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//
// 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
// -------------------------------------------------------------------
//
/// \file Run.hh
/// \brief Definition of the Run class

#ifndef Run_h
#define Run_h 1

#include "G4Run.hh"
#include "G4VProcess.hh"
#include "globals.hh"
#include <map>
#include "G4Molecule.hh"

class DetectorConstruction;
class G4ParticleDefinition;
class G4Molecule;

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

class Run : public G4Run
{
public:
  Run(DetectorConstruction*);
  ~Run() override;

  void SetPrimary(G4ParticleDefinition* particle, G4double energy);   
  void AddPrimaryLET(G4double let);   
  void SetTrackLength(G4double tracklen);  
  void CountProcesses(const G4VProcess* process);
  void ParticleCount(G4String, G4double);
  void ParticleCountNeuron(G4String, G4double); 
  void MoleculeCount(G4String, G4double);
  void MoleculeCountNeuron(G4Molecule* molecule); 
  void AddEdep (G4double edep);
  void AddEflow (G4double eflow);                   
  void ParticleFlux(G4String, G4double); 
                          
  void Merge(const G4Run*) override;
  void EndOfRun();

  // Edep in all volume
  G4double GetEdepALL(){return fEdepAll;}
  void SetEdepALL(G4double vall){ fEdepAll = vall;}
  void AddEdepALL (G4double vall)
  { 
    fEdepAll += vall; 
    fEdepAll_err += vall*vall;
  }   
  // 0. Edep in homogeneous Medium
  G4double GetEdepMedium(){return fEdepMedium;}
  void SetEdepMedium(G4double vall) { fEdepMedium = vall; }
  void AddEdepMedium (G4double vall)
  { 
    fEdepMedium += vall;
    fEdepMedium_err += vall*vall;
  }  
  // 1. Edep in Bounding Slice Volume
  G4double GetEdepSlice(){return fEdepSlice;}
  void SetEdepSlice(G4double vall){ fEdepSlice = vall;}
  void AddEdepSlice (G4double vall)
  { 
    fEdepSlice += vall; 
    fEdepSlice_err += vall*vall;
  }
  // 2. Edep in Soma volume
  G4double GetEdepSoma(){return fEdepSoma;}
  void SetEdepSoma(G4double vall){ fEdepSoma = vall;}
  void AddEdepSoma (G4double vall)
  { 
    fEdepSoma += vall; 
    fEdepSoma_err += vall*vall;
  }
  
  void AddSomaCompart(G4int i, G4double x){ fSoma3DEdep[i] +=x;}
  G4double GetSomaCompart(G4int i){ return fSoma3DEdep[i];}  
  
  // 3. Edep in Dendrites volume
  G4double GetEdepDend(){return fEdepDend;}
  void SetEdepDend(G4double vall){ fEdepDend = vall;}
  void AddEdepDend (G4double vall)
  { 
    fEdepDend += vall; 
    fEdepDend_err += vall*vall;
  }
  
  void AddDendCompart(G4int i, G4double x){ fDend3DEdep[i] +=x;}
  G4double GetDendCompart(G4int i){ return fDend3DEdep[i];}  
  
  // 4. Edep in Axon volume
  G4double GetEdepAxon(){return fEdepAxon;}
  void SetEdepAxon(G4double vall){ fEdepAxon = vall;}
  void AddEdepAxon (G4double vall)
  { 
    fEdepAxon += vall; 
    fEdepAxon_err += vall*vall;
  }
  
  void AddAxonCompart(G4int i, G4double x){ fAxon3DEdep[i] +=x;}
  G4double GetAxonCompart(G4int i){ return fAxon3DEdep[i];}  
  
  // 5. Edep in whole Neuron volume
  G4double GetEdepNeuron(){return fEdepNeuron;}
  void SetEdepNeuron(G4double vall){ fEdepNeuron = vall;}
  void AddEdepNeuron (G4double vall)
  { 
    fEdepNeuron += vall; 
    fEdepNeuron_err += vall*vall;
  }  

private:
  struct ParticleData {
    ParticleData()
      : fCount(0), fEmean(0.), fEmin(0.), fEmax(0.) {}
    ParticleData(G4int count, G4double ekin, G4double emin, G4double emax)
      : fCount(count), fEmean(ekin), fEmin(emin), fEmax(emax) {}
    G4int     fCount;
    G4double  fEmean;
    G4double  fEmin;
    G4double  fEmax;
  };

  DetectorConstruction* fDetector;
  G4ParticleDefinition* fParticle;
  G4double fEkin{0.0};
  G4double fLET{0.0};
  G4double fLET2{0.0};
  G4double ftrackLength{0.0};
  G4double fTrackLen{0.0};
  G4double fTrackLen2{0.0};
  G4int fNParticle{0};
 
  G4double * fSoma3DEdep;
  G4double * fDend3DEdep ;
  G4double * fAxon3DEdep ;  
  G4double * fNeuron3DEdep;  
  G4double fEdepAll,  fEdepAll_err,fEdepMedium, fEdepMedium_err, fEdepSlice,
    fEdepSlice_err,fEdepSoma,fEdepSoma_err, fEdepDend,  fEdepDend_err,fEdepAxon,
    fEdepAxon_err,fEdepNeuron,  fEdepNeuron_err;
  
  G4int fmolNum{0};
  G4int fmolNum2{0};
  G4double fEnergyFlow{0.0};  
  G4double fEnergyFlow2{0.0};
  std::map<G4String,G4int> fMoleculeNumber; 
  std::map<G4String,G4int> fProcCounter;
  std::map<G4String,ParticleData> fParticleDataMap1;                    
  std::map<G4String,ParticleData> fParticleDataMap2;
};

#endif
