marAxis.h

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/*=========================================================================

  Program:   wxMaracas
  Module:    $RCSfile: marAxis.h,v $
  Language:  C++
  Date:      $Date: 2010/04/29 16:05:38 $
  Version:   $Revision: 1.3 $

  Copyright: (c) 2002, 2003
  License:
  
     This software is distributed WITHOUT ANY WARRANTY; without even 
     the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
     PURPOSE.  See the above copyright notice for more information.

=========================================================================*/

#ifndef __MAR__KERNEL__AXIS__HXX__
#define __MAR__KERNEL__AXIS__HXX__

#include <vtkPolyData.h>
#include <vtkProbeFilter.h>
#include <vector>

//In an ideal future we should get rid of gslobj to get rid of gsl...
// PS -> //#include "gslobj.hxx" //PS

#include "curve.hxx"
#include "volume.hxx"
#include "marContour.h"
#include "marObject.h"
#include "ExtractionAxe.h"
#include <marAxisContours.h>
#include <marIsocontour.h>

class vtkPoints;
class vtkCellArray;

class MAR_KERNEL_EXPORT marAxis : public marObject, public kCurve
{
public:

  enum AxisStateVectorIndexes
{
    INDX_X = 0,       
    INDX_Y,           
    INDX_Z,           
    INDX_V1X,         
    INDX_V1Y,         
    INDX_V1Z,         
    INDX_V2X,         
    INDX_V2Y,         
    INDX_V2Z,         
    INDX_V3X,         
    INDX_V3Y,         
    INDX_V3Z,         
    INDX_LAMBDA1,     
    INDX_LAMBDA2,     
    INDX_LAMBDA3,     
    INDX_MASSE,       
    INDX_RAYON,       
    INDX_INERTIE,     
    INDX_PTAGEMASSE,  
    INDX_PTAGERAYON,  
    INDX_SIGNALVALUE, 
    INDX_count        
    };

public:

  marAxis( marParameters* p = NULL );

  ~marAxis( ) { reset( ); };

  std::string& getDescription( ) { return( _description ); };

  void setDescription( std::string& d ) { _description = d; };

  void addAxisPoint( double* p );
  void changeAxisResolution( );
  void calculateSignal( kVolume* vol );
    

  int getActualQuant( )                                         { return _actualQuant;                          }

  float getSignal( uint slice )                         { return( _signal[ slice ] );           };

  double* getSplinePoint( uint i )                      { return ( _points[ i ] );                      };

  int getHealthySlice( )                                        { return( _healthySlice );                      };
  int getHealthySliceStart( )                           { return( _healthySliceStart );         };
  int getHealthySliceEnd( )                                     { return( _healthySliceEnd );           };

  void setActualQuant(int act)                          { _actualQuant=act;                                     };

  void setHealthySlice( int hsS, int hs, int hsE );

  void setStartQuant( int sq );
  void setFinishQuant( int fq );


  int   getStartQuant( )                                        { return _startQuant;                           };
  int   getFinishQuant( )                                       { return _finishQuant;                          };


  void start( );
  void next( )                                                          { _actualQuant++; };
  void stop( )                                                          { _actualQuant = _finishQuant + 1; };
  bool isFinished( ) { return( _actualQuant >= _startQuant && _actualQuant <= _finishQuant ); }

  void doSpline ( );

  void cut( int slice, bool up );

// EED Ojo eduardo esto toca borrarlo
  void sliceVolumeAxis( kVolume* vol, bool forceCnt = true );

  double* getNormal( unsigned int slice );

  int getNumberOfContours( );
  int getNumberOfSplinePoints( );

// EED Ojo Eduardo esto toca redefinirlo o partilo en dos o algo..
//  vtkPolyData* setContour( int i, int x = -1, int y = -1,  std::vector< double* >* points =  NULL, marContour* c = NULL );

// EED borrame
/*
  marContour* getContour( int i ) { return( _contours[ i ] ); };
  kVolume* getSlice( int i ) { return( _slices[ i ] ); };
  vtkProbeFilter* get3DSlice( int i ) { return( _3Dslices[ i ] ); };
  vtkImageData* getSliceImage( int i ) { return(_quantificationImages[ i ]);  };
*/

  bool              if3DcontourExist(int i);
  void                          Save3Dcontour(FILE *ff,int i);
  void                          SaveExisting3DContours(FILE *ff);
        
  marContour*           getContour(             int i , kVolume* vol );         // DATA-MODEL-2D  
  kVolume*                      getSlice(               int i , kVolume* vol );         // DATA-MODEL-Voxel XxYx1
  vtkProbeFilter*       get3DSlice(             int i , kVolume* vol );         // VISUALISATION-VTK 3D
  vtkPoints*            get3Dcontour(   int i , kVolume* vol );         // VISUALISATION-VTK 3D
  vtkImageData*         getSliceImage(  int i , kVolume* vol );         // VISUALISATION-VTK 2D
  vtkPolyData*          get2Dcontour(   int i , kVolume* vol );         // VISUALISATION-VTK 2D
  vtkPoints*            get2DDiameterMin(       int i , kVolume* vol );         // VISUALISATION-VTK 3D
  vtkPoints*            get2DDiameterMax(       int i , kVolume* vol );         // VISUALISATION-VTK 3D

  void                          replaceContour2D(int i,int size,double *vx,double *vy);
  void                          EraseContour(int i);

  void                          createEmptyVectors();
  void                          clearAllVectors(); 
  void                          eraseContourVectorsContent();
  

  void                          set_points_disc   ( PPPOINTAXE p ) { _points_disc = p; };

  double                        getTotalLength();
  double                        getSubAxisLength();
  double                        getReferenceArea(kVolume* vol);
  double                        getReferenceAverDiam(kVolume* vol);
  double                        getAverageArea(int pIni, int pEnd, kVolume* vol);

  void                          reset( );
  void                          copyFrom( const marObject& from );

  bool                          save( std::ofstream& os );
  bool                          load( std::ifstream& is );

  vtkPolyData           *Draw( );
  vtkPolyData           *GetAxisData();
  void                          Delete( );
  double*                       getPoints(int i) { return _points[i]; };        

        void AddPointToList(double x, double y, double z, int signal);



private:

  double _totalAxisLenght;
  double _subAxisLenght;
  double _referenceArea;
  double _referenceAverDiam;

  std::string                                           _description;                           //  Axis description
  std::vector< double* >                        _points;                                        //  Axis spline points
  std::vector< marContour* >            _contours;                                      //  DATA-MODEL-2D                       Axis Contours
  std::vector< kVolume* >                       _slices;                                        //  DATA-MODEL-Voxel XxYx1      Axis perpendicular Slice
  std::vector< vtkProbeFilter* >        _3Dslices;                                      //  VISUALISATION_VTK 3D        Axis perpendicular Slice
  std::vector< vtkPoints* >                     _3Dcontour;                                     //  VISUALISATION_VTK 3D        Axis perpendicular Contour
  std::vector< vtkImageData* >          _quantificationImages;          //  VISUALISATION_VTK 2D    Axis perpendicular Coup
  std::vector< vtkPolyData* >           _2Dcontours;                            //  VISUALISATION_VTK 2D        Axis perpendicular Contour
  std::vector< vtkPoints* >                     _2DDiameterMin;                         //  VISUALISATION_VTK 2D        Line diameter Minimum
  std::vector< vtkPoints* >                     _2DDiameterMax;                         //  VISUALISATION_VTK 2D        Line diameter Maximum
  std::vector< int >                            _signal;                                        //  Axis intensity signal
  int _healthySlice;                     //  Healthy slice, if -1 then is unselected
  int _healthySliceStart;
  int _healthySliceEnd;
  int _startQuant;
  int _finishQuant;
  int _actualQuant;
  PPPOINTAXE _points_disc;
    
  vtkPolyData* _allData;

  // Properties from marObject
  //marParameters* _parameters;

  // Properties from kCurve
  // std::vector< double* > _controlPoints; //  Axis calculated points

  void          calculateTotalAxisLenght();     
  void          calculateSubAxisLength();
  void          calculateReferenceArea(kVolume* vol );
  void          calculateReferenceAverDiam(kVolume* vol );
  void          createContour(          int i   , kVolume* vol );
  void          createSlice(            int i   , kVolume* vol );
  void          create3DSlice(          int i   , kVolume* vol );
  void          create3Dcontour(        int i   , kVolume* vol );
  void          createSliceImage(       int i   , kVolume* vol );
  void          create2Dcontour(        int i   , kVolume* vol );
  void          create2DDiameterMin(int i       , kVolume* vol );
  void          create2DDiameterMax(int i       , kVolume* vol );
  double        getAxisLenght(          int pIni, int pEnd);
  

protected:

  std::vector <marAxisContours* > quantContours;
  std::vector <marPoint *> vesselPoints;
  std::vector <marIsocontour *> lumenContour;
  bool calibration;
  

//  std::vector <marIsocontour* > pointContours;
  

};

#endif // __MAR__KERNEL__AXIS__HXX__