/usr/include/gofigure2/itkViscousWatershedTransform.txx is in libgofigure-dev 0.9.0-3.
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Authors: The GoFigure Dev. Team.
at Megason Lab, Systems biology, Harvard Medical school, 2009-11
Copyright (c) 2009-11, President and Fellows of Harvard College.
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
Redistributions of source code must retain the above copyright notice,
this list of conditions and the following disclaimer.
Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
Neither the name of the President and Fellows of Harvard College
nor the names of its contributors may be used to endorse or promote
products derived from this software without specific prior written
permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
"AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO,
THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS
BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY,
OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT
OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE
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ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
=========================================================================*/
#ifndef __itkViscousWatershedTransform_txx
#define __itkViscousWatershedTransform_txx
#include "itkViscousWatershedTransform.h"
namespace itk
{
template< class TFeatureImage, class TInputImage, class TSegmentImage >
ViscousWatershedTransform< TFeatureImage, TInputImage, TSegmentImage >
::ViscousWatershedTransform()
{
this->Superclass::SetNumberOfRequiredInputs (1);
this->Superclass::SetNumberOfRequiredOutputs (1);
m_InitialLevel = 0;
m_FinalLevel = 255;
m_Increment = 1;
m_LargestRadius = 10;
m_Slope = 10;
this->Superclass::SetNthOutput ( 0, TFeatureImage::New() );
}
template< class TFeatureImage, class TInputImage, class TSegmentImage >
void
ViscousWatershedTransform< TFeatureImage, TInputImage, TSegmentImage >::GenerateData()
{
FeatureImageConstPointer m_Input = this->GetInput();
FeatureImageRegionType region = m_Input->GetLargestPossibleRegion();
FeatureImagePointer m_Output;
{
ThresholdFilterPointer m_threshold = ThresholdFilterType::New();
m_threshold->SetLowerThreshold (0);
m_threshold->SetUpperThreshold (m_InitialLevel);
m_threshold->SetInsideValue (m_InitialLevel);
m_threshold->SetOutsideValue (0);
m_threshold->SetInput (m_Input);
m_threshold->Update();
m_Output = m_threshold->GetOutput();
m_Output->DisconnectPipeline();
}
typename StructuringElementType::SizeType ballSize;
FeatureIteratorType oIt(m_Output, region);
unsigned int radius;
for ( unsigned int i = m_InitialLevel + m_Increment; i <= m_FinalLevel; i = i + m_Increment )
{
std::cout << i << std::endl;
// Extract levelset of the function
ThresholdFilterPointer m_threshold = ThresholdFilterType::New();
m_threshold->SetLowerThreshold (0);
m_threshold->SetUpperThreshold (i);
m_threshold->SetInsideValue (0);
m_threshold->SetOutsideValue (1);
m_threshold->SetInput (m_Input);
m_threshold->Update();
// Do closing
if ( i > m_LargestRadius * m_Slope )
{
radius = 1;
}
else
{
radius = static_cast< unsigned int >(m_LargestRadius - i / m_Slope);
}
ballSize.Fill(radius);
StructuringElementType structuringElement;
structuringElement.SetRadius(ballSize);
structuringElement.CreateStructuringElement();
ClosingFilterPointer close = ClosingFilterType::New();
close->SetKernel(structuringElement);
close->SetInput( m_threshold->GetOutput() );
close->SetForegroundValue(1);
close->Update();
// Iterate over the output image
FeatureIteratorType iIt(close->GetOutput(), region);
iIt.GoToBegin();
oIt.GoToBegin();
while ( !oIt.IsAtEnd() )
{
if ( ( oIt.Get() == 0 ) && ( iIt.Get() == 0 ) )
{
oIt.Set(i);
}
++oIt;
++iIt;
}
}
this->GraftOutput(m_Output);
}
template< class TFeatureImage, class TInputImage, class TSegmentImage >
void
ViscousWatershedTransform< TFeatureImage, TInputImage, TSegmentImage >::PrintSelf(std::ostream & os,
Indent indent) const
{
Superclass::PrintSelf (os, indent);
}
} /* end namespace itk */
#endif
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