/usr/include/ITK-4.5/itkKappaSigmaThresholdImageCalculator.hxx is in libinsighttoolkit4-dev 4.5.0-3.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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*
* Copyright Insight Software Consortium
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*
*=========================================================================*/
#ifndef __itkKappaSigmaThresholdImageCalculator_hxx
#define __itkKappaSigmaThresholdImageCalculator_hxx
#include "itkKappaSigmaThresholdImageCalculator.h"
#include "itkImageRegionConstIteratorWithIndex.h"
#include "itkImageRegionConstIterator.h"
namespace itk
{
template< typename TInputImage, typename TMaskImage >
KappaSigmaThresholdImageCalculator< TInputImage, TMaskImage >
::KappaSigmaThresholdImageCalculator(void)
{
this->m_Valid = false;
this->m_Image = NULL;
this->m_Mask = NULL;
this->m_MaskValue = NumericTraits< MaskPixelType >::max();
this->m_Output = NumericTraits< InputPixelType >::Zero;
this->m_SigmaFactor = 2;
this->m_NumberOfIterations = 2;
}
template< typename TInputImage, typename TMaskImage >
void
KappaSigmaThresholdImageCalculator< TInputImage, TMaskImage >
::PrintSelf(std::ostream & os, Indent indent) const
{
Superclass::PrintSelf(os, indent);
os << indent << "Input: " << this->m_Image.GetPointer() << std::endl;
os << indent << "Mask: " << this->m_Mask.GetPointer() << std::endl;
os << indent << "Valid: " << this->m_Valid << std::endl;
os << indent << "MaskValue: " << this->m_MaskValue << std::endl;
os << indent << "SigmaFactor: " << this->m_SigmaFactor << std::endl;
os << indent << "NumberOfIterations: " << this->m_NumberOfIterations << std::endl;
os << indent << "Output: " << this->m_Output << std::endl;
}
template< typename TInputImage, typename TMaskImage >
void
KappaSigmaThresholdImageCalculator< TInputImage, TMaskImage >
::Compute()
{
typedef typename InputImageType::IndexType IndexType;
if ( !this->m_Image )
{
return;
}
// init the values
InputPixelType threshold = NumericTraits< InputPixelType >::max(); // use all
// the
// pixels
// to begin
for ( unsigned int iteration = 0; iteration < this->m_NumberOfIterations; iteration++ )
{
ImageRegionConstIteratorWithIndex< InputImageType > iIt( this->m_Image,
this->m_Image->GetRequestedRegion() );
// compute the mean
iIt.GoToBegin();
SizeValueType count = 0;
double mean = 0;
while ( !iIt.IsAtEnd() )
{
if ( !this->m_Mask || this->m_Mask->GetPixel( iIt.GetIndex() ) == this->m_MaskValue )
{
const InputPixelType & v = iIt.Get();
if ( v <= threshold )
{
mean += v;
count++;
}
}
++iIt;
}
mean = mean / count;
// compute sigma
iIt.GoToBegin();
double sigma = 0;
while ( !iIt.IsAtEnd() )
{
if ( !this->m_Mask || this->m_Mask->GetPixel( iIt.GetIndex() ) == this->m_MaskValue )
{
const InputPixelType & v = iIt.Get();
if ( v <= threshold )
{
sigma += vnl_math_sqr(v - mean);
}
}
++iIt;
}
sigma = vcl_sqrt( sigma / ( count - 1 ) );
// compute the threshold for the next iteration
InputPixelType newThreshold = static_cast< InputPixelType >( mean + this->m_SigmaFactor * sigma );
if ( newThreshold == threshold )
{
// no need to continue - the threshold is the same and will produce the
// same result
break;
}
threshold = newThreshold;
}
this->m_Output = threshold;
this->m_Valid = true;
}
template< typename TInputImage, typename TMaskImage >
const typename KappaSigmaThresholdImageCalculator< TInputImage, TMaskImage >::InputPixelType &
KappaSigmaThresholdImageCalculator< TInputImage, TMaskImage >
::GetOutput() const
{
if ( !this->m_Valid )
{
itkExceptionMacro(<< "GetOutput() invoked, but the output have not been computed. Call Compute() first.");
}
return this->m_Output;
}
} // end namespace itk
#endif
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