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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 itkBinaryFillholeImageFilter_hxx
#define itkBinaryFillholeImageFilter_hxx
#include "itkBinaryFillholeImageFilter.h"
#include "itkBinaryNotImageFilter.h"
#include "itkBinaryImageToShapeLabelMapFilter.h"
#include "itkShapeOpeningLabelMapFilter.h"
#include "itkLabelMapMaskImageFilter.h"
#include "itkProgressAccumulator.h"
namespace itk {
template <typename TInputImage>
BinaryFillholeImageFilter<TInputImage>
::BinaryFillholeImageFilter()
{
m_FullyConnected = false;
m_ForegroundValue = NumericTraits<InputImagePixelType>::max();
}
template <typename TInputImage>
void
BinaryFillholeImageFilter<TInputImage>
::GenerateInputRequestedRegion()
{
// call the superclass' implementation of this method
Superclass::GenerateInputRequestedRegion();
// We need all the input.
InputImagePointer input = const_cast<InputImageType *>(this->GetInput());
if( input )
{
input->SetRequestedRegion( input->GetLargestPossibleRegion() );
}
}
template <typename TInputImage>
void
BinaryFillholeImageFilter<TInputImage>
::EnlargeOutputRequestedRegion(DataObject *)
{
this->GetOutput()
->SetRequestedRegion( this->GetOutput()->GetLargestPossibleRegion() );
}
template<typename TInputImage>
void
BinaryFillholeImageFilter<TInputImage>
::GenerateData()
{
// let choose a background value. Background value should not be given by user
// because closing is extensive so no background pixels will be added
// it is just needed for internal erosion filter and constant padder
InputImagePixelType backgroundValue = NumericTraits<InputImagePixelType>::ZeroValue();
if ( m_ForegroundValue == backgroundValue )
{
// current background value is already used for foreground value
// choose another one
backgroundValue = NumericTraits<InputImagePixelType>::max();
}
// Create a process accumulator for tracking the progress of this minipipeline
ProgressAccumulator::Pointer progress = ProgressAccumulator::New();
progress->SetMiniPipelineFilter(this);
// Allocate the output
this->AllocateOutputs();
typedef BinaryNotImageFilter< InputImageType > NotType;
typename NotType::Pointer notInput = NotType::New();
notInput->SetInput( this->GetInput() );
notInput->SetForegroundValue( m_ForegroundValue );
notInput->SetBackgroundValue( backgroundValue );
notInput->SetNumberOfThreads( this->GetNumberOfThreads() );
notInput->SetReleaseDataFlag( true );
progress->RegisterInternalFilter(notInput, .2f);
typedef typename itk::BinaryImageToShapeLabelMapFilter< InputImageType > LabelizerType;
typename LabelizerType::Pointer labelizer = LabelizerType::New();
labelizer->SetInput( notInput->GetOutput() );
labelizer->SetInputForegroundValue( m_ForegroundValue );
labelizer->SetOutputBackgroundValue( backgroundValue );
labelizer->SetFullyConnected( m_FullyConnected );
labelizer->SetNumberOfThreads( this->GetNumberOfThreads() );
progress->RegisterInternalFilter(labelizer, .5f);
typedef typename LabelizerType::OutputImageType LabelMapType;
typedef typename itk::ShapeOpeningLabelMapFilter< LabelMapType > OpeningType;
typename OpeningType::Pointer opening = OpeningType::New();
opening->SetInput( labelizer->GetOutput() );
opening->SetAttribute( LabelMapType::LabelObjectType::NUMBER_OF_PIXELS_ON_BORDER );
opening->SetLambda( 1 );
opening->SetNumberOfThreads( this->GetNumberOfThreads() );
progress->RegisterInternalFilter(opening, .1f);
// invert the image during the binarization
typedef typename itk::LabelMapMaskImageFilter< LabelMapType, OutputImageType > BinarizerType;
typename BinarizerType::Pointer binarizer = BinarizerType::New();
binarizer->SetInput( opening->GetOutput() );
binarizer->SetLabel( backgroundValue );
binarizer->SetNegated( true );
binarizer->SetBackgroundValue( m_ForegroundValue );
binarizer->SetFeatureImage( this->GetInput() );
binarizer->SetNumberOfThreads( this->GetNumberOfThreads() );
progress->RegisterInternalFilter(binarizer, .2f);
binarizer->GraftOutput( this->GetOutput() );
binarizer->Update();
this->GraftOutput( binarizer->GetOutput() );
}
template<typename TInputImage>
void
BinaryFillholeImageFilter<TInputImage>
::PrintSelf(std::ostream &os, Indent indent) const
{
Superclass::PrintSelf(os, indent);
os << indent << "ForegroundValue: " << static_cast<typename NumericTraits<InputImagePixelType>::PrintType>(m_ForegroundValue) << std::endl;
os << indent << "FullyConnected: " << m_FullyConnected << std::endl;
}
}// end namespace itk
#endif
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