#ifndef __bbSlicerForegroundmaskingBRAINS_h_INCLUDED__
#define __bbSlicerForegroundmaskingBRAINS_h_INCLUDED__

#include "bbSlicer_EXPORT.h"
#include "bbtkAtomicBlackBox.h"

#include <vector>
#include <cstdlib>
#include <dlfcn.h>
#include <sstream>
#include <fstream>
#include <iostream>

#include <ModuleDescriptionUtilities.h>
#include <ModuleDescriptionParser.h>
#include <ModuleParameterGroup.h>
#include <ModuleDescription.h>
#include <ModuleParameter.h>

#include "CreationTool.h"

namespace bbSlicer {

    class bbSlicer_EXPORT ForegroundmaskingBRAINS
    :
    public bbtk::AtomicBlackBox {
        BBTK_BLACK_BOX_INTERFACE ( ForegroundmaskingBRAINS , bbtk::AtomicBlackBox ) ;

        // GENERATED ARGS        
        
BBTK_DECLARE_INPUT ( inputVolume , std::string );
BBTK_DECLARE_INPUT ( outputROIMaskVolume , std::string );
BBTK_DECLARE_INPUT ( outputClippedVolumeROI , std::string );
BBTK_DECLARE_INPUT ( otsuPercentileThreshold , double );
BBTK_DECLARE_INPUT ( thresholdCorrectionFactor , double );
BBTK_DECLARE_INPUT ( closingSize , double );
BBTK_DECLARE_INPUT ( ROIAutoDilateSize , double );
BBTK_DECLARE_INPUT ( outputVolumePixelType , std::string );
BBTK_DECLARE_INPUT ( numberOfThreads , int );

        // EO GENERATED ARGS

        BBTK_PROCESS ( Process ) ;
        void Process ( ) ;
    private:
        void execute ( std::string lib , int _argc , char * _argv[] ) ;
    } ;

    BBTK_BEGIN_DESCRIBE_BLACK_BOX ( ForegroundmaskingBRAINS , bbtk::AtomicBlackBox ) ;
    BBTK_NAME ( "ForegroundmaskingBRAINS" ) ;
    BBTK_AUTHOR ( "Hans J. Johnson, hans-johnson -at- uiowa.edu, http://wwww.psychiatry.uiowa.edu" ) ;
    BBTK_DESCRIPTION ( "This tool uses a combination of otsu thresholding and a closing operations to identify the most prominant foreground region in an image." ) ;
    BBTK_CATEGORY ( "Segmentation.Specialized" ) ;

    // GENERATED DESCRPTION
    
BBTK_INPUT(ForegroundmaskingBRAINS , inputVolume , "inputVolume" , std::string, "");
BBTK_INPUT(ForegroundmaskingBRAINS , outputROIMaskVolume , "outputROIMaskVolume" , std::string, "");
BBTK_INPUT(ForegroundmaskingBRAINS , outputClippedVolumeROI , "outputClippedVolumeROI" , std::string, "");
BBTK_INPUT(ForegroundmaskingBRAINS , otsuPercentileThreshold , "otsuPercentileThreshold" , double, "");
BBTK_INPUT(ForegroundmaskingBRAINS , thresholdCorrectionFactor , "thresholdCorrectionFactor" , double, "");
BBTK_INPUT(ForegroundmaskingBRAINS , closingSize , "closingSize" , double, "");
BBTK_INPUT(ForegroundmaskingBRAINS , ROIAutoDilateSize , "ROIAutoDilateSize" , double, "");
BBTK_INPUT(ForegroundmaskingBRAINS , outputVolumePixelType , "outputVolumePixelType" , std::string, "");
BBTK_INPUT(ForegroundmaskingBRAINS , numberOfThreads , "numberOfThreads" , int, "");

    // EO GENERATED DESCRIPTION

    BBTK_END_DESCRIBE_BLACK_BOX ( ForegroundmaskingBRAINS ) ;
}

#endif // __bbSlicerForegroundmaskingBRAINS_h_INCLUDED__