DemonsRegistration2/DemonsRegistration2.cxx

/*=========================================================================
*
*  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
*
*         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.
*
*=========================================================================*/
 
// This example is based on ITK's DeformableRegistration2.cxx example
 
 
#include <SimpleITK.h>
#include <iostream>
#include <stdlib.h>
#include <iomanip>
 
namespace sitk = itk::simple;
 
 
class IterationUpdate
  : public sitk::Command
{
public:
  IterationUpdate( const sitk::FastSymmetricForcesDemonsRegistrationFilter &m)
    : m_Filter(m)
    {}
 
  void Execute( ) override
    {
      // use sitk's output operator for std::vector etc..
      using sitk::operator<<;
 
      // stash the stream state
      std::ios  state(NULL);
      state.copyfmt(std::cout);
      std::cout << std::fixed << std::setfill(' ') << std::setprecision( 5 );
      std::cout << std::setw(3) << m_Filter.GetElapsedIterations();
      std::cout << " = " << std::setw(10) << m_Filter.GetMetric();
      std::cout << std::endl;
 
      std::cout.copyfmt(state);
    }
 
private:
  const sitk::FastSymmetricForcesDemonsRegistrationFilter &m_Filter;
 
};
 
 
 
int main(int argc, char *argv[])
{
 
  if ( argc < 4 )
    {
    std::cerr << "Usage: " << argv[0] << " <fixedImageFilter> <movingImageFile> [initialTransformFile] <outputTransformFile>" << std::endl;
    return 1;
    }
 
  sitk::Image fixed = sitk::ReadImage( argv[1] );
 
  sitk::Image moving = sitk::ReadImage( argv[2] );
 
  sitk::HistogramMatchingImageFilter matcher;
  if ( fixed.GetPixelID() == sitk::sitkUInt8
       || fixed.GetPixelID() == sitk::sitkInt8 )
    {
    matcher.SetNumberOfHistogramLevels( 128 );
    }
  else
    {
    matcher.SetNumberOfHistogramLevels( 1024 );
    }
  matcher.SetNumberOfMatchPoints( 7 );
  matcher.ThresholdAtMeanIntensityOn();
 
  moving = matcher.Execute(moving, fixed);
 
  sitk::FastSymmetricForcesDemonsRegistrationFilter filter;
 
  IterationUpdate cmd(filter);
  filter.AddCommand( sitk::sitkIterationEvent, cmd );
 
  filter.SetNumberOfIterations( 200 );
  filter.SetStandardDeviations( 1.0 );
 
  sitk::Image displacementField;
 
  if ( argc > 4 )
    {
 
    sitk::Transform initialTransform = sitk::ReadTransform( argv[3] );
    argv[3] = argv[4];
    --argc;
 
    sitk::TransformToDisplacementFieldFilter toDisplacementFilter;
    toDisplacementFilter.SetReferenceImage(fixed);
    displacementField = toDisplacementFilter.Execute(initialTransform);
    displacementField = filter.Execute( fixed, moving, displacementField );
    }
  else
    {
    displacementField = filter.Execute( fixed, moving );
    }
 
  std::cout << "-------" << std::endl;
  std::cout << "Number Of Iterations: " << filter.GetElapsedIterations() << std::endl;
  std::cout << " RMS: " << filter.GetRMSChange() << std::endl;
 
  sitk::DisplacementFieldTransform outTx( displacementField );
 
  sitk::WriteTransform(outTx, argv[3]);
 
  return 0;
}