Geant4 Cross Reference

Cross-Referencing   Geant4
Geant4/examples/advanced/dna/dsbandrepair/analysis/dnadamage/src/DamageClassifier.cc

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  2 // ********************************************************************
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 26 //
 27 /// \file DamageClassifier.cc
 28 /// \brief Implementation of the DamageClassifier class
 29 
 30 #include "DamageClassifier.hh"
 31 
 32 #include <iostream>
 33 #include <algorithm>
 34 
 35 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
 36 
 37 std::vector<ClassifiedDamage> DamageClassifier::MakeCluster(
 38   std::vector<Damage>& pListDamage,unsigned int pDSBLength, bool pBase)
 39 {
 40   unsigned long int copyNb;
 41   unsigned long int lastCopyNb = -pDSBLength-1;
 42 
 43   // sort the list of damage by ascending bp
 44   std::sort(pListDamage.begin(), pListDamage.end(),
 45     [](const Damage& a, const Damage& b) {
 46       return a.GetCopyNb() < b.GetCopyNb();
 47     });
 48 
 49   std::vector<ClassifiedDamage> listClassifiedDamage;
 50   ClassifiedDamage classDamage;
 51 
 52   for(auto it=pListDamage.begin();it!=pListDamage.end();it++)
 53   {
 54     classDamage.SetIncludeBase(pBase);
 55     Damage tempDamage = (*it);
 56 
 57     if(tempDamage.GetDamageType()==Damage::DamageType::fBackbone)
 58     {
 59 
 60       copyNb=tempDamage.GetCopyNb();
 61 
 62       if(classDamage.GetNumDamage()<=0)
 63       {
 64         classDamage.AddDamage(tempDamage);
 65         lastCopyNb = copyNb;
 66       }
 67       else
 68       {
 69         // New Damage
 70         if(copyNb>lastCopyNb+pDSBLength)
 71         {
 72           classDamage.ComputeBp();
 73           classDamage.ComputeType();
 74           classDamage.ComputeComplexity();
 75           listClassifiedDamage.push_back(classDamage);
 76           classDamage.Reset();
 77         }
 78 
 79         classDamage.AddDamage(tempDamage);
 80         lastCopyNb = copyNb;
 81       }
 82     }
 83   }
 84 
 85   if(classDamage.GetNumDamage()>0)
 86   {
 87     classDamage.ComputeBp();
 88     classDamage.ComputeType();
 89     classDamage.ComputeComplexity();
 90     listClassifiedDamage.push_back(classDamage);
 91   }
 92 
 93   // TODO: include base damage if include base (pBase) is true
 94 
 95   return listClassifiedDamage;
 96 }
 97 
 98 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
 99 
100 unsigned int DamageClassifier::GetNumSSB(
101   const std::vector<ClassifiedDamage>& pListClassifiedDamage) const
102 {
103   unsigned int numSSB = 0;
104   for(auto it=pListClassifiedDamage.begin();it!=pListClassifiedDamage.end();it++)
105   {
106     if(it->GetClassifiedDamageType()==ClassifiedDamage::ClassifiedDamageType::fSSB)
107     {
108       numSSB++;
109     }
110   }
111   return numSSB;
112 }
113 
114 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
115 
116 unsigned int DamageClassifier::GetNumDSB(
117   const std::vector<ClassifiedDamage>& pListClassifiedDamage) const
118 {
119   unsigned int numDSB = 0;
120   for(auto it=pListClassifiedDamage.begin();it!=pListClassifiedDamage.end();it++)
121   {
122     if(it->GetClassifiedDamageType()==ClassifiedDamage::ClassifiedDamageType::fDSB)
123     {
124       numDSB++;
125     }
126   }
127   return numDSB;
128 }
129 
130 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
131 
132 unsigned int DamageClassifier::GetNumComplexDSB(
133   const std::vector<ClassifiedDamage>& pListClassifiedDamage) const
134 {
135   unsigned int numComplexDSB = 0;
136 
137   for(auto it=pListClassifiedDamage.begin();it!=pListClassifiedDamage.end();it++)
138   {
139     if(((it->GetClassifiedDamageType()==ClassifiedDamage::ClassifiedDamageType::fDSB))&&(it->GetComplexity()>1))
140     {
141       numComplexDSB++;
142     }
143   }
144   return numComplexDSB;
145 }
146 
147 
148 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
149 
150 std::map<unsigned int,std::map<unsigned int,std::vector<Damage> > > DamageClassifier::SortDamageByEvent(
151   const std::vector<Damage>& pListDamage)
152 {
153   std::map<unsigned int,std::map<unsigned int,std::vector<Damage> > > mapDamage;
154   for(auto it=pListDamage.begin();it!=pListDamage.end();it++)
155   {
156     mapDamage[it->GetEvt()][it->GetChromo()].push_back((*it));
157   }
158   return mapDamage;
159 }
160 
161 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
162 
163 std::map<unsigned int,std::map<unsigned int,std::vector<Damage> > > DamageClassifier::SortDamageByChromo(
164   const std::vector<Damage>& pListDamage)
165 {
166   std::map<unsigned int,std::map<unsigned int,std::vector<Damage> > > mapDamage;
167   for(auto it=pListDamage.begin();it!=pListDamage.end();it++)
168   {
169     mapDamage[it->GetChromo()][it->GetEvt()].push_back((*it));
170   }
171   return mapDamage;
172 }
173 
174 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
175 
176 unsigned int DamageClassifier::GetNumDSBwithDirectDamage(
177   const std::vector<ClassifiedDamage>& pListClassifiedDamage) const
178 {
179   unsigned int numDSBwDir = 0;
180   for(auto it=pListClassifiedDamage.begin();it!=pListClassifiedDamage.end();it++)
181   {
182     if(it->GetClassifiedDamageType()==ClassifiedDamage::ClassifiedDamageType::fDSB && 
183       it->GetIsThereDirectComponentContribution())
184     {
185       numDSBwDir++;
186     }
187   }
188   return numDSBwDir;
189 }
190 
191 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
192 
193 unsigned int DamageClassifier::GetNumDSBwithIndirectDamage(
194   const std::vector<ClassifiedDamage>& pListClassifiedDamage) const
195 {
196   unsigned int numDSBwIn = 0;
197   for(auto it=pListClassifiedDamage.begin();it!=pListClassifiedDamage.end();it++)
198   {
199     if(it->GetClassifiedDamageType()==ClassifiedDamage::ClassifiedDamageType::fDSB && 
200       it->GetIsThereIndirectComponentContribution())
201     {
202       numDSBwIn++;
203     }
204   }
205   return numDSBwIn;
206 }
207 
208 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......
209 
210 unsigned int DamageClassifier::GetNumDSBwithBothDirectIndirectDamage(
211   const std::vector<ClassifiedDamage>& pListClassifiedDamage) const
212 {
213   unsigned int numDSBwDirIn = 0;
214   for(auto it=pListClassifiedDamage.begin();it!=pListClassifiedDamage.end();it++)
215   {
216     if(it->GetClassifiedDamageType()==ClassifiedDamage::ClassifiedDamageType::fDSB && 
217       it->GetIsThereDirectComponentContribution() && 
218       it->GetIsThereIndirectComponentContribution())
219     {
220       numDSBwDirIn++;
221     }
222   }
223   return numDSBwDirIn;
224 }
225 
226 //....oooOO0OOooo........oooOO0OOooo........oooOO0OOooo........oooOO0OOooo......