#ifndef __bbSlicerDicomtoNrrdConverter_h_INCLUDED__
#define __bbSlicerDicomtoNrrdConverter_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 DicomtoNrrdConverter
    :
    public bbtk::AtomicBlackBox {
        BBTK_BLACK_BOX_INTERFACE ( DicomtoNrrdConverter , bbtk::AtomicBlackBox ) ;

        // GENERATED ARGS        
        
BBTK_DECLARE_INPUT ( inputDicomDirectory , std::string );
BBTK_DECLARE_INPUT ( outputDirectory , std::string );
BBTK_DECLARE_INPUT ( outputVolume , std::string );
BBTK_DECLARE_INPUT ( smallGradientThreshold , double );
BBTK_DECLARE_INPUT ( writeProtocolGradientsFile , bool );
BBTK_DECLARE_INPUT ( useIdentityMeaseurementFrame , bool );
BBTK_DECLARE_INPUT ( useBMatrixGradientDirections , bool );

        // EO GENERATED ARGS

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

    BBTK_BEGIN_DESCRIBE_BLACK_BOX ( DicomtoNrrdConverter , bbtk::AtomicBlackBox ) ;
    BBTK_NAME ( "DicomtoNrrdConverter" ) ;
    BBTK_AUTHOR ( "Xiaodong Tao" ) ;
    BBTK_DESCRIPTION ( "Converts diffusion weighted MR images in dicom series into Nrrd format for analysis in Slicer. This program has been tested on only a limited subset of DTI dicom formats available from Siemens, GE, and Phillips scanners. Work in progress to support dicom multi-frame data. The program parses dicom header to extract necessary information about measurement frame, diffusion weighting directions, b-values, etc, and write out a nrrd image. For non-diffusion weighted dicom images, it loads in an entire dicom series and writes out a single dicom volume in a .nhdr/.raw pair." ) ;
    BBTK_CATEGORY ( "Converters" ) ;

    // GENERATED DESCRPTION
    
BBTK_INPUT(DicomtoNrrdConverter , inputDicomDirectory , "inputDicomDirectory" , std::string, "");
BBTK_INPUT(DicomtoNrrdConverter , outputDirectory , "outputDirectory" , std::string, "");
BBTK_INPUT(DicomtoNrrdConverter , outputVolume , "outputVolume" , std::string, "");
BBTK_INPUT(DicomtoNrrdConverter , smallGradientThreshold , "smallGradientThreshold" , double, "");
BBTK_INPUT(DicomtoNrrdConverter , writeProtocolGradientsFile , "writeProtocolGradientsFile" , bool, "");
BBTK_INPUT(DicomtoNrrdConverter , useIdentityMeaseurementFrame , "useIdentityMeaseurementFrame" , bool, "");
BBTK_INPUT(DicomtoNrrdConverter , useBMatrixGradientDirections , "useBMatrixGradientDirections" , bool, "");

    // EO GENERATED DESCRIPTION

    BBTK_END_DESCRIBE_BLACK_BOX ( DicomtoNrrdConverter ) ;
}

#endif // __bbSlicerDicomtoNrrdConverter_h_INCLUDED__