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/*=========================================================================
*
* Copyright NumFOCUS
*
* 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
*
* https://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 "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{};
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
auto progress = ProgressAccumulator::New();
progress->SetMiniPipelineFilter(this);
// Allocate the output
this->AllocateOutputs();
using NotType = BinaryNotImageFilter<InputImageType>;
auto notInput = NotType::New();
notInput->SetInput(this->GetInput());
notInput->SetForegroundValue(m_ForegroundValue);
notInput->SetBackgroundValue(backgroundValue);
notInput->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
notInput->SetReleaseDataFlag(true);
progress->RegisterInternalFilter(notInput, .2f);
using LabelizerType = typename itk::BinaryImageToShapeLabelMapFilter<InputImageType>;
auto labelizer = LabelizerType::New();
labelizer->SetInput(notInput->GetOutput());
labelizer->SetInputForegroundValue(m_ForegroundValue);
labelizer->SetOutputBackgroundValue(backgroundValue);
labelizer->SetFullyConnected(m_FullyConnected);
labelizer->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
progress->RegisterInternalFilter(labelizer, .5f);
using LabelMapType = typename LabelizerType::OutputImageType;
using OpeningType = typename itk::ShapeOpeningLabelMapFilter<LabelMapType>;
auto opening = OpeningType::New();
opening->SetInput(labelizer->GetOutput());
opening->SetAttribute(LabelMapType::LabelObjectType::NUMBER_OF_PIXELS_ON_BORDER);
opening->SetLambda(1);
opening->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
progress->RegisterInternalFilter(opening, .1f);
// invert the image during the binarization
using BinarizerType = typename itk::LabelMapMaskImageFilter<LabelMapType, OutputImageType>;
auto binarizer = BinarizerType::New();
binarizer->SetInput(opening->GetOutput());
binarizer->SetLabel(backgroundValue);
binarizer->SetNegated(true);
binarizer->SetBackgroundValue(m_ForegroundValue);
binarizer->SetFeatureImage(this->GetInput());
binarizer->SetNumberOfWorkUnits(this->GetNumberOfWorkUnits());
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 ? "On" : "Off") << std::endl;
}
} // end namespace itk
#endif
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