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

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Diff markup

Differences between /examples/advanced/dna/dsbandrepair/analysis/dnadamage/src/DamageClassifier.cc (Version 11.3.0) and /examples/advanced/dna/dsbandrepair/analysis/dnadamage/src/DamageClassifier.cc (Version 8.2)


  1 //                                                  1 
  2 // *******************************************    
  3 // * License and Disclaimer                       
  4 // *                                              
  5 // * The  Geant4 software  is  copyright of th    
  6 // * the Geant4 Collaboration.  It is provided    
  7 // * conditions of the Geant4 Software License    
  8 // * LICENSE and available at  http://cern.ch/    
  9 // * include a list of copyright holders.         
 10 // *                                              
 11 // * Neither the authors of this software syst    
 12 // * institutes,nor the agencies providing fin    
 13 // * work  make  any representation or  warran    
 14 // * regarding  this  software system or assum    
 15 // * use.  Please see the license in the file     
 16 // * for the full disclaimer and the limitatio    
 17 // *                                              
 18 // * This  code  implementation is the result     
 19 // * technical work of the GEANT4 collaboratio    
 20 // * By using,  copying,  modifying or  distri    
 21 // * any work based  on the software)  you  ag    
 22 // * use  in  resulting  scientific  publicati    
 23 // * acceptance of all terms of the Geant4 Sof    
 24 // *******************************************    
 25 //                                                
 26 //                                                
 27 /// \file DamageClassifier.cc                     
 28 /// \brief Implementation of the DamageClassif    
 29                                                   
 30 #include "DamageClassifier.hh"                    
 31                                                   
 32 #include <iostream>                               
 33 #include <algorithm>                              
 34                                                   
 35 //....oooOO0OOooo........oooOO0OOooo........oo    
 36                                                   
 37 std::vector<ClassifiedDamage> DamageClassifier    
 38   std::vector<Damage>& pListDamage,unsigned in    
 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.e    
 45     [](const Damage& a, const Damage& b) {        
 46       return a.GetCopyNb() < b.GetCopyNb();       
 47     });                                           
 48                                                   
 49   std::vector<ClassifiedDamage> listClassified    
 50   ClassifiedDamage classDamage;                   
 51                                                   
 52   for(auto it=pListDamage.begin();it!=pListDam    
 53   {                                               
 54     classDamage.SetIncludeBase(pBase);            
 55     Damage tempDamage = (*it);                    
 56                                                   
 57     if(tempDamage.GetDamageType()==Damage::Dam    
 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(class    
 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    
 94                                                   
 95   return listClassifiedDamage;                    
 96 }                                                 
 97                                                   
 98 //....oooOO0OOooo........oooOO0OOooo........oo    
 99                                                   
100 unsigned int DamageClassifier::GetNumSSB(         
101   const std::vector<ClassifiedDamage>& pListCl    
102 {                                                 
103   unsigned int numSSB = 0;                        
104   for(auto it=pListClassifiedDamage.begin();it    
105   {                                               
106     if(it->GetClassifiedDamageType()==Classifi    
107     {                                             
108       numSSB++;                                   
109     }                                             
110   }                                               
111   return numSSB;                                  
112 }                                                 
113                                                   
114 //....oooOO0OOooo........oooOO0OOooo........oo    
115                                                   
116 unsigned int DamageClassifier::GetNumDSB(         
117   const std::vector<ClassifiedDamage>& pListCl    
118 {                                                 
119   unsigned int numDSB = 0;                        
120   for(auto it=pListClassifiedDamage.begin();it    
121   {                                               
122     if(it->GetClassifiedDamageType()==Classifi    
123     {                                             
124       numDSB++;                                   
125     }                                             
126   }                                               
127   return numDSB;                                  
128 }                                                 
129                                                   
130 //....oooOO0OOooo........oooOO0OOooo........oo    
131                                                   
132 unsigned int DamageClassifier::GetNumComplexDS    
133   const std::vector<ClassifiedDamage>& pListCl    
134 {                                                 
135   unsigned int numComplexDSB = 0;                 
136                                                   
137   for(auto it=pListClassifiedDamage.begin();it    
138   {                                               
139     if(((it->GetClassifiedDamageType()==Classi    
140     {                                             
141       numComplexDSB++;                            
142     }                                             
143   }                                               
144   return numComplexDSB;                           
145 }                                                 
146                                                   
147                                                   
148 //....oooOO0OOooo........oooOO0OOooo........oo    
149                                                   
150 std::map<unsigned int,std::map<unsigned int,st    
151   const std::vector<Damage>& pListDamage)         
152 {                                                 
153   std::map<unsigned int,std::map<unsigned int,    
154   for(auto it=pListDamage.begin();it!=pListDam    
155   {                                               
156     mapDamage[it->GetEvt()][it->GetChromo()].p    
157   }                                               
158   return mapDamage;                               
159 }                                                 
160                                                   
161 //....oooOO0OOooo........oooOO0OOooo........oo    
162                                                   
163 std::map<unsigned int,std::map<unsigned int,st    
164   const std::vector<Damage>& pListDamage)         
165 {                                                 
166   std::map<unsigned int,std::map<unsigned int,    
167   for(auto it=pListDamage.begin();it!=pListDam    
168   {                                               
169     mapDamage[it->GetChromo()][it->GetEvt()].p    
170   }                                               
171   return mapDamage;                               
172 }                                                 
173                                                   
174 //....oooOO0OOooo........oooOO0OOooo........oo    
175                                                   
176 unsigned int DamageClassifier::GetNumDSBwithDi    
177   const std::vector<ClassifiedDamage>& pListCl    
178 {                                                 
179   unsigned int numDSBwDir = 0;                    
180   for(auto it=pListClassifiedDamage.begin();it    
181   {                                               
182     if(it->GetClassifiedDamageType()==Classifi    
183       it->GetIsThereDirectComponentContributio    
184     {                                             
185       numDSBwDir++;                               
186     }                                             
187   }                                               
188   return numDSBwDir;                              
189 }                                                 
190                                                   
191 //....oooOO0OOooo........oooOO0OOooo........oo    
192                                                   
193 unsigned int DamageClassifier::GetNumDSBwithIn    
194   const std::vector<ClassifiedDamage>& pListCl    
195 {                                                 
196   unsigned int numDSBwIn = 0;                     
197   for(auto it=pListClassifiedDamage.begin();it    
198   {                                               
199     if(it->GetClassifiedDamageType()==Classifi    
200       it->GetIsThereIndirectComponentContribut    
201     {                                             
202       numDSBwIn++;                                
203     }                                             
204   }                                               
205   return numDSBwIn;                               
206 }                                                 
207                                                   
208 //....oooOO0OOooo........oooOO0OOooo........oo    
209                                                   
210 unsigned int DamageClassifier::GetNumDSBwithBo    
211   const std::vector<ClassifiedDamage>& pListCl    
212 {                                                 
213   unsigned int numDSBwDirIn = 0;                  
214   for(auto it=pListClassifiedDamage.begin();it    
215   {                                               
216     if(it->GetClassifiedDamageType()==Classifi    
217       it->GetIsThereDirectComponentContributio    
218       it->GetIsThereIndirectComponentContribut    
219     {                                             
220       numDSBwDirIn++;                             
221     }                                             
222   }                                               
223   return numDSBwDirIn;                            
224 }                                                 
225                                                   
226 //....oooOO0OOooo........oooOO0OOooo........oo