pdb4dna/src/SteppingAction.cc

0001 //
0002 // ********************************************************************
0003 // * License and Disclaimer                                           *
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0024 // ********************************************************************
0025 //
0026 // This example is provided by the Geant4-DNA collaboration
0027 // Any report or published results obtained using the Geant4-DNA software
0028 // shall cite the following Geant4-DNA collaboration publication:
0029 // Med. Phys. 37 (2010) 4692-4708
0030 // Delage et al. PDB4DNA: implementation of DNA geometry from the Protein Data
0031 //                  Bank (PDB) description for Geant4-DNA Monte-Carlo
0032 //                  simulations (submitted to Comput. Phys. Commun.)
0033 // The Geant4-DNA web site is available at http://geant4-dna.org
0034 //
0035 //
0036 /// \file SteppingAction.cc
0037 /// \brief Implementation of the SteppingAction class
0038
0039 #include "SteppingAction.hh"
0040
0041 #include "DetectorConstruction.hh"
0042 #include "EventAction.hh"
0043
0044 #include "G4EventManager.hh"
0045 #include "G4LogicalVolumeStore.hh"
0046 #include "G4RunManager.hh"
0047 #include "G4SteppingManager.hh"
0048 #include "G4SystemOfUnits.hh"
0049
0050 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
0051
0052 SteppingAction::SteppingAction()
0053   : G4UserSteppingAction(), RunInitObserver(), fpEventAction(0), fpDetector(0)
0054 {}
0055
0056 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
0057
0058 SteppingAction::~SteppingAction() {}
0059
0060 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
0061
0062 void SteppingAction::Initialize()
0063 {
0064   fpEventAction = (EventAction*)G4EventManager::GetEventManager()->GetUserEventAction();
0065   fpDetector = (DetectorConstruction*)G4RunManager::GetRunManager()->GetUserDetectorConstruction();
0066 }
0067
0068 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
0069
0070 void SteppingAction::UserSteppingAction(const G4Step* theStep)
0071 {
0072   if (theStep->GetPostStepPoint()->GetProcessDefinedStep()->GetProcessName() != "Transportation") {
0073     // Get position and edep of current step
0074     //
0075     G4double x = theStep->GetPreStepPoint()->GetPosition().x() / nanometer;
0076     G4double y = theStep->GetPreStepPoint()->GetPosition().y() / nanometer;
0077     G4double z = theStep->GetPreStepPoint()->GetPosition().z() / nanometer;
0078     G4double edepStep = theStep->GetTotalEnergyDeposit() / eV;
0079
0080     G4LogicalVolume* targetVolume = G4LogicalVolumeStore::GetInstance()->GetVolume("BoundingLV");
0081     G4LogicalVolume* theVolume =
0082       theStep->GetPreStepPoint()->GetPhysicalVolume()->GetLogicalVolume();
0083
0084     if ((edepStep > 0.) && (theVolume == targetVolume)) {
0085       // Add edep to this event
0086       //
0087       fpEventAction->AddEdepEvent(edepStep);
0088       if (fpDetector->GetBarycenterList() == NULL) {
0089         G4cout << "Barycenter list is null!!!" << G4endl;
0090       }
0091       else {
0092         CheckAndProcessDNAHit(x, y, z, edepStep);
0093       }
0094     }
0095   }
0096 }
0097
0098 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
0099
0100 G4bool SteppingAction::CheckAndProcessDNAHit(G4double x, G4double y, G4double z, G4double edepStep)
0101 {
0102   int numStrand = 0;
0103   int numNucl = 0;
0104   int intResidue = -1;  // 0 for Phospat, 1 for Sugar, 2 for Base
0105   unsigned short int hit =
0106     (fpDetector->GetPDBlib())
0107       .ComputeMatchEdepDNA(fpDetector->GetBarycenterList(), fpDetector->GetMoleculeList(), x * 10.,
0108                            y * 10., z * 10.,  // x10 => angstrom<->nm
0109                            numStrand, numNucl, intResidue);
0110
0111   if (hit == 1) {
0112     if ((intResidue == 0) || (intResidue == 1))  // Edep in Phosphate or Sugar
0113     {
0114       fpEventAction->AddEdepToNucleotide(numStrand, numNucl, edepStep);
0115       return true;
0116     }
0117     else {
0118       return false;
0119     }
0120   }
0121   else {
0122     return false;
0123   }
0124 }