/*=========================================================================
 *
 *  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 itkBinaryReconstructionByErosionImageFilter_h
#define itkBinaryReconstructionByErosionImageFilter_h

#include "itkImageToImageFilter.h"
#include "itkAttributeLabelObject.h"
#include "itkLabelMap.h"
#include "itkBinaryNotImageFilter.h"
#include "itkBinaryImageToLabelMapFilter.h"
#include "itkBinaryReconstructionLabelMapFilter.h"
#include "itkAttributeOpeningLabelMapFilter.h"
#include "itkLabelMapMaskImageFilter.h"


namespace itk {

/** \class BinaryReconstructionByErosionImageFilter
 * \brief binary reconstruction by erosion of an image
 *
 * Reconstruction by erosion operates on a "marker" image and a "mask"
 * image, and is defined as the erosion of the marker image with
 * respect to the mask image iterated until stability.
 *
 * Geodesic morphology is described in Chapter 6.2 of Pierre Soille's
 * book "Morphological Image Analysis: Principles and Applications",
 * Second Edition, Springer, 2003.
 *
 * \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 MorphologyImageFilter, ReconstructionByErosionImageFilter, BinaryReconstructionByDilationImageFilter
 * \ingroup ImageEnhancement  MathematicalMorphologyImageFilters
 * \ingroup ITKLabelMap
 */
template<typename TInputImage>
class ITK_TEMPLATE_EXPORT BinaryReconstructionByErosionImageFilter :
    public ImageToImageFilter<TInputImage, TInputImage>
{
public:
  /** Standard class typedefs. */
  typedef BinaryReconstructionByErosionImageFilter     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;

  /** ImageDimension constants */
  itkStaticConstMacro(InputImageDimension, unsigned int,
                      TInputImage::ImageDimension);
  itkStaticConstMacro(OutputImageDimension, unsigned int,
                      TInputImage::ImageDimension);
  itkStaticConstMacro(ImageDimension, unsigned int,
                      TInputImage::ImageDimension);

  typedef BinaryNotImageFilter< InputImageType >                             NotType;
  typedef AttributeLabelObject< SizeValueType, ImageDimension, bool>         LabelObjectType;
  typedef LabelMap< LabelObjectType >                                        LabelMapType;
  typedef BinaryImageToLabelMapFilter< InputImageType, LabelMapType >        LabelizerType;
  typedef BinaryReconstructionLabelMapFilter< LabelMapType, InputImageType > ReconstructionType;
  typedef AttributeOpeningLabelMapFilter< LabelMapType >                     OpeningType;
  typedef LabelMapMaskImageFilter< LabelMapType, OutputImageType >           BinarizerType;

  /** Standard New method. */
  itkNewMacro(Self);

  /** Runtime information support. */
  itkTypeMacro(BinaryReconstructionByErosionImageFilter, 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 the marker image */
  void SetMarkerImage(const InputImageType *input);

  /** Get the marker image */
  InputImageType * GetMarkerImage();

   /** Set the mask image */
  void SetMaskImage(const InputImageType *input);

  /** Get the mask image */
  InputImageType * GetMaskImage();

protected:
  BinaryReconstructionByErosionImageFilter();
  ~BinaryReconstructionByErosionImageFilter() ITK_OVERRIDE {};
  void PrintSelf(std::ostream& os, Indent indent) const ITK_OVERRIDE;

  /** BinaryReconstructionByErosionImageFilter needs the entire input be
   * available. Thus, it needs to provide an implementation of
   * GenerateInputRequestedRegion(). */
  void GenerateInputRequestedRegion() ITK_OVERRIDE;

  /** BinaryReconstructionByErosionImageFilter 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(BinaryReconstructionByErosionImageFilter);

  bool                 m_FullyConnected;
  OutputImagePixelType m_BackgroundValue;
  OutputImagePixelType m_ForegroundValue;
}; // end of class

} // end namespace itk

#ifndef ITK_MANUAL_INSTANTIATION
#include "itkBinaryReconstructionByErosionImageFilter.hxx"
#endif

#endif
