Examples/Filtering/CompositeFilterExample.cxx

/*=========================================================================
 *
 *  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.
 *
 *=========================================================================*/

//  Software Guide : BeginLatex
//
//  The composite filter we will build combines three filters: a gradient
//  magnitude operator, which will calculate the first-order derivative of
//  the image; a thresholding step to select edges over a given strength;
//  and finally a rescaling filter, to ensure the resulting image data is
//  visible by scaling the intensity to the full spectrum of the output
//  image type.
//
//  Since this filter takes an image and produces another image (of
//  identical type), we will specialize the ImageToImageFilter:
//
//  Software Guide : EndLatex

//  Software Guide : BeginLatex
//
//  Next we include headers for the component filters:
//
//  Software Guide : EndLatex

//  Software Guide : BeginCodeSnippet
#include "itkGradientMagnitudeImageFilter.h"
#include "itkThresholdImageFilter.h"
#include "itkRescaleIntensityImageFilter.h"
//  Software Guide : EndCodeSnippet

#include "itkNumericTraits.h"

//  Software Guide : BeginLatex
//
//  Now we can declare the filter itself.  It is within the ITK namespace,
//  and we decide to make it use the same image type for both input and
//  output, so that the template declaration needs only one parameter.
//  Deriving from \code{ImageToImageFilter} provides default behavior for
//  several important aspects, notably allocating the output image (and
//  making it the same dimensions as the input).
//
//  Software Guide : EndLatex

//  Software Guide : BeginCodeSnippet
namespace itk
{

template < typename TImage >
class CompositeExampleImageFilter :
    public ImageToImageFilter< TImage, TImage >
{
public:
//  Software Guide : EndCodeSnippet

//  Software Guide : BeginLatex
//
//  Next we have the standard declarations, used for object creation with
//  the object factory:
//
//  Software Guide : EndLatex

//  Software Guide : BeginCodeSnippet
  typedef CompositeExampleImageFilter          Self;
  typedef ImageToImageFilter< TImage, TImage > Superclass;
  typedef SmartPointer< Self >                 Pointer;
  typedef SmartPointer< const Self >           ConstPointer;

//  Software Guide : EndCodeSnippet

  itkNewMacro(Self);

  itkTypeMacro(CompositeExampleImageFilter, ImageToImageFilter);

//  Software Guide : BeginLatex
//
//  Here we declare an alias (to save typing) for the image's pixel type,
//  which determines the type of the threshold value.  We then use the
//  convenience macros to define the Get and Set methods for this parameter.
//
//  Software Guide : EndLatex

//  Software Guide : BeginCodeSnippet
  typedef TImage                        ImageType;
  typedef typename ImageType::PixelType PixelType;

  itkGetMacro( Threshold, PixelType );
  itkSetMacro( Threshold, PixelType );
//  Software Guide : EndCodeSnippet

protected:

  CompositeExampleImageFilter();

//  Software Guide : BeginLatex
//
//  Now we can declare the component filter types, templated over the
//  enclosing image type:
//
//  Software Guide : EndLatex

//  Software Guide : BeginCodeSnippet
protected:

  typedef ThresholdImageFilter< ImageType >                    ThresholdType;
  typedef GradientMagnitudeImageFilter< ImageType, ImageType > GradientType;
  typedef RescaleIntensityImageFilter< ImageType, ImageType >  RescalerType;
//  Software Guide : EndCodeSnippet

  virtual void GenerateData() ITK_OVERRIDE;

  void PrintSelf( std::ostream& os, Indent indent ) const ITK_OVERRIDE;

private:
  ITK_DISALLOW_COPY_AND_ASSIGN(CompositeExampleImageFilter);

//  Software Guide : BeginLatex
//
//  The component filters are declared as data members, all using the smart
//  pointer types.
//
//  Software Guide : EndLatex

//  Software Guide : BeginCodeSnippet
  typename GradientType::Pointer     m_GradientFilter;
  typename ThresholdType::Pointer    m_ThresholdFilter;
  typename RescalerType::Pointer     m_RescaleFilter;

  PixelType m_Threshold;
};

} // end namespace itk
//  Software Guide : EndCodeSnippet


//  Software Guide : BeginLatex
//
//  The constructor sets up the pipeline, which involves creating the
//  stages, connecting them together, and setting default parameters.
//
//  Software Guide : EndLatex

namespace itk
{

//  Software Guide : BeginCodeSnippet
template< typename TImage >
CompositeExampleImageFilter< TImage >
::CompositeExampleImageFilter()
{
  m_Threshold = 1;
  m_GradientFilter = GradientType::New();
  m_ThresholdFilter = ThresholdType::New();
  m_ThresholdFilter->SetInput( m_GradientFilter->GetOutput() );
  m_RescaleFilter = RescalerType::New();
  m_RescaleFilter->SetInput( m_ThresholdFilter->GetOutput() );
  m_RescaleFilter->SetOutputMinimum(
                                  NumericTraits<PixelType>::NonpositiveMin());
  m_RescaleFilter->SetOutputMaximum(NumericTraits<PixelType>::max());
}
//  Software Guide : EndCodeSnippet


//  Software Guide : BeginLatex
//
//  The \code{GenerateData()} is where the composite magic happens.
//
//  First, connect the first component filter to the inputs of the composite
//  filter (the actual input, supplied by the upstream stage). At a filter's
//  \code{GenerateData()} stage, the input image's information and pixel
//  buffer content have been updated by the pipeline. To prevent the
//  mini-pipeline update from propagating upstream, the input image is
//  disconnected from the pipeline by grafting its contents to a new
//  \doxygen{Image} pointer.
//
//  This implies that the composite filter must
//  implement pipeline methods that indicate the \doxygen{ImageRegion}'s it requires
//  and generates, like \code{GenerateInputRequestedRegion()},
//  \code{GenerateOutputRequestedRegion()}, \code{GenerateOutputInformation()}
//  and \code{EnlargeOutputRequestedRegion()}, according to the behavior of
//  its component filters.
//
//  Next, graft the output of the last stage onto the output of the composite,
//  which ensures the requested region is updated and the last stage populates
//  the output buffer allocated by the composite filter. We force the composite
//  pipeline to be processed by calling \code{Update()} on the final stage.
//  Then, graft the output back onto the output of the enclosing filter, so
//  it has the result available to the downstream filter.
//
//  Software Guide : EndLatex

//  Software Guide : BeginCodeSnippet
template< typename TImage >
void
CompositeExampleImageFilter< TImage >
::GenerateData()
{
  typename ImageType::Pointer input = ImageType::New();
  input->Graft( const_cast< ImageType * >( this->GetInput() ));
  m_GradientFilter->SetInput( input );

  m_ThresholdFilter->ThresholdBelow( this->m_Threshold );

  m_RescaleFilter->GraftOutput( this->GetOutput() );
  m_RescaleFilter->Update();
  this->GraftOutput( m_RescaleFilter->GetOutput() );
}
//  Software Guide : EndCodeSnippet

//  Software Guide : BeginLatex
//
//  Finally we define the \code{PrintSelf} method, which (by convention)
//  prints the filter parameters.  Note how it invokes the superclass to
//  print itself first, and also how the indentation prefixes each line.
//
//  Software Guide : EndLatex
//
//  Software Guide : BeginCodeSnippet

template< typename TImage >
void
CompositeExampleImageFilter< TImage >
::PrintSelf( std::ostream& os, Indent indent ) const
{
  Superclass::PrintSelf(os,indent);

  os << indent << "Threshold:" << this->m_Threshold
     << std::endl;
}

} // end namespace itk

//  Software Guide : EndCodeSnippet

//  Software Guide : BeginLatex
//
//  It is important to note that in the above example, none of the internal
//  details of the pipeline were exposed to users of the class.  The interface
//  consisted of the Threshold parameter (which happened to change the value in
//  the component filter) and the regular ImageToImageFilter interface.  This
//  example pipeline is illustrated in
//  Figure~\ref{fig:CompositeExamplePipeline}.
//
//  Software Guide : EndLatex

#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"

int main( int argc, char* argv[] )
{
  if( argc < 3 )
    {
    std::cerr << "Usage: " << std::endl;
    std::cerr << argv[0] << "  inputImageFile  outputImageFile" << std::endl;
    return EXIT_FAILURE;
    }

  typedef itk::Image< short, 2 >            ImageType;

  typedef itk::ImageFileReader< ImageType > ReaderType;
  ReaderType::Pointer reader = ReaderType::New();
  reader->SetFileName( argv[1] );

  typedef itk::CompositeExampleImageFilter<ImageType> FilterType;
  FilterType::Pointer filter = FilterType::New();
  filter->SetInput( reader->GetOutput() );
  filter->SetThreshold( 20 );

  typedef itk::ImageFileWriter< ImageType > WriterType;
  WriterType::Pointer writer = WriterType::New();
  writer->SetInput( filter->GetOutput() );
  writer->SetFileName( argv[2] );

  try
    {
    writer->Update();
    }
  catch ( itk::ExceptionObject & e )
    {
    std::cerr << "Error: " << e << std::endl;
    }

  return EXIT_SUCCESS;
}