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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 itkShapeLabelMapFilter_h
#define itkShapeLabelMapFilter_h
#include "itkInPlaceLabelMapFilter.h"
#include "itkLexicographicCompare.h"
namespace itk
{
/**
* \class ShapeLabelMapFilter
* \brief The valuator class for the ShapeLabelObject
*
* ShapeLabelMapFilter can be used to set the attributes values of the
* ShapeLabelObject in a LabelMap.
*
* ShapeLabelMapFilter takes an optional parameter, used only to
* optimize the computation time and the memory usage when the
* perimeter or the feret diameter is used: the exact copy of the
* input LabelMap is stored in an Image.
* It can be set with SetLabelImage(). It is cleared at the end of the
* computation, so must be reset before running Update() again. It is
* not part of the pipeline management design, to let the subclasses
* of ShapeLabelMapFilter use the pipeline design to specify truly
* required inputs.
*
* \author Gaetan Lehmann. Biologie du Developpement et de la Reproduction, INRA de Jouy-en-Josas, France.
*
* This implementation was taken from the Insight Journal paper:
* https://www.insight-journal.org/browse/publication/176
*
* \ingroup ImageEnhancement MathematicalMorphologyImageFilters
* \ingroup ITKLabelMap
*/
template <typename TImage, typename TLabelImage = Image<typename TImage::PixelType, TImage::ImageDimension>>
class ITK_TEMPLATE_EXPORT ShapeLabelMapFilter : public InPlaceLabelMapFilter<TImage>
{
public:
ITK_DISALLOW_COPY_AND_MOVE(ShapeLabelMapFilter);
/** Standard class type aliases. */
using Self = ShapeLabelMapFilter;
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 SizeType = typename ImageType::SizeType;
using RegionType = typename ImageType::RegionType;
using OffsetType = typename ImageType::OffsetType;
using LabelObjectType = typename ImageType::LabelObjectType;
using MatrixType = typename LabelObjectType::MatrixType;
using VectorType = typename LabelObjectType::VectorType;
using LabelImageType = TLabelImage;
using LabelImagePointer = typename LabelImageType::Pointer;
using LabelImageConstPointer = typename LabelImageType::ConstPointer;
using LabelPixelType = typename LabelImageType::PixelType;
/** ImageDimension constants */
static constexpr unsigned int ImageDimension = TImage::ImageDimension;
/** Standard New method. */
itkNewMacro(Self);
/** \see LightObject::GetNameOfClass() */
itkOverrideGetNameOfClassMacro(ShapeLabelMapFilter);
#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 whether the maximum Feret diameter should be computed or not.
* Default value is false because of the high computation time required.
*/
itkSetMacro(ComputeFeretDiameter, bool);
itkGetConstReferenceMacro(ComputeFeretDiameter, bool);
itkBooleanMacro(ComputeFeretDiameter);
/**
* Set/Get whether the perimeter should be computed or not.
* Default value is true;
*/
itkSetMacro(ComputePerimeter, bool);
itkGetConstReferenceMacro(ComputePerimeter, bool);
itkBooleanMacro(ComputePerimeter);
/**
* Set/Get whether the oriented bounding box should be
* computed or not. Default value is false because of potential
* memory consumption issues with sparse labels.
*/
itkSetMacro(ComputeOrientedBoundingBox, bool);
itkGetConstReferenceMacro(ComputeOrientedBoundingBox, bool);
itkBooleanMacro(ComputeOrientedBoundingBox);
/** Set the label image */
void
SetLabelImage(const TLabelImage * input)
{
m_LabelImage = input;
}
protected:
ShapeLabelMapFilter();
~ShapeLabelMapFilter() override = default;
void
ThreadedProcessLabelObject(LabelObjectType * labelObject) override;
void
BeforeThreadedGenerateData() override;
void
AfterThreadedGenerateData() override;
void
PrintSelf(std::ostream & os, Indent indent) const override;
private:
bool m_ComputeFeretDiameter{};
bool m_ComputePerimeter{};
bool m_ComputeOrientedBoundingBox{};
LabelImageConstPointer m_LabelImage{};
void
ComputeFeretDiameter(LabelObjectType * labelObject);
void
ComputePerimeter(LabelObjectType * labelObject);
void
ComputeOrientedBoundingBox(LabelObjectType * labelObject);
using Offset2Type = itk::Offset<2>;
using Offset3Type = itk::Offset<3>;
using Spacing2Type = itk::Vector<double, 2>;
using Spacing3Type = itk::Vector<double, 3>;
using MapIntercept2Type = std::map<Offset2Type, SizeValueType, Functor::LexicographicCompare>;
using MapIntercept3Type = std::map<Offset3Type, SizeValueType, Functor::LexicographicCompare>;
// it seems impossible to specialize a method without specializing the whole class, but we
// can use simple overloading
template <typename TMapIntercept, typename TSpacing>
double
PerimeterFromInterceptCount(TMapIntercept & intercepts, const TSpacing & spacing);
#if !defined(ITK_DO_NOT_USE_PERIMETER_SPECIALIZATION)
double
PerimeterFromInterceptCount(MapIntercept2Type & intercepts, const Spacing2Type spacing);
double
PerimeterFromInterceptCount(MapIntercept3Type & intercepts, const Spacing3Type spacing);
#endif
};
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
# include "itkShapeLabelMapFilter.hxx"
#endif
#endif
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