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/// \file DetectorConstruction.hh
/// \brief Definition of the DetectorConstruction class

// This example is provided by the Geant4-DNA collaboration
// Any report or published results obtained using the Geant4-DNA software
// shall cite the following Geant4-DNA collaboration publication:
// Med. Phys. 37 (2010) 4692-4708
// and papers
// M. Batmunkh et al. J Radiat Res Appl Sci 8 (2015) 498-507
// O. Belov et al. Physica Medica 32 (2016) 1510-1520
// The Geant4-DNA web site is available at http://geant4-dna.org
//
// -------------------------------------------------------------------
// November 2016
// -------------------------------------------------------------------
//

#ifndef DetectorConstruction_h
#define DetectorConstruction_h 1

#include "G4Box.hh"
#include "G4LogicalVolume.hh"
#include "G4Material.hh"
#include "G4NistManager.hh"
#include "G4PVPlacement.hh"
#include "G4Sphere.hh"
#include "G4UnionSolid.hh"
#include "G4UserLimits.hh"
#include "G4VPhysicalVolume.hh"
#include "G4VSolid.hh"
#include "G4VUserDetectorConstruction.hh"
#include "G4VisAttributes.hh"
//
#include "NeuronLoadDataFile.hh"

#include "G4Ellipsoid.hh"
#include "G4LogicalVolumeStore.hh"
#include "G4Orb.hh"
#include "G4PVParameterised.hh"
#include "G4PhysicalVolumeStore.hh"
#include "G4SolidStore.hh"
#include "G4Tubs.hh"

#include <vector>

//....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo....

class G4Region;

class DetectorConstruction : public G4VUserDetectorConstruction
{
  public:
    DetectorConstruction();
    ~DetectorConstruction() override;

    G4VPhysicalVolume* Construct() override;
    G4Region* GetTargetRegion() const { return fpRegion; }

    NeuronLoadDataFile* GetNeuronLoadParamz() const { return fNeuronLoadParamz; };
    const G4VPhysicalVolume* GetsomaPV(G4int i) const { return fsomaPV[i]; };
    const G4VPhysicalVolume* GetdendritePV(G4int i) const { return fdendritePV[i]; };
    const G4VPhysicalVolume* GetaxonPV(G4int i) const { return faxonPV[i]; };
    G4Material* GetTargetMaterial() const { return fpWaterMaterial; };

    G4int GetnbSomacomp() const { return fnbSomacomp; }  //
    G4double GetMassSomacomp(G4int i) const { return fMassSomacomp[i]; }  //
    G4double GetMassSomaTot() const { return fMassSomaTot; }  //
    G4ThreeVector GetPosSomacomp(G4int i) const { return fPosSomacomp[i]; }  //

    G4int GetnbDendritecomp() const { return fnbDendritecomp; }  //
    G4double GetMassDendcomp(G4int i) const { return fMassDendcomp[i]; }  //
    G4double GetMassDendTot() const { return fMassDendTot; }  //
    G4ThreeVector GetPosDendcomp(G4int i) const { return fPosDendcomp[i]; }  //
    G4double GetDistADendSoma(G4int i) const { return fDistADendSoma[i]; }  //
    G4double GetDistBDendSoma(G4int i) const { return fDistBDendSoma[i]; }  //

    G4int GetnbAxoncomp() const { return fnbAxoncomp; }  //
    G4double GetMassAxoncomp(G4int i) const { return fMassAxoncomp[i]; }  //
    G4double GetMassAxonTot() const { return fMassAxonTot; }  //
    G4ThreeVector GetPosAxoncomp(G4int i) const { return fPosAxoncomp[i]; }  //
    G4double GetDistAxonsoma(G4int i) const { return fDistAxonsoma[i]; }  //

    G4double GetTotVolNeuron() const { return fTotVolNeuron; }
    G4double GetTotSurfNeuron() const { return fTotSurfNeuron; }
    G4double GetTotMassNeuron() const { return fTotMassNeuron; }  //
    G4double GetTotVolSlice() const { return fTotVolSlice; }
    G4double GetTotSurfSlice() const { return fTotSurfSlice; }
    G4double GetTotMassSlice() const { return fTotMassSlice; }  //
    G4double GetTotVolMedium() const { return fTotVolMedium; }
    G4double GetTotSurfMedium() const { return fTotSurfMedium; }  //
    G4double GetTotMassMedium() const { return fTotMassMedium; }  //

  private:
    void DefineMaterials();

    G4Material* fpWaterMaterial{nullptr};
    G4Material* fpWorldMaterial{nullptr};
    G4Region* fpRegion{nullptr};

    // For neuron constructions!
    NeuronLoadDataFile* fNeuronLoadParamz;
    G4bool fCheckOverlaps{false};

    std::vector<G4VSolid*> fsomaS;
    std::vector<G4VSolid*> fdendriteS;
    std::vector<G4VSolid*> faxonS;
    std::vector<G4LogicalVolume*> fsomaLV;
    std::vector<G4LogicalVolume*> fdendriteLV;
    std::vector<G4LogicalVolume*> faxonLV;
    std::vector<G4VPhysicalVolume*> fsomaPV;
    std::vector<G4VPhysicalVolume*> fdendritePV;
    std::vector<G4VPhysicalVolume*> faxonPV;

    G4VisAttributes* fSomaColour{nullptr};
    G4VisAttributes* fDendColour{nullptr};
    G4VisAttributes* fAxonColour{nullptr};
    G4VisAttributes* fSpineColour{nullptr};
    G4VisAttributes* fNeuronColour{nullptr};

    G4int fnbSomacomp{0};
    G4int fnbDendritecomp{0};
    G4int fnbAxoncomp{0};

    std::vector<G4ThreeVector> fPosSomacomp;
    std::vector<G4double> fMassSomacomp;

    std::vector<G4double> fDistADendSoma;
    std::vector<G4double> fDistBDendSoma;
    std::vector<G4double> fMassDendcomp;
    std::vector<G4ThreeVector> fPosDendcomp;

    std::vector<G4double> fDistAxonsoma;
    std::vector<G4double> fMassAxoncomp;
    std::vector<G4ThreeVector> fPosAxoncomp;

    G4double fMassSomaTot{0.0};
    G4double fMassDendTot{0.0};
    G4double fMassAxonTot{0.0};

    G4double fTotVolNeuron{0.0};
    G4double fTotSurfNeuron{0.0};
    G4double fTotMassNeuron{0.0};
    G4double fTotVolSlice{0.0};
    G4double fTotSurfSlice{0.0};
    G4double fTotMassSlice{0.0};
    G4double fTotVolMedium{0.0};
    G4double fTotSurfMedium{0.0};
    G4double fTotMassMedium{0.0};
};

#endif