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25 //
26 // --------------------------------------------------------------------------------
27 // MONTE CARLO SIMULATION OF REALISTIC GEOMETRY FROM MICROSCOPES IMAGES
28 //
29 // Authors and contributors:
30 // P. Barberet, S. Incerti, N. H. Tran, L. Morelli
31 //
32 // University of Bordeaux, CNRS, LP2i, UMR5797, Gradignan, France
33 //
34 // If you use this code, please cite the following publication:
35 // P. Barberet et al.,
36 // "Monte-Carlo dosimetry on a realistic cell monolayer
37 // geometry exposed to alpha particles."
38 // Ph. Barberet et al 2012 Phys. Med. Biol. 57 2189
39 // doi: 110.1088/0031-9155/57/8/2189
40 // --------------------------------------------------------------------------------
41
42 #include "RunAction.hh"
43
44 #include "G4UnitsTable.hh"
45
46 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo....
47
48 RunAction::RunAction()
49 :G4UserRunAction()
50 {
51 auto man = G4AnalysisManager::Instance();
52 man->SetDefaultFileType("root");
53 man->SetNtupleMerging(true);
54 man->SetFirstNtupleId(1);
55
56 // Create 1st ntuple (id = 1)
57 man->CreateNtuple("ntuple1", "RED");
58 man->CreateNtupleDColumn("x");
59 man->CreateNtupleDColumn("y");
60 man->CreateNtupleDColumn("z");
61 man->CreateNtupleDColumn("energy");
62 man->CreateNtupleDColumn("dose");
63 man->CreateNtupleIColumn("voxelID");
64 man->FinishNtuple();
65
66 // Create 2nd ntuple (id = 2)
67 man->CreateNtuple("ntuple2", "GREEN");
68 man->CreateNtupleDColumn("x");
69 man->CreateNtupleDColumn("y");
70 man->CreateNtupleDColumn("z");
71 man->CreateNtupleDColumn("energy");
72 man->CreateNtupleDColumn("dose");
73 man->CreateNtupleIColumn("voxelID");
74 man->FinishNtuple();
75
76 // Create 3rd ntuple (id = 3)
77 man->CreateNtuple("ntuple3", "BLUE");
78 man->CreateNtupleDColumn("x");
79 man->CreateNtupleDColumn("y");
80 man->CreateNtupleDColumn("z");
81 man->CreateNtupleDColumn("energy");
82 man->CreateNtupleDColumn("dose");
83 man->CreateNtupleIColumn("voxelID");
84 man->FinishNtuple();
85 }
86
87 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo....
88
89 RunAction::~RunAction()
90 {
91 delete[] fVoxelEnergy;
92 }
93
94 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo....
95
96 void RunAction::BeginOfRunAction(const G4Run *)
97 {
98 // Analysis manager
99 auto man = G4AnalysisManager::Instance();
100 man->OpenFile("phantom");
101
102 // Access phantom singleton
103 fMyPhantomParam = CellParameterisation::Instance();
104
105 fNbVoxels = fMyPhantomParam->GetPhantomTotalPixels();
106
107 // Allocates the array receiving the energy per voxel
108 fVoxelEnergy = new G4double[fNbVoxels];
109
110 // Initialisation of the energy array
111 for (G4int i = 0; i < fNbVoxels; i++) fVoxelEnergy[i] = 0;
112 }
113
114 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo....
115
116 void RunAction::EndOfRunAction(const G4Run * /*aRun*/)
117 {
118 auto man = G4AnalysisManager::Instance();
119
120 G4double X, Y, Z;
121
122 // Total mass of voxel
123 G4double redMassTot=0.;
124 G4double greenMassTot=0.;
125 G4double blueMassTot=0.;
126
127 redMassTot = fMyPhantomParam->GetRedMass();
128 greenMassTot = fMyPhantomParam->GetGreenMass();
129 blueMassTot = fMyPhantomParam->GetBlueMass();
130
131 // (Optional) Numbers of voxel
132 //G4double redVox=0;
133 //G4double greenVox=0;
134 //G4double blueVox=0;
135 //redVox = fMyPhantomParam->GetRedTotalPixels();
136 //greenVox = fMyPhantomParam->GetGreenTotalPixels();
137 //blueVox = fMyPhantomParam->GetBlueTotalPixels();
138
139 // (Optional) Single voxel mass
140 //G4double redMass=0.;
141 //G4double greenMass=0.;
142 //G4double blueMass=0.;
143 //redMass = redMassTot/redVox;
144 //greenMass = greenMassTot/greenVox;
145 //blueMass = blueMassTot/blueVox;
146
147 // Save x, y, z and energy for every voxel having absorbed an energy above 0.
148 // Energy is in keV
149 // Dose is in Gy
150
151 for (G4int i = 0; i < fMyPhantomParam->GetPhantomTotalPixels(); i++)
152 {
153 if (fVoxelEnergy[i] > 0.)
154 {
155 X = (fMyPhantomParam->GetVoxelThreeVectorOriginal(i).x()) / um;
156 Y = (fMyPhantomParam->GetVoxelThreeVectorOriginal(i).y()) / um;
157 Z = (fMyPhantomParam->GetVoxelThreeVectorOriginal(i).z()) / um;
158
159 if (fMyPhantomParam->GetMaterial(i) == 1)
160 {
161 man->FillNtupleDColumn(1,0,X);
162 man->FillNtupleDColumn(1,1,Y);
163 man->FillNtupleDColumn(1,2,Z);
164 man->FillNtupleDColumn(1,3,fVoxelEnergy[i]/keV);
165 man->FillNtupleDColumn(1,4,((fVoxelEnergy[i]/joule)/(redMassTot/kg)));
166 man->FillNtupleIColumn(1,5,i);
167 man->AddNtupleRow(1);
168 }
169
170 else if (fMyPhantomParam->GetMaterial(i) == 2)
171 {
172 man->FillNtupleDColumn(2,0,X);
173 man->FillNtupleDColumn(2,1,Y);
174 man->FillNtupleDColumn(2,2,Z);
175 man->FillNtupleDColumn(2,3,fVoxelEnergy[i]/keV);
176 man->FillNtupleDColumn(2,4,((fVoxelEnergy[i]/joule)/(greenMassTot/kg)));
177 man->FillNtupleIColumn(2,5,i);
178 man->AddNtupleRow(2);
179 }
180
181 else if (fMyPhantomParam->GetMaterial(i) == 3)
182 {
183 man->FillNtupleDColumn(3,0,X);
184 man->FillNtupleDColumn(3,1,Y);
185 man->FillNtupleDColumn(3,2,Z);
186 man->FillNtupleDColumn(3,3,fVoxelEnergy[i]/keV);
187 man->FillNtupleDColumn(3,4,((fVoxelEnergy[i]/joule)/(blueMassTot/kg)));
188 man->FillNtupleIColumn(3,5,i);
189 man->AddNtupleRow(3);
190 }
191 }
192 }
193
194 // Save histograms
195 man->Write();
196 man->CloseFile();
197
198 // Complete clean-up
199 man->Clear();
200 }
201