tests/image/MoriSegmentation.cxx

   1 #include "BaseFunctions.h"
   2 #include <chrono>
   3 #include <itkImage.h>
   4 #include <fpa/Image/Mori.h>
   5
   6 // -------------------------------------------------------------------------
   7 const unsigned int Dim = 3;
   8 typedef short          TPixel;
   9 typedef unsigned short TLabel;
  10
  11 typedef itk::Image< TPixel, Dim > TInputImage;
  12 typedef itk::Image< TLabel, Dim > TLabelImage;
  13 typedef fpa::Image::Mori< TInputImage, TLabelImage > TFilter;
  14
  15 // -------------------------------------------------------------------------
  16 int main( int argc, char* argv[] )
  17 {
  18   // Get arguments
  19   if( argc < 9 + Dim )
  20   {
  21     std::cerr
  22       << "Usage: " << argv[ 0 ]
  23       << " input_image output_image output_marks output_signal"
  24       << " init_threshold end_threshold delta [index/point] seed"
  25       << std::endl;
  26     return( 1 );
  27
  28   } // fi
  29   std::string input_image_filename = argv[ 1 ];
  30   std::string output_image_filename = argv[ 2 ];
  31   std::string output_marks_filename = argv[ 3 ];
  32   std::string output_signal_filename = argv[ 4 ];
  33   TPixel init_threshold = std::atoi( argv[ 5 ] );
  34   TPixel end_threshold = std::atoi( argv[ 6 ] );
  35   TPixel delta = std::atoi( argv[ 7 ] );
  36   std::string seed_type = argv[ 8 ];
  37
  38   TInputImage::IndexType iseed;
  39   TInputImage::PointType pseed;
  40   for( unsigned int i = 0; i < Dim; ++i )
  41   {
  42     if( seed_type == "index" )
  43       iseed[ i ] = std::atoi( argv[ 9 + i ] );
  44     else
  45       pseed[ i ] = std::atof( argv[ 9 + i ] );
  46
  47   } // rof
  48
  49   // Create image
  50   TInputImage::Pointer input_image;
  51   std::string err0 =
  52     fpa::tests::image::Read( input_image, input_image_filename );
  53   if( err0 != "" ) std::cerr << err0 << std::endl;
  54
  55   // Prepare filter
  56   TFilter::Pointer filter = TFilter::New( );
  57   filter->SetInput( input_image );
  58   if( seed_type == "index" )
  59     filter->SetSeed( iseed );
  60   else
  61     filter->SetSeed( pseed );
  62   filter->SetThresholds( init_threshold, end_threshold, delta );
  63   filter->SetInsideValue( 255 );
  64   filter->SetOutsideValue( 0 );
  65   filter->SetSignalLag( 20 );
  66   filter->SetSignalThreshold( 500 );
  67   filter->SetSignalInfluence( 0.5 );
  68   filter->SetMinimumThreshold( -850 );
  69
  70   // Execute filter
  71   std::chrono::time_point< std::chrono::high_resolution_clock > tstart, tend;
  72   tstart = std::chrono::high_resolution_clock::now( );
  73   filter->Update( );
  74   tend = std::chrono::high_resolution_clock::now( );
  75   std::chrono::duration< double > telapsed = tend - tstart;
  76
  77   // Save results
  78   std::string err1 =
  79     fpa::tests::image::Write( filter->GetThresholdedOutput( ), output_image_filename );
  80   std::string err2 =
  81     fpa::tests::image::Write( filter->GetMarks( ), output_marks_filename );
  82   if( err1 != "" ) std::cerr << err1 << std::endl;
  83   if( err2 != "" ) std::cerr << err2 << std::endl;
  84
  85   std::ofstream osignal( output_signal_filename.c_str( ) );
  86   const TFilter::TSignal& signal = filter->GetSignal( );
  87   for( unsigned long i = 0; i < signal.size( ); ++i )
  88     osignal << signal[ i ].first << " " << signal[ i ].second << std::endl;
  89   osignal.close( );
  90
  91   std::cout
  92     << "------------------------------------------------------" << std::endl
  93     << "Elapsed time: " << telapsed.count( ) << " s" << std::endl
  94     << "Optimum threshold: "
  95     << filter->GetOptimumThreshold( ) << std::endl
  96     << "Number of evaluated thresholds: "
  97     << filter->GetNumberOfEvaluatedThresholds( ) << std::endl
  98     << "------------------------------------------------------"
  99     << std::endl;
 100
 101   return( 0 );
 102 }
 103
 104 // eof - $RCSfile$