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This commit is contained in:
Gabriele Cosmo
2017-02-28 16:18:37 +01:00
parent 4597adb7c4
commit 3a5407696b
563 changed files with 0 additions and 95641 deletions
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source/processes/electromagnetic/dna/utils/include/G4DNADamages.hh
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//
// ********************************************************************
// * License and Disclaimer *
// * *
// * The Geant4 software is copyright of the Copyright Holders of *
// * the Geant4 Collaboration. It is provided under the terms and *
// * conditions of the Geant4 Software License, included in the file *
// * LICENSE and available at http://cern.ch/geant4/license . These *
// * include a list of copyright holders. *
// * *
// * Neither the authors of this software system, nor their employing *
// * institutes,nor the agencies providing financial support for this *
// * work make any representation or warranty, express or implied, *
// * regarding this software system or assume any liability for its *
// * use. Please see the license in the file LICENSE and URL above *
// * for the full disclaimer and the limitation of liability. *
// * *
// * This code implementation is the result of the scientific and *
// * technical work of the GEANT4 collaboration. *
// * By using, copying, modifying or distributing the software (or *
// * any work based on the software) you agree to acknowledge its *
// * use in resulting scientific publications, and indicate your *
// * acceptance of all terms of the Geant4 Software license. *
// ********************************************************************
//
// $Id: G4DNADamages.hh 85244 2014-10-27 08:24:13Z gcosmo $
//
// Author: Mathieu Karamitros, kara@cenbg.in2p3.fr
// The code is developed in the framework of the ESA AO7146
//
// We would be very happy hearing from you, send us your feedback! :)
//
// In order for Geant4-DNA to be maintained and still open-source,
// article citations are crucial.
// If you use Geant4-DNA chemistry and you publish papers about your software,
// in addition to the general paper on Geant4-DNA:
//
// Int. J. Model. Simul. Sci. Comput. 1 (2010) 157–178
//
// we would be very happy if you could please also cite the following
// reference papers on chemistry:
//
// J. Comput. Phys. 274 (2014) 841-882
// Prog. Nucl. Sci. Tec. 2 (2011) 503-508
#ifndef G4DNADAMAGES_HH
#define G4DNADAMAGES_HH 1
#include "G4Molecule.hh"
class G4VDNAHit
{
public :
G4VDNAHit(){;}
virtual ~G4VDNAHit(){;}
};
class G4DNAIndirectHit : public G4VDNAHit
{
public :
G4DNAIndirectHit(const G4String& baseName, const G4Molecule* molecule,
const G4ThreeVector& position, G4double time);
virtual ~G4DNAIndirectHit();
inline const G4Molecule* GetMolecule() {return fpMolecule;}
inline const G4ThreeVector& GetPosition() {return fPosition;}
inline const G4String& GetBaseName() {return fBaseName;}
inline double GetTime() {return fTime;}
void Print();
protected :
const G4Molecule* fpMolecule;
G4ThreeVector fPosition;
G4double fTime;
G4String fBaseName;
};
class G4DNADamages
{
public:
static G4DNADamages* Instance();
static void DeleteInstance();
virtual void Reset();
//void AddDirectDamage();
virtual void AddIndirectDamage(const G4String& baseName,const G4Molecule* molecule,
const G4ThreeVector& position, double time);
inline const std::vector<G4DNAIndirectHit*>* GetIndirectHits();
inline virtual int GetNIndirectHits() const
{
if(fJustCountDamage)
return fNIndirectDamages;
return fIndirectHits.size();
}
inline virtual void SetOnlyCountDamages(bool flag = true)
{
fJustCountDamage = flag;
}
inline virtual bool OnlyCountDamages() const
{
return fJustCountDamage;
}
protected :
G4DNADamages();
static G4ThreadLocal G4DNADamages* fpInstance;
virtual ~G4DNADamages();
G4bool fJustCountDamage;
G4int fNIndirectDamages;
std::vector<G4DNAIndirectHit*> fIndirectHits;
std::map<G4Molecule, const G4Molecule*> fMolMap;
};
inline const std::vector<G4DNAIndirectHit*>* G4DNADamages::GetIndirectHits()
{
return &fIndirectHits;
}
#endif // G4DNADAMAGES_HH
source/processes/electromagnetic/dna/utils/src/G4DNADamages.cc
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//
// ********************************************************************
// * License and Disclaimer *
// * *
// * The Geant4 software is copyright of the Copyright Holders of *
// * the Geant4 Collaboration. It is provided under the terms and *
// * conditions of the Geant4 Software License, included in the file *
// * LICENSE and available at http://cern.ch/geant4/license . These *
// * include a list of copyright holders. *
// * *
// * Neither the authors of this software system, nor their employing *
// * institutes,nor the agencies providing financial support for this *
// * work make any representation or warranty, express or implied, *
// * regarding this software system or assume any liability for its *
// * use. Please see the license in the file LICENSE and URL above *
// * for the full disclaimer and the limitation of liability. *
// * *
// * This code implementation is the result of the scientific and *
// * technical work of the GEANT4 collaboration. *
// * By using, copying, modifying or distributing the software (or *
// * any work based on the software) you agree to acknowledge its *
// * use in resulting scientific publications, and indicate your *
// * acceptance of all terms of the Geant4 Software license. *
// ********************************************************************
//
// $Id: G4DNADamages.cc 85244 2014-10-27 08:24:13Z gcosmo $
//
#include "G4DNADamages.hh"
#include "G4UnitsTable.hh"
G4ThreadLocal G4DNADamages* G4DNADamages::fpInstance(0);
G4DNAIndirectHit::G4DNAIndirectHit(const G4String& baseName,
const G4Molecule* molecule,
const G4ThreeVector& position,
G4double time) :
G4VDNAHit(), fpMolecule(molecule)
{
fBaseName = baseName;
fPosition = position;
fTime = time;
}
G4DNAIndirectHit::~G4DNAIndirectHit()
{
if (fpMolecule) delete fpMolecule;
fpMolecule = 0;
}
void G4DNAIndirectHit::Print()
{
G4cout << "Reaction : " << fpMolecule->GetName() << " + " << fBaseName
<< " at position : " << G4BestUnit(fPosition, "Length")
<< " and time : " << G4BestUnit(fTime, "Time") << G4endl;
}
G4DNADamages* G4DNADamages::Instance()
{
if (!fpInstance) new G4DNADamages();
return fpInstance;
}
G4DNADamages::G4DNADamages()
{
fJustCountDamage = false;
fNIndirectDamages = 0;
fpInstance = this;
}
G4DNADamages::~G4DNADamages()
{
for (int i = 0; i < (int) fIndirectHits.size(); i++)
{
if (fIndirectHits[i]) delete fIndirectHits[i];
}
fIndirectHits.clear();
}
void G4DNADamages::DeleteInstance()
{
if (fpInstance) delete fpInstance;
fpInstance = 0;
}
void G4DNADamages::Reset()
{
fNIndirectDamages = 0;
for (int i = 0; i < (int) fIndirectHits.size(); i++)
{
if (fIndirectHits[i]) delete fIndirectHits[i];
}
fIndirectHits.clear();
}
void G4DNADamages::AddIndirectDamage(const G4String& baseName,
const G4Molecule* molecule,
const G4ThreeVector& position,
G4double time)
{
if (fJustCountDamage)
{
fNIndirectDamages++;
return;
}
G4DNAIndirectHit* indirectHit = 0;
std::map<G4Molecule, const G4Molecule*>::iterator it = fMolMap.find(
*molecule);
if (it == fMolMap.end())
{
G4Molecule* mol(0);
fMolMap[*molecule] = (mol = new G4Molecule(*molecule));
indirectHit = new G4DNAIndirectHit(baseName, mol, position, time);
}
else
{
indirectHit = new G4DNAIndirectHit(baseName, it->second, position, time);
}
fIndirectHits.push_back(indirectHit);
}