repairmodels/include/BelovModel.hh

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0025 //
0026 // Authors: O. Belov and M. Batmunkh
0027 // January 2017
0028 // last edit: L.T. Anh (2023)
0029 /// \file BelovModel.hh
0030 /// \brief Definition of the BelovModel class
0031
0032
0033 #ifndef BelovModel_H
0034 #define BelovModel_H 1
0035
0036 #include <iostream>
0037 #include <fstream>
0038 #include <vector>
0039 #include <map>
0040
0041 class Damage;
0042
0043 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
0044
0045 class BelovModel
0046 {
0047 public:
0048   BelovModel();
0049   void Initialize();
0050   bool CalculateRepair(double Dz);
0051
0052   void SetAlpha(double value){falpha=value;};
0053   void SetNirrep(double value){fNirrep=value;};
0054
0055   virtual
0056   ~BelovModel() = default;
0057
0058  //Computes and sets input damage parameters
0059   void ComputeAndSetDamageInput(std::vector<Damage>);
0060
0061   std::vector<std::pair<double,double>> GetDNARepair(std::string NameFoci);
0062
0063   void WriteOutput(std::string pFileName);
0064
0065   unsigned int GetBpForDSB(){return fBpForDSB;};
0066     void SetBpForDSB(unsigned int pVal){fBpForDSB = pVal;};
0067   void SetDose(double d) {fDose = d;}
0068   void SetDSBandComDSBandDose(double dsby,double cdsby,double d);
0069 private:
0070   double fDz;
0071   double falpha;
0072   double fNirrep;
0073   double fTime;
0074   double ComplexDSBYield;
0075   double DSBYield;
0076   std::vector<double> Belov_odes_system(double t,std::vector<double> y);
0077   std::vector<std::pair<double,double>> frepairsim[5];
0078   std::map<std::string,std::vector<std::pair<double,double>>> fdnarepair;
0079   // num of bp to consider a DSB for the MakeCluster function
0080     // default value is 10
0081     unsigned int fBpForDSB;
0082   // store dose deposited in nucleus cell
0083     double fDose;
0084 };
0085 #endif