appli/examples/example_ImageAlgorithmDijkstra_03.cxx

   1 #include <cmath>
   2 #include <ctime>
   3 #include <deque>
   4 #include <iostream>
   5 #include <limits>
   6 #include <map>
   7 #include <string>
   8
   9 #include <itkConstNeighborhoodIterator.h>
  10 #include <itkNeighborhoodIterator.h>
  11 #include <itkDanielssonDistanceMapImageFilter.h>
  12 #include <itkImage.h>
  13 #include <itkImageFileReader.h>
  14 #include <itkImageFileWriter.h>
  15 #include <itkImageToVTKImageFilter.h>
  16
  17 #include <itkMinimumMaximumImageCalculator.h>
  18 #include <itkInvertIntensityImageFilter.h>
  19
  20 #include <vtkPoints.h>
  21 #include <vtkCellArray.h>
  22 #include <vtkFloatArray.h>
  23 #include <vtkPolyData.h>
  24 #include <vtkSmartPointer.h>
  25
  26 #include <fpa/Image/DijkstraWithSphereBacktracking.h>
  27 #include <fpa/VTK/ImageMPR.h>
  28 #include <fpa/VTK/Image3DObserver.h>
  29
  30 // -------------------------------------------------------------------------
  31 const unsigned int Dim = 3;
  32 typedef float                                TPixel;
  33 typedef float                                TScalar;
  34 typedef itk::Image< TPixel, Dim >            TImage;
  35 typedef itk::ImageToVTKImageFilter< TImage > TVTKImage;
  36
  37 typedef itk::ImageFileReader< TImage >          TImageReader;
  38 typedef itk::ImageFileWriter< TImage >    TImageWriter;
  39 typedef fpa::Image::DijkstraWithSphereBacktracking< TImage, TScalar > TDijkstra;
  40
  41 typedef fpa::VTK::ImageMPR TMPR;
  42 typedef fpa::VTK::Image3DObserver< TDijkstra, vtkRenderWindow > TDijkstraObs;
  43
  44 // -------------------------------------------------------------------------
  45 int main( int argc, char* argv[] )
  46 {
  47   if( argc < 6 )
  48   {
  49     std::cerr
  50       << "Usage: " << argv[ 0 ]
  51       << " input_image x y z output_image"
  52       << " visual_debug"
  53       << std::endl;
  54     return( 1 );
  55
  56   } // fi
  57   std::string input_image_fn = argv[ 1 ];
  58   TImage::PointType seed_pnt;
  59   seed_pnt[ 0 ] = std::atof( argv[ 2 ] );
  60   seed_pnt[ 1 ] = std::atof( argv[ 3 ] );
  61   seed_pnt[ 2 ] = std::atof( argv[ 4 ] );
  62   std::string output_image_fn = argv[ 5 ];
  63   bool visual_debug = false;
  64   if( argc > 6 )
  65     visual_debug = ( std::atoi( argv[ 6 ] ) == 1 );
  66
  67   // Read image
  68   TImageReader::Pointer input_image_reader = TImageReader::New( );
  69   input_image_reader->SetFileName( input_image_fn );
  70   try
  71   {
  72     input_image_reader->Update( );
  73   }
  74   catch( itk::ExceptionObject& err )
  75   {
  76     std::cerr << "Error caught: " << err << std::endl;
  77     return( 1 );
  78
  79   } // yrt
  80   TImage::ConstPointer input_image = input_image_reader->GetOutput( );
  81
  82   // Show image
  83   TVTKImage::Pointer vtk_image = TVTKImage::New( );
  84   vtk_image->SetInput( input_image );
  85   vtk_image->Update( );
  86
  87   TMPR view;
  88   view.SetBackground( 0.3, 0.2, 0.8 );
  89   view.SetSize( 800, 800 );
  90   view.SetImage( vtk_image->GetOutput( ) );
  91
  92   // Allow some interaction
  93   view.Start( );
  94
  95   TImage::IndexType seed_idx;
  96   input_image->TransformPhysicalPointToIndex( seed_pnt, seed_idx );
  97   std::cout << seed_idx << " " << seed_pnt << std::endl;
  98   seed_idx[ 0 ] = 256;
  99   seed_idx[ 1 ] = 313;
 100   seed_idx[ 2 ] = 381;
 101
 102   // Extract paths
 103   TDijkstra::Pointer paths = TDijkstra::New( );
 104   paths->AddSeed( seed_idx, TScalar( 0 ) );
 105   paths->SetInput( input_image );
 106   paths->SetNeighborhoodOrder( 2 );
 107
 108   if( visual_debug )
 109   {
 110     // Configure observer
 111     TDijkstraObs::Pointer obs = TDijkstraObs::New( );
 112     obs->SetRenderWindow( view.GetWindow( ) );
 113     paths->AddObserver( itk::AnyEvent( ), obs );
 114     paths->ThrowEventsOn( );
 115   }
 116   else
 117     paths->ThrowEventsOff( );
 118   std::clock_t start = std::clock( );
 119   paths->Update( );
 120   std::clock_t end = std::clock( );
 121   double seconds = double( end - start ) / double( CLOCKS_PER_SEC );
 122   std::cout << "Paths extraction time = " << seconds << std::endl;
 123
 124   // Create polydata
 125   vtkSmartPointer< vtkPoints > points =
 126     vtkSmartPointer< vtkPoints >::New( );
 127   vtkSmartPointer< vtkCellArray > cells =
 128     vtkSmartPointer< vtkCellArray >::New( );
 129   vtkSmartPointer< vtkFloatArray > scalars =
 130     vtkSmartPointer< vtkFloatArray >::New( );
 131
 132   const TDijkstra::TVertices& endpoints = paths->GetEndPoints( );
 133   const TDijkstra::TTree& tree = paths->GetFinalTree( );
 134   TDijkstra::TVertices::const_iterator epIt = endpoints.begin( );
 135   for( unsigned int epId = 0; epIt != endpoints.end( ); ++epIt, ++epId )
 136   {
 137     double pd = double( epId ) / double( endpoints.size( ) - 1 );
 138
 139     TDijkstra::TVertex idx = *epIt;
 140     do
 141     {
 142       TImage::PointType pnt;
 143       input_image->TransformIndexToPhysicalPoint( idx, pnt );
 144
 145       points->InsertNextPoint( pnt[ 0 ], pnt[ 1 ], pnt[ 2 ] );
 146       scalars->InsertNextTuple1( pd );
 147       if( idx != *epIt )
 148       {
 149         cells->InsertNextCell( 2 );
 150         cells->InsertCellPoint( points->GetNumberOfPoints( ) - 2 );
 151         cells->InsertCellPoint( points->GetNumberOfPoints( ) - 1 );
 152
 153       } // fi
 154       idx = tree.find( idx )->second;
 155
 156     } while( idx != tree.find( idx )->second );
 157
 158   } // rof
 159
 160   vtkSmartPointer< vtkPolyData > vtk_tree =
 161     vtkSmartPointer< vtkPolyData >::New( );
 162   vtk_tree->SetPoints( points );
 163   vtk_tree->SetLines( cells );
 164   vtk_tree->GetPointData( )->SetScalars( scalars );
 165
 166   view.AddPolyData( vtk_tree );
 167   view.Render( );
 168   view.Start( );
 169
 170   /* TODO
 171      TImageWriter::Pointer dijkstra_writer =
 172      TImageWriter::New( );
 173      dijkstra_writer->SetInput( paths->GetOutput( ) );
 174      dijkstra_writer->SetFileName( "dijkstra.mhd" );
 175      dijkstra_writer->Update( );
 176   */
 177
 178   return( 0 );
 179 }
 180
 181 // eof - $RCSfile$