> TInputIterator;

  TInputIterator inputIt = TInputIterator(inputPtr, inputRequestedRegion );

  // Keep track of how many boundary points we found (for debugging)
  unsigned long int numBP = 0;
  unsigned long int numBPadded = 0;

  // Get the index of the pixel
  IndexType bloxIndex;

  for ( inputIt.GoToBegin(); !inputIt.IsAtEnd(); ++inputIt)
    {
    // Figure out the magnitude of the gradient
    double mag = 0;

    for(unsigned int i = 0; i < NDimensions; i++)
      {
      const double component = inputIt.Get()[i];
      mag += component * component;
      }

    mag = vcl_sqrt(mag);

    // If the pixel meets threshold requirements, add it to the image
    if( mag >= m_Threshold)
      {
      numBP++;

      // Convert the index of the input pixel to the physical location of the
      // boundary point in the input image
      inputPtr->TransformIndexToPhysicalPoint( inputIt.GetIndex(), inputPosition );

      // Transform the physical location to a blox index
      outputPtr->TransformPhysicalPointToIndex( inputPosition, bloxIndex );

#ifdef ITK_USE_CENTERED_PIXEL_COORDINATES_CONSISTENTLY
      // check if it is inside of the output image.
      if( outputRequestedRegion.IsInside( bloxIndex )  )
        {
        // Create a new boundary point item and set its parameters
        BloxBoundaryPointItem<NDimensions>* pItem = new BloxBoundaryPointItem<NDimensions>;
        pItem->SetPhysicalPosition(inputPosition);
        pItem->SetGradient( inputIt.Get() );

        outputPtr->GetPixel(bloxIndex).push_back(pItem);
        }
#else
      // Create a new boundary point item and set its parameters
      BloxBoundaryPointItem<NDimensions>* pItem = new BloxBoundaryPointItem<NDimensions>;
      pItem->SetPhysicalPosition(inputPosition);
      pItem->SetGradient( inputIt.Get() );

      outputPtr->GetPixel(bloxIndex).push_back(pItem);
#endif

      numBPadded++;
      }

    progress.CompletedPixel();
    }

  outputPtr->SetNumBoundaryPoints(numBP);

  itkDebugMacro(<< "Finished looking for boundary points\n"
                << "I found " << numBP << " points\n"
                << "I added " << numBPadded << " points\n");
}

template< typename TInputImage >
void
GradientImageToBloxBoundaryPointImageFilter< TInputImage >
::PrintSelf(std::ostream& os, Indent indent) const
{
  Superclass::PrintSelf(os,indent);

  os << indent << "Threshold level: " << m_Threshold << std::endl;
}

} // end namespace

#endif