ModuleCall/GenSrc/bbSlicerForegroundmaskingBRAINS.h

   1 #ifndef __bbSlicerForegroundmaskingBRAINS_h_INCLUDED__
   2 #define __bbSlicerForegroundmaskingBRAINS_h_INCLUDED__
   3
   4 #include "bbSlicer_EXPORT.h"
   5 #include "bbtkAtomicBlackBox.h"
   6
   7 #include <vector>
   8 #include <cstdlib>
   9 #include <dlfcn.h>
  10 #include <sstream>
  11 #include <fstream>
  12 #include <iostream>
  13
  14 #include <ModuleDescriptionUtilities.h>
  15 #include <ModuleDescriptionParser.h>
  16 #include <ModuleParameterGroup.h>
  17 #include <ModuleDescription.h>
  18 #include <ModuleParameter.h>
  19
  20 #include "CreationTool.h"
  21
  22 namespace bbSlicer {
  23
  24     class bbSlicer_EXPORT ForegroundmaskingBRAINS
  25     :
  26     public bbtk::AtomicBlackBox {
  27         BBTK_BLACK_BOX_INTERFACE ( ForegroundmaskingBRAINS , bbtk::AtomicBlackBox ) ;
  28
  29         // GENERATED ARGS
  30
  31 BBTK_DECLARE_INPUT ( inputVolume , std::string );
  32 BBTK_DECLARE_INPUT ( outputROIMaskVolume , std::string );
  33 BBTK_DECLARE_INPUT ( outputClippedVolumeROI , std::string );
  34 BBTK_DECLARE_INPUT ( otsuPercentileThreshold , double );
  35 BBTK_DECLARE_INPUT ( thresholdCorrectionFactor , double );
  36 BBTK_DECLARE_INPUT ( closingSize , double );
  37 BBTK_DECLARE_INPUT ( ROIAutoDilateSize , double );
  38 BBTK_DECLARE_INPUT ( outputVolumePixelType , std::string );
  39 BBTK_DECLARE_INPUT ( numberOfThreads , int );
  40
  41         // EO GENERATED ARGS
  42
  43         BBTK_PROCESS ( Process ) ;
  44         void Process ( ) ;
  45     private:
  46         void execute ( std::string lib , int _argc , char * _argv[] ) ;
  47     } ;
  48
  49     BBTK_BEGIN_DESCRIBE_BLACK_BOX ( ForegroundmaskingBRAINS , bbtk::AtomicBlackBox ) ;
  50     BBTK_NAME ( "ForegroundmaskingBRAINS" ) ;
  51     BBTK_AUTHOR ( "Hans J. Johnson, hans-johnson -at- uiowa.edu, http://wwww.psychiatry.uiowa.edu" ) ;
  52     BBTK_DESCRIPTION ( "This tool uses a combination of otsu thresholding and a closing operations to identify the most prominant foreground region in an image." ) ;
  53     BBTK_CATEGORY ( "Segmentation.Specialized" ) ;
  54
  55     // GENERATED DESCRPTION
  56
  57 BBTK_INPUT(ForegroundmaskingBRAINS , inputVolume , "inputVolume" , std::string, "");
  58 BBTK_INPUT(ForegroundmaskingBRAINS , outputROIMaskVolume , "outputROIMaskVolume" , std::string, "");
  59 BBTK_INPUT(ForegroundmaskingBRAINS , outputClippedVolumeROI , "outputClippedVolumeROI" , std::string, "");
  60 BBTK_INPUT(ForegroundmaskingBRAINS , otsuPercentileThreshold , "otsuPercentileThreshold" , double, "");
  61 BBTK_INPUT(ForegroundmaskingBRAINS , thresholdCorrectionFactor , "thresholdCorrectionFactor" , double, "");
  62 BBTK_INPUT(ForegroundmaskingBRAINS , closingSize , "closingSize" , double, "");
  63 BBTK_INPUT(ForegroundmaskingBRAINS , ROIAutoDilateSize , "ROIAutoDilateSize" , double, "");
  64 BBTK_INPUT(ForegroundmaskingBRAINS , outputVolumePixelType , "outputVolumePixelType" , std::string, "");
  65 BBTK_INPUT(ForegroundmaskingBRAINS , numberOfThreads , "numberOfThreads" , int, "");
  66
  67     // EO GENERATED DESCRIPTION
  68
  69     BBTK_END_DESCRIBE_BLACK_BOX ( ForegroundmaskingBRAINS ) ;
  70 }
  71
  72 #endif // __bbSlicerForegroundmaskingBRAINS_h_INCLUDED__
  73
  74