Gabriele Cosmo
119 lines
4.1 KiB
C++
119 lines
4.1 KiB
C++
//
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// ********************************************************************
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// * License and Disclaimer *
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// * *
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// * The Geant4 software is copyright of the Copyright Holders of *
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// * the Geant4 Collaboration. It is provided under the terms and *
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// * conditions of the Geant4 Software License, included in the file *
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// * LICENSE and available at http://cern.ch/geant4/license . These *
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// * include a list of copyright holders. *
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// * *
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// * Neither the authors of this software system, nor their employing *
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// * institutes,nor the agencies providing financial support for this *
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// * work make any representation or warranty, express or implied, *
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// * regarding this software system or assume any liability for its *
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// * use. Please see the license in the file LICENSE and URL above *
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// * for the full disclaimer and the limitation of liability. *
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// * *
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// * This code implementation is the result of the scientific and *
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// * technical work of the GEANT4 collaboration. *
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// * By using, copying, modifying or distributing the software (or *
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// * any work based on the software) you agree to acknowledge its *
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// * use in resulting scientific publications, and indicate your *
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// * acceptance of all terms of the Geant4 Software license. *
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// ********************************************************************
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//
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//
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//
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/// \file LEMIVModel.hh
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/// \brief Definition of the LEMIVModel class
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#ifndef LEMIVMODEL_HH
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#define LEMIVMODEL_HH
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#include <string>
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#include <vector>
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#include <map>
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class Damage;
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class LEMIVModel
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{
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public:
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/// \brief constructor
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// pTfast and pTslow in h-1
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LEMIVModel(double pLoopLength = 2E6,double pNi = 0, double pNc = 0,
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double pNDSB = 0,double pFunrej =0,double pTfast =-1,double pTslow =-1);
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/// \brief destructor
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~LEMIVModel() = default;
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double ComputeUnrej(double pTime);
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double GetLoopLength() {return fLoopLength;};
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void SetLoopLength(double pVal){fLoopLength=pVal;};
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double GetNumDSB() {return fNDSB;};
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void SetNumDSB(double pVal){fNDSB=pVal;};
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double GetNumDomainIsolated(){return fNi;};
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void SetNumDomainIsolated(double pVal){fNi=pVal;};
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double GetNumDomainClustered(){return fNc;};
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void SetNumDomainClustered(double pVal){fNc=pVal;};
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double GetFunrej(){return fFunrej;};
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void SetFunrej(double pVal){fFunrej=pVal;};
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// Tfast in h-1
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double GetTfast(){return fTfast;};
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void SetTfast(double pVal){fTfast=pVal;};
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// Tslow in h-1
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double GetTslow(){return fTslow;};
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void SetTslow(double pVal){fTslow=pVal;};
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// Computes and sets input damage parameters of LEMIV
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void ComputeAndSetDamageInput(std::vector<Damage>);
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// Write U=f(t) curve
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// pTMax and pDeltaT in h
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void CalculateRepair(double pTMax, double pDeltaT);
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// Write output
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void WriteOutput(std::string pFileName);
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unsigned int GetBpForDSB(){return fBpForDSB;};
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void SetBpForDSB(unsigned int pVal){fBpForDSB = pVal;};
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void SetDose(double d) {fDose = d;}
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void SetChromosomeBpSizesMap(std::map<int,unsigned long long int> chroSizes) {fChromosomeBpMap = chroSizes;}
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private:
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double fLoopLength; // length of the loop in bp, default one is 2 Mbp
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//isolated DSB yield in Gy-1
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double fNi{0};
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//clustered DSB yield in Gy-1
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double fNc{0};
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// DSB yield in Gy-1
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double fNDSB{0};
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double fFunrej{0};
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// constant time in h-1
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double fTfast{0};
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double fTslow{0};
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// Compute the number of DSB for a given loop startint at bp pStartLop
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int GetDSBPerLoop(std::vector<Damage> pVecDamage,unsigned int pStartLoop);
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// U=f(t) curve, time in h
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std::vector<std::pair<double,double>> fUCurve;
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// num of bp to consider a DSB for the MakeCluster function
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// default value is 10
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unsigned int fBpForDSB{0};
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// store dose deposited in nucleus cell
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double fDose{0};
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std::vector<double> fDefaultsChromosomeSizes;// Chomosome defaults sizes
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std::map<int,unsigned long long int> fChromosomeBpMap; //Store number of Bp in each Chomosomes;
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};
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#endif |