#ifndef __BasicDefOrg_DefOrgViewerAdapter_h
#define __BasicDefOrg_DefOrgViewerAdapter_h

#include "itkImageFileReader.h"
#include "itkImageFileWriter.h"
#include "itkMeanImageFilter.h"
#include "itkBinaryThresholdImageFilter.h"
#include "itkCovariantVector.h"

#include <iostream>
#include "itkOrganism.h"
#include "Phys_Euler.h"
#include "Ctrl_ScheduleDriven.h"
#include "Beh_TranslateAll.h"
#include "Def_Translation.h"
#include "Sense_Gradient.h"
#include "Geom_MeshSpatialObject.h"
#include "Phys_LevelSet.h"

#include "DefOrgViewerAdapterBaseTemplated.h"

#include <vtksys/SystemTools.hxx>
#include <vtksys/CommandLineArguments.hxx>


#define N_DIMS 3
typedef unsigned char									PixelType;
typedef float											DataType;

class BasicDefOrg_DefOrgViewerAdapter:public DefOrgViewerAdapterBaseTemplated<PixelType,DataType>{
public:
	// typedefs for the defOrg:
		
	typedef	 Geom_MeshSpatialObject< DataType, N_DIMS >		GeometricType;
	typedef itk::CovariantVector< DataType, N_DIMS >		GradientPixelType;
	typedef itk::Image< GradientPixelType, N_DIMS >			GradientImageType;
	typedef Phys_LevelSet< DataType, ImageType, N_DIMS >	LevelSetPhysicsType;
	typedef Phys_Euler< DataType, 
		GradientImageType, N_DIMS >							EulerPhysicsType;
	typedef Sense_Gradient< DataType, ImageType, 
		GradientImageType, N_DIMS >							GradientSensorType;
	typedef Ctrl_ScheduleDriven<DataType, N_DIMS>			CognitiveType;
	typedef Beh_TranslateAll<DataType, N_DIMS>				Beh_TranslateAllType;
	typedef Def_Translation<DataType, N_DIMS>				Def_TranslateAllType;

	typedef itk::ItkOrganism < ImageType, ImageType,
		GradientImageType, DataType, N_DIMS >				OrganismType;

	typedef itk::DefaultDynamicMeshTraits<
		DataType, N_DIMS, N_DIMS >							MeshTrait;
	typedef  itk::Mesh< DataType, N_DIMS, MeshTrait >		MeshType;
	typedef  MeshType::Pointer								MeshTypePointer;

	BasicDefOrg_DefOrgViewerAdapter();

	virtual void SetupOrganism();
	virtual void UpdateOrganism();
	virtual void PopulateVtkImage(); 
	virtual void PopulateVtkUnstructuredGrid(vtkUnstructuredGrid* vtkGrid /*in/out*/);
	virtual void PopulateItkScene();

	virtual int MaxNumberOfOutputItkSpatialObjects();
	virtual int MaxNumberOfOutputImages();
	
private:
	OrganismType::Pointer			testOrg;
	LevelSetPhysicsType				levelSetPhysLayer;
	EulerPhysicsType*				eulerPhysLayerPointer;
	GradientSensorType::sensorIn	sensorInput;
	GradientSensorType				gradientSensor;
	GeometricType*					geomLayerPointer;
	CognitiveType*					cognitiveLayerPointer;
	Beh_TranslateAllType*			beh1;
	Def_TranslateAllType*			def1;						

};


#endif