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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 itkShapeOpeningLabelMapFilter_h
#define itkShapeOpeningLabelMapFilter_h
#include "itkInPlaceLabelMapFilter.h"
#include "itkShapeLabelObjectAccessors.h"
#include "itkProgressReporter.h"
namespace itk
{
/**
* \class ShapeOpeningLabelMapFilter
* \brief Remove objects according to the value of their shape attribute.
*
* ShapeOpeningLabelMapFilter removes objects in a label collection image
* with an attribute value smaller or greater than a threshold called Lambda.
* The attributes are those of the ShapeLabelObject.
*
* This implementation was taken from the Insight Journal paper:
* https://www.insight-journal.org/browse/publication/176
*
* \author Gaetan Lehmann. Biologie du Developpement et de la Reproduction, INRA de Jouy-en-Josas, France.
*
* \sa ShapeLabelObject, BinaryShapeOpeningImageFilter, LabelStatisticsOpeningImageFilter
* \ingroup ImageEnhancement MathematicalMorphologyImageFilters
* \ingroup ITKLabelMap
*
* \sphinx
* \sphinxexample{Filtering/LabelMap/KeepRegionsThatMeetSpecific,Keep Regions That Meet Specific Properties}
* \endsphinx
*/
template <typename TImage>
class ITK_TEMPLATE_EXPORT ShapeOpeningLabelMapFilter : public InPlaceLabelMapFilter<TImage>
{
public:
ITK_DISALLOW_COPY_AND_MOVE(ShapeOpeningLabelMapFilter);
/** Standard class type aliases. */
using Self = ShapeOpeningLabelMapFilter;
using Superclass = InPlaceLabelMapFilter<TImage>;
using Pointer = SmartPointer<Self>;
using ConstPointer = SmartPointer<const Self>;
/** Some convenient type alias. */
using ImageType = TImage;
using ImagePointer = typename ImageType::Pointer;
using ImageConstPointer = typename ImageType::ConstPointer;
using PixelType = typename ImageType::PixelType;
using IndexType = typename ImageType::IndexType;
using LabelObjectType = typename ImageType::LabelObjectType;
using AttributeType = typename LabelObjectType::AttributeType;
/** ImageDimension constants */
static constexpr unsigned int ImageDimension = TImage::ImageDimension;
/** Standard New method. */
itkNewMacro(Self);
/** \see LightObject::GetNameOfClass() */
itkOverrideGetNameOfClassMacro(ShapeOpeningLabelMapFilter);
#ifdef ITK_USE_CONCEPT_CHECKING
// Begin concept checking
/* itkConceptMacro(InputEqualityComparableCheck,
(Concept::EqualityComparable<InputImagePixelType>));
itkConceptMacro(IntConvertibleToInputCheck,
(Concept::Convertible<int, InputImagePixelType>));
itkConceptMacro(InputOStreamWritableCheck,
(Concept::OStreamWritable<InputImagePixelType>));*/
// End concept checking
#endif
/**
* Set/Get the threshold used to keep or remove the objects.
*/
itkGetConstMacro(Lambda, double);
itkSetMacro(Lambda, double);
/**
* Set/Get the ordering of the objects. By default, objects with
* an attribute value smaller than Lamba are removed. Turning ReverseOrdering
* to true makes this filter remove objects with an attribute value greater
* than Lambda instead.
*/
itkGetConstMacro(ReverseOrdering, bool);
itkSetMacro(ReverseOrdering, bool);
itkBooleanMacro(ReverseOrdering);
/**
* Set/Get the attribute to use to select the object to remove.
* The default is "Size".
*/
itkGetConstMacro(Attribute, AttributeType);
itkSetMacro(Attribute, AttributeType);
void
SetAttribute(const std::string & s)
{
this->SetAttribute(LabelObjectType::GetAttributeFromName(s));
}
protected:
ShapeOpeningLabelMapFilter();
~ShapeOpeningLabelMapFilter() override = default;
void
GenerateData() override;
template <typename TAttributeAccessor>
void
TemplatedGenerateData(const TAttributeAccessor & accessor)
{
// Allocate the output
this->AllocateOutputs();
ImageType * output = this->GetOutput();
ImageType * output2 = this->GetOutput(1);
itkAssertInDebugAndIgnoreInReleaseMacro(this->GetNumberOfIndexedOutputs() == 2);
itkAssertInDebugAndIgnoreInReleaseMacro(output2 != nullptr);
// set the background value for the second output - this is not done in the
// superclasses
output2->SetBackgroundValue(output->GetBackgroundValue());
ProgressReporter progress(this, 0, output->GetNumberOfLabelObjects());
typename ImageType::Iterator it(output);
while (!it.IsAtEnd())
{
typename LabelObjectType::LabelType label = it.GetLabel();
LabelObjectType * labelObject = it.GetLabelObject();
if ((!m_ReverseOrdering && accessor(labelObject) < m_Lambda) ||
(m_ReverseOrdering && accessor(labelObject) > m_Lambda))
{
// must increment the iterator before removing the object to avoid
// invalidating the iterator
++it;
output2->AddLabelObject(labelObject);
output->RemoveLabel(label);
}
else
{
++it;
}
progress.CompletedPixel();
}
}
void
PrintSelf(std::ostream & os, Indent indent) const override;
double m_Lambda{};
bool m_ReverseOrdering{};
AttributeType m_Attribute{};
}; // end of class
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
# include "itkShapeOpeningLabelMapFilter.hxx"
#endif
#endif
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