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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 itkBinaryStatisticsKeepNObjectsImageFilter_h
#define itkBinaryStatisticsKeepNObjectsImageFilter_h
#include "itkBinaryImageToLabelMapFilter.h"
#include "itkStatisticsLabelMapFilter.h"
#include "itkStatisticsKeepNObjectsLabelMapFilter.h"
#include "itkLabelMapToBinaryImageFilter.h"
namespace itk
{
/** \class BinaryStatisticsKeepNObjectsImageFilter
* \brief keep N objects according to their statistics attributes
*
* BinaryStatisticsKeepNObjectsImageFilter keep the N objects in a binary image
* with the highest (or lowest) attribute value. The attributes are the ones
* of the StatisticsLabelObject.
*
* \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://hdl.handle.net/1926/584 or
* http://www.insight-journal.org/browse/publication/176
*
* \sa StatisticsLabelObject, LabelStatisticsKeepNObjectsImageFilter, BinaryShapeKeepNObjectsImageFilter
* \ingroup ImageEnhancement MathematicalMorphologyImageFilters
* \ingroup ITKLabelMap
*/
template< typename TInputImage, typename TFeatureImage >
class ITK_TEMPLATE_EXPORT BinaryStatisticsKeepNObjectsImageFilter:
public ImageToImageFilter< TInputImage, TInputImage >
{
public:
/** Standard class typedefs. */
typedef BinaryStatisticsKeepNObjectsImageFilter Self;
typedef ImageToImageFilter< TInputImage, TInputImage > Superclass;
typedef SmartPointer< Self > Pointer;
typedef SmartPointer< const Self > ConstPointer;
/** Some convenient typedefs. */
typedef TInputImage InputImageType;
typedef TInputImage OutputImageType;
typedef typename InputImageType::Pointer InputImagePointer;
typedef typename InputImageType::ConstPointer InputImageConstPointer;
typedef typename InputImageType::RegionType InputImageRegionType;
typedef typename InputImageType::PixelType InputImagePixelType;
typedef typename OutputImageType::Pointer OutputImagePointer;
typedef typename OutputImageType::ConstPointer OutputImageConstPointer;
typedef typename OutputImageType::RegionType OutputImageRegionType;
typedef typename OutputImageType::PixelType OutputImagePixelType;
typedef TFeatureImage FeatureImageType;
typedef typename FeatureImageType::Pointer FeatureImagePointer;
typedef typename FeatureImageType::ConstPointer FeatureImageConstPointer;
typedef typename FeatureImageType::PixelType FeatureImagePixelType;
/** ImageDimension constants */
itkStaticConstMacro(InputImageDimension, unsigned int,
TInputImage::ImageDimension);
itkStaticConstMacro(OutputImageDimension, unsigned int,
TInputImage::ImageDimension);
itkStaticConstMacro(ImageDimension, unsigned int,
TInputImage::ImageDimension);
typedef SizeValueType LabelType;
typedef StatisticsLabelObject< LabelType, itkGetStaticConstMacro(ImageDimension) > LabelObjectType;
typedef LabelMap< LabelObjectType > LabelMapType;
typedef BinaryImageToLabelMapFilter< InputImageType, LabelMapType > LabelizerType;
typedef StatisticsLabelMapFilter< LabelMapType, TFeatureImage > LabelObjectValuatorType;
typedef typename LabelObjectType::AttributeType AttributeType;
typedef StatisticsKeepNObjectsLabelMapFilter< LabelMapType > KeepNObjectsType;
typedef LabelMapToBinaryImageFilter< LabelMapType, OutputImageType > BinarizerType;
/** Standard New method. */
itkNewMacro(Self);
/** Runtime information support. */
itkTypeMacro(BinaryStatisticsKeepNObjectsImageFilter,
ImageToImageFilter);
/**
* Set/Get whether the connected components are defined strictly by
* face connectivity or by face+edge+vertex connectivity. Default is
* FullyConnectedOff. For objects that are 1 pixel wide, use
* FullyConnectedOn.
*/
itkSetMacro(FullyConnected, bool);
itkGetConstReferenceMacro(FullyConnected, bool);
itkBooleanMacro(FullyConnected);
#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 value used as "background" in the output image.
* Defaults to NumericTraits<PixelType>::NonpositiveMin().
*/
itkSetMacro(BackgroundValue, OutputImagePixelType);
itkGetConstMacro(BackgroundValue, OutputImagePixelType);
/**
* Set/Get the value used as "foreground" in the output image.
* Defaults to NumericTraits<PixelType>::max().
*/
itkSetMacro(ForegroundValue, OutputImagePixelType);
itkGetConstMacro(ForegroundValue, OutputImagePixelType);
/**
* Set/Get the number of objects to keep
*/
itkGetConstMacro(NumberOfObjects, SizeValueType);
itkSetMacro(NumberOfObjects, SizeValueType);
/**
* Set/Get the ordering of the objects. By default, the ones with the
* highest value are kept. Turming ReverseOrdering to true make this filter
* keep the objects with the smallest values
*/
itkGetConstMacro(ReverseOrdering, bool);
itkSetMacro(ReverseOrdering, bool);
itkBooleanMacro(ReverseOrdering);
/**
* Set/Get the attribute to use to select the object to keep. The default
* is "Mean".
*/
itkGetConstMacro(Attribute, AttributeType);
itkSetMacro(Attribute, AttributeType);
void SetAttribute(const std::string & s)
{
this->SetAttribute( LabelObjectType::GetAttributeFromName(s) );
}
/** Set the feature image */
void SetFeatureImage(const TFeatureImage *input)
{
// Process object is not const-correct so the const casting is required.
this->SetNthInput( 1, const_cast< TFeatureImage * >( input ) );
}
/** Get the feature image */
const FeatureImageType * GetFeatureImage()
{
return static_cast< const FeatureImageType * >( this->ProcessObject::GetInput(1) );
}
/** Set the input image */
void SetInput1(const InputImageType *input)
{
this->SetInput(input);
}
/** Set the feature image */
void SetInput2(const FeatureImageType *input)
{
this->SetFeatureImage(input);
}
protected:
BinaryStatisticsKeepNObjectsImageFilter();
~BinaryStatisticsKeepNObjectsImageFilter() ITK_OVERRIDE {}
void PrintSelf(std::ostream & os, Indent indent) const ITK_OVERRIDE;
/** BinaryStatisticsKeepNObjectsImageFilter needs the entire input be
* available. Thus, it needs to provide an implementation of
* GenerateInputRequestedRegion(). */
void GenerateInputRequestedRegion() ITK_OVERRIDE;
/** BinaryStatisticsKeepNObjectsImageFilter will produce the entire output. */
void EnlargeOutputRequestedRegion( DataObject *itkNotUsed(output) ) ITK_OVERRIDE;
/** Single-threaded version of GenerateData. This filter delegates
* to GrayscaleGeodesicErodeImageFilter. */
void GenerateData() ITK_OVERRIDE;
private:
ITK_DISALLOW_COPY_AND_ASSIGN(BinaryStatisticsKeepNObjectsImageFilter);
bool m_FullyConnected;
OutputImagePixelType m_BackgroundValue;
OutputImagePixelType m_ForegroundValue;
SizeValueType m_NumberOfObjects;
bool m_ReverseOrdering;
AttributeType m_Attribute;
}; // end of class
} // end namespace itk
#ifndef ITK_MANUAL_INSTANTIATION
#include "itkBinaryStatisticsKeepNObjectsImageFilter.hxx"
#endif
#endif
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