DicomDetectorConstruction.hh

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// $Id: DicomDetectorConstruction.hh 101301 2016-11-14 11:19:22Z gcosmo $
//
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#ifndef DicomDetectorConstruction_h
#define DicomDetectorConstruction_h 1

#include "globals.hh"
#include "G4VUserDetectorConstruction.hh"
#include "DicomPhantomZSliceHeader.hh"

#include <set>
#include <map>

class G4Material;
class G4Box;
class G4LogicalVolume;
class DicomPhantomZSliceMerged;

//*******************************************************
//*******************************************************

struct matInfo 
{
  G4double fSumdens;
  G4int fNvoxels;
  G4int fId;
};

class DicomDetectorConstruction : public G4VUserDetectorConstruction
{
public:

    DicomDetectorConstruction();
    ~DicomDetectorConstruction();

    virtual G4VPhysicalVolume* Construct();
    // trigger the construction of the geometry

protected:
    void InitialisationOfMaterials();
    // create the original materials

    void ReadPhantomData();
    void ReadPhantomDataNew();
    // read the DICOM files describing the phantom
  void ReadVoxelDensities( std::ifstream& fin );

    void ReadPhantomDataFile(const G4String& fname);
    // read one of the DICOM files describing the phantom (usually one per Z slice).
    //  Build a DicomPhantomZSliceHeader for each file

    void MergeZSliceHeaders();
    // merge the slice headers of all the files

    G4Material* BuildMaterialWithChangingDensity( const G4Material* origMate,
    float density, G4String newMateName );
    // build a new material if the density of the voxel is different to the other voxels

    void ConstructPhantomContainer();
  void ConstructPhantomContainerNew();
  virtual void ConstructPhantom() = 0;
    // construct the phantom volumes.
    //  This method should be implemented for each of the derived classes

    void SetScorer(G4LogicalVolume* voxel_logic);

    virtual void ConstructSDandField();
    
protected:
    G4Material* fAir;

    // World ...
    G4Box* fWorld_solid;
    G4LogicalVolume* fWorld_logic;
    G4VPhysicalVolume* fWorld_phys;

    G4Box* fContainer_solid;
    G4LogicalVolume* fContainer_logic;
    G4VPhysicalVolume* fContainer_phys;

    G4int fNoFiles; // number of DICOM files
    std::vector<G4Material*> fOriginalMaterials;  // list of original materials
    std::vector<G4Material*> fMaterials;
    // list of new materials created to distinguish different density
    //  voxels that have the same original materials
    size_t* fMateIDs; // index of material of each voxel
    //unsigned int* fMateIDs; // index of material of each voxel

    std::map<G4int,G4double> fDensityDiffs;
    // Density difference to distinguish material for each original material (by index)

    std::vector<DicomPhantomZSliceHeader*> fZSliceHeaders;
    // list of z slice header (one per DICOM files)
    DicomPhantomZSliceHeader* fZSliceHeaderMerged;
    // z slice header resulted from merging all z slice headers

    G4int fNVoxelX, fNVoxelY, fNVoxelZ;
    G4double fVoxelHalfDimX, fVoxelHalfDimY, fVoxelHalfDimZ;
    G4double fMinX,fMinY,fMinZ; // minimum extension of voxels (position of wall)
    G4double fMaxX,fMaxY,fMaxZ; // maximum extension of voxels (position of wall)

    std::map<G4int,G4Material*> thePhantomMaterialsOriginal;
     // map numberOfMaterial to G4Material. They are the list of materials as built from .geom file

    DicomPhantomZSliceMerged* fMergedSlices;

    std::set<G4LogicalVolume*> fScorers;
    
  G4bool fConstructed;
};

#endif