- // Get arguments
- if( argc < 16 )
- {
- std::cerr
- << "Usage: " << argv[ 0 ] << std::endl
- << " input_image output_image output_signal" << std::endl
- << " init_threshold end_threshold delta" << std::endl
- << " minimum_threshold" << std::endl
- << " inside_value outside_value" << std::endl
- << " signal_kernel_size signal_threshold signal_influence"
- << std::endl
- << " seed_x seed_y seed_z"
- << std::endl;
- return( 1 );
-
- } // fi
- std::string input_image_filename = argv[ 1 ];
- std::string output_image_filename = argv[ 2 ];
- std::string output_signal_filename = argv[ 3 ];
- TPixel init_threshold = std::atoi( argv[ 4 ] );
- TPixel end_threshold = std::atoi( argv[ 5 ] );
- TPixel delta = std::atoi( argv[ 6 ] );
- TPixel minimum_threshold = std::atoi( argv[ 7 ] );
- TLabel inside_value = std::atoi( argv[ 8 ] );
- TLabel outside_value = std::atoi( argv[ 9 ] );
- unsigned long signal_kernel_size = std::atoi( argv[ 10 ] );
- double signal_threshold = std::atof( argv[ 11 ] );
- double signal_influence = std::atof( argv[ 12 ] );
- TInputImage::PointType pseed;
- for( int i = 0; i < Dim; ++i )
- pseed[ i ] = std::atof( argv[ 13 + i ] );
-
- // Read image
- itk::ImageFileReader< TInputImage >::Pointer input_image_reader =
- itk::ImageFileReader< TInputImage >::New( );
- input_image_reader->SetFileName( input_image_filename );
-
- // Prepare filter
- TFilter::Pointer filter = TFilter::New( );
- filter->SetInput( input_image_reader->GetOutput( ) );
- filter->SetSeed( pseed );
- filter->SetThresholds( init_threshold, end_threshold, delta );
- filter->SetMinimumThreshold( minimum_threshold );
- filter->SetInsideValue( inside_value );
- filter->SetOutsideValue( outside_value );
- filter->SetSignalKernelSize( signal_kernel_size );
- filter->SetSignalThreshold( signal_threshold );
- filter->SetSignalInfluence( signal_influence );
-
- // Show some information
- std::cout << "----------------------------------------------" << std::endl;
- std::cout << "Image: " << input_image_filename << std::endl;
-
- // Execute pipeline
- std::chrono::time_point< std::chrono::high_resolution_clock > ts, te;
- std::chrono::duration< double > tr;
+ typedef TCLAP::ValueArg< std::string > _TStringArg;
+ typedef TCLAP::ValueArg< double > _TRealArg;
+ typedef TCLAP::ValueArg< unsigned long > _TUIntArg;
+ typedef TCLAP::ValueArg< TPixel > _TPixelArg;
+
+ // Parse input line
+ _TStringArg in( "i", "input", "Input image", true, "", "file" );
+ _TStringArg out( "o", "output", "Output image", true, "", "file" );
+ _TStringArg signal( "s", "signal", "Output signal", false, "", "file" );
+ _TStringArg aSeed( "p", "seed", "Input seed", true, "", "\"x y z\"" );
+ _TPixelArg mThr( "t", "min_thr", "Minimum threshold", false, -850, "value (-850)" );
+ _TUIntArg sKernel( "k", "kernel", "Kernel size", false, 20, "value (20)" );
+ _TRealArg sThr( "r", "signal_thr", "Signal threshold", false, 100, "value (100)" );
+ _TRealArg sInfluence( "f", "signal_influence", "Signal influence", false, 0.5, "value (0.5)" );
+ _TPixelArg lower( "l", "lower", "Lower threshold", false, -1024, "value (-1024)" );
+ _TPixelArg upper( "u", "upper", "Upper threshold", false, 0, "value (0)" );
+ _TPixelArg delta( "d", "delta", "Delta threshold", false, 1, "value (1)" );