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Geant4/processes/electromagnetic/dna/molecules/management/src/G4Molecule.cc

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Differences between /processes/electromagnetic/dna/molecules/management/src/G4Molecule.cc (Version 11.3.0) and /processes/electromagnetic/dna/molecules/management/src/G4Molecule.cc (Version 10.0)


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 24 //                                                 24 //
                                                   >>  25 // $Id: G4Molecule.cc 74551 2013-10-14 12:59:14Z gcosmo $
 25 //                                                 26 //
 26 // -------------------------------------------     27 // ---------------------------------------------------------------------
 27 //  GEANT 4 class header file                      28 //  GEANT 4 class header file
 28 //                                                 29 //
 29 //  History: first implementation, based on G4     30 //  History: first implementation, based on G4DynamicParticle
 30 //           New dependency : G4VUserTrackInfo     31 //           New dependency : G4VUserTrackInformation
 31 //                                                 32 //
 32 //      ---------------- G4Molecule  ---------     33 //      ---------------- G4Molecule  ----------------
 33 //      first design&implementation by Alfonso     34 //      first design&implementation by Alfonso Mantero, 7 Apr 2009
 34 //      New developments Alfonso Mantero & Mat     35 //      New developments Alfonso Mantero & Mathieu Karamitros
 35 //      Oct/Nov 2009 Class Name changed to G4M     36 //      Oct/Nov 2009 Class Name changed to G4Molecule
 36 //                   Removed dependency from G     37 //                   Removed dependency from G4DynamicParticle
 37 //                   New constructors :            38 //                   New constructors :
 38 //                    copy constructor             39 //                    copy constructor
 39 //                    direct ionized/excited m     40 //                    direct ionized/excited molecule
 40 //                   New methods :                 41 //                   New methods :
 41 //                    Get : name,atoms' number     42 //                    Get : name,atoms' number,nb electrons,decayChannel
 42 //                    PrintState //To get the      43 //                    PrintState //To get the electronic level and the
 43 //                                 correspondi     44 //                                 corresponding name of the excitation
 44 //                    Kinematic :                  45 //                    Kinematic :
 45 //                    BuildTrack,GetKineticEne     46 //                    BuildTrack,GetKineticEnergy,GetDiffusionVelocity
 46 //                    Change the way dynCharge     47 //                    Change the way dynCharge and eNb is calculated
 47 // -------------------------------------------     48 // ---------------------------------------------------------------------
 48                                                    49 
 49 #include "G4Molecule.hh"                           50 #include "G4Molecule.hh"
 50 #include "G4MolecularConfiguration.hh"             51 #include "G4MolecularConfiguration.hh"
 51 #include "Randomize.hh"                            52 #include "Randomize.hh"
 52 #include "G4PhysicalConstants.hh"                  53 #include "G4PhysicalConstants.hh"
 53 #include "G4SystemOfUnits.hh"                      54 #include "G4SystemOfUnits.hh"
 54 #include "G4Track.hh"                              55 #include "G4Track.hh"
 55 #include "G4VMoleculeCounter.hh"               <<  56 #include "G4MoleculeCounter.hh"
 56                                                    57 
 57 using namespace std;                               58 using namespace std;
 58                                                    59 
 59 G4Allocator<G4Molecule>*& aMoleculeAllocator() <<  60 /*G4ThreadLocal*/ G4double G4Molecule::fgTemperature = 310;  // 310*kelvin;
 60 {                                              <<  61 // 37°C, used to shoot an energy
 61     G4ThreadLocalStatic G4Allocator<G4Molecule << 
 62     return _instance;                          << 
 63 }                                              << 
 64                                                << 
 65 //____________________________________________ << 
 66                                                    62 
 67 template<>                                     <<  63 ITImp(G4Molecule)
 68 G4KDNode<G4Molecule>::~G4KDNode() {            << 
 69     fPoint->SetNode(nullptr);                  << 
 70 }                                              << 
 71                                                    64 
 72 //____________________________________________ <<  65 G4ThreadLocal G4Allocator<G4Molecule> *aMoleculeAllocator = 0;
 73                                                    66 
 74 G4Molecule* GetMolecule(const G4Track& track)      67 G4Molecule* GetMolecule(const G4Track& track)
 75 {                                                  68 {
 76     return (G4Molecule*)(GetIT(track));            69     return (G4Molecule*)(GetIT(track));
 77 }                                                  70 }
 78                                                    71 
 79 //____________________________________________ << 
 80                                                << 
 81 G4Molecule* GetMolecule(const G4Track* track)      72 G4Molecule* GetMolecule(const G4Track* track)
 82 {                                                  73 {
 83     return (G4Molecule*)(GetIT(track));            74     return (G4Molecule*)(GetIT(track));
 84 }                                                  75 }
 85                                                    76 
 86 //____________________________________________ << 
 87                                                << 
 88 G4Molecule* G4Molecule::GetMolecule(const G4Tr << 
 89 {                                              << 
 90     return (G4Molecule*)(GetIT(track));        << 
 91 }                                              << 
 92                                                << 
 93 //____________________________________________ << 
 94                                                << 
 95 void G4Molecule::Print() const                     77 void G4Molecule::Print() const
 96 {                                                  78 {
 97     G4cout << "The user track information is a <<  79     G4cout<<"The user track information is a molecule"<<G4endl;
 98 }                                                  80 }
 99                                                    81 
100 //____________________________________________ <<  82 G4Molecule::G4Molecule(const G4Molecule& right) :
101                                                <<  83     G4VUserTrackInformation("G4Molecule"), G4IT(right)
102 G4Molecule::G4Molecule(const G4Molecule& right << 
103     : G4VUserTrackInformation("G4Molecule")    << 
104     , G4IT(right)                              << 
105 {                                                  84 {
106     fpMolecularConfiguration = right.fpMolecul <<  85     fpMolecularConfiguration = right . fpMolecularConfiguration;
107 }                                                  86 }
108                                                    87 
109 //____________________________________________ << 
110                                                << 
111 G4Molecule& G4Molecule::operator=(const G4Mole     88 G4Molecule& G4Molecule::operator=(const G4Molecule& right)
112 {                                                  89 {
113     if (&right == this) return *this;          <<  90     if (&right==this) return *this;
114     fpMolecularConfiguration = right.fpMolecul <<  91     fpMolecularConfiguration = right . fpMolecularConfiguration;
115     return *this;                                  92     return *this;
116 }                                                  93 }
117                                                    94 
118 //____________________________________________ << 
119                                                << 
120 G4bool G4Molecule::operator==(const G4Molecule     95 G4bool G4Molecule::operator==(const G4Molecule& right) const
121 {                                                  96 {
122     return fpMolecularConfiguration == right.f <<  97     if(fpMolecularConfiguration==right.fpMolecularConfiguration)
                                                   >>  98     {
                                                   >>  99         return true;
                                                   >> 100     }
                                                   >> 101     return false;
123 }                                                 102 }
124                                                   103 
125 //____________________________________________ << 
126                                                << 
127 G4bool G4Molecule::operator!=(const G4Molecule    104 G4bool G4Molecule::operator!=(const G4Molecule& right) const
128 {                                                 105 {
129     return !(*this == right);                     106     return !(*this == right);
130 }                                                 107 }
131                                                   108 
132 //____________________________________________ << 109 ////////////////////////////////////////////////////////////////////////
133 /** The two methods below are the most called  << 110 /// The two methods below are the most called of the simulation :
134  *  compare molecules in the MoleculeStackMana << 111 /// compare molecules in the MoleculeStackManager or in
135  *  the InteractionTable                       << 112 /// the InteractionTable
136  */                                            << 
137                                                   113 
138 G4bool G4Molecule::operator<(const G4Molecule&    114 G4bool G4Molecule::operator<(const G4Molecule& right) const
139 {                                                 115 {
140     return fpMolecularConfiguration < right.fp << 116     return fpMolecularConfiguration < right.fpMolecularConfiguration ;
141 }                                                 117 }
142                                                   118 
143 //____________________________________________ << 119 ////////////////////////////////////////////////////////////////////////
144                                                << 120 /** Default molecule builder
145 G4Molecule::G4Molecule()                       << 121  */
146     : G4VUserTrackInformation("G4Molecule")    << 122 //////////////////////////
                                                   >> 123 G4Molecule::G4Molecule() : G4VUserTrackInformation("G4Molecule"), G4IT()
                                                   >> 124   //////////////////////////
147 {                                                 125 {
148     fpMolecularConfiguration = nullptr;        << 126     fpMolecularConfiguration = 0 ;
149 }                                                 127 }
150                                                   128 
151 //____________________________________________ << 129 //////////////////////////
152                                                << 
153 G4Molecule::~G4Molecule()                         130 G4Molecule::~G4Molecule()
                                                   >> 131 //////////////////////////
154 {                                                 132 {
155     if (fpTrack != nullptr)                    << 133     if(fpTrack!=NULL)
156     {                                             134     {
157         if (G4VMoleculeCounter::Instance()->In << 135         if(G4MoleculeCounter::GetMoleculeCounter()->InUse())
158         {                                         136         {
159             G4VMoleculeCounter::Instance()->   << 137             G4MoleculeCounter::GetMoleculeCounter()->RemoveAMoleculeAtTime(*this,
160                 RemoveAMoleculeAtTime(fpMolecu << 138                                                                            fpTrack->GetGlobalTime());
161                                       fpTrack- << 
162                                       &(fpTrac << 
163         }                                         139         }
164         fpTrack = nullptr;                     << 140         fpTrack = 0;
165     }                                             141     }
166     fpMolecularConfiguration = nullptr;        << 142     fpMolecularConfiguration = 0;
167 }                                                 143 }
168                                                   144 
169 //____________________________________________ << 
170 /** Build a molecule at ground state according    145 /** Build a molecule at ground state according to a given
171  *  G4MoleculeDefinition that can be obtained     146  *  G4MoleculeDefinition that can be obtained from G4GenericMoleculeManager
172  */                                               147  */
173 G4Molecule::G4Molecule(G4MoleculeDefinition* p << 148 //////////////////////////
174     : G4VUserTrackInformation("G4Molecule")    << 149 G4Molecule::G4Molecule(G4MoleculeDefinition * moleculeDefinition) :
                                                   >> 150     G4VUserTrackInformation("G4Molecule"), G4IT()
                                                   >> 151   //////////////////////////
175 {                                                 152 {
176     fpMolecularConfiguration = G4MolecularConf << 153     fpMolecularConfiguration = G4MolecularConfiguration::GetMolecularConfiguration(moleculeDefinition);
177 }                                                 154 }
178                                                   155 
179 //____________________________________________ << 
180                                                << 
181 G4Molecule::G4Molecule(G4MoleculeDefinition* p << 
182 {                                              << 
183     fpMolecularConfiguration = G4MolecularConf << 
184                                                << 
185 }                                              << 
186                                                << 
187 //____________________________________________ << 
188 /** Build a molecule at a specific excitation/    156 /** Build a molecule at a specific excitation/ionisation state according
189  *  to a ground state that can be obtained fro    157  *  to a ground state that can be obtained from G4GenericMoleculeManager.
190  *  Put 0 in the second option if this is a io    158  *  Put 0 in the second option if this is a ionisation.
191  */                                               159  */
192 G4Molecule::G4Molecule(G4MoleculeDefinition* p << 160 //////////////////////////
193                        G4int OrbitalToFree,    << 161 G4Molecule::G4Molecule(G4MoleculeDefinition * moleculeDefinition, G4int OrbitalToFree, G4int OrbitalToFill):
194                        G4int OrbitalToFill)    << 162     G4VUserTrackInformation("G4Molecule"), G4IT()
195    : G4VUserTrackInformation("G4Molecule")     << 163   //////////////////////////
196 {                                                 164 {
197     if (pMoleculeDefinition->GetGroundStateEle << 165     G4ElectronOccupancy dynElectronOccupancy (*moleculeDefinition->GetGroundStateElectronOccupancy());
198     {                                          << 
199         G4ElectronOccupancy dynElectronOccupan << 
200                                                << 
201         if (OrbitalToFill != 0)                << 
202         {                                      << 
203             dynElectronOccupancy.RemoveElectro << 
204             dynElectronOccupancy.AddElectron(O << 
205             // dynElectronOccupancy.DumpInfo() << 
206         }                                      << 
207                                                << 
208         if (OrbitalToFill == 0)                << 
209         {                                      << 
210             dynElectronOccupancy.RemoveElectro << 
211             // dynElectronOccupancy.DumpInfo() << 
212         }                                      << 
213                                                   166 
214         fpMolecularConfiguration =             << 167     if (OrbitalToFill != 0)
215             G4MolecularConfiguration::GetOrCre << 168     {
216                 pMoleculeDefinition, dynElectr << 169         dynElectronOccupancy.RemoveElectron(OrbitalToFree-1,1);
                                                   >> 170         dynElectronOccupancy.AddElectron(OrbitalToFill-1,1);
                                                   >> 171         // dynElectronOccupancy.DumpInfo(); // DEBUG
217     }                                             172     }
218     else                                       << 173 
                                                   >> 174     if (OrbitalToFill == 0)
219     {                                             175     {
220         fpMolecularConfiguration = nullptr;    << 176         dynElectronOccupancy.RemoveElectron(OrbitalToFree-1,1);
221         G4Exception(                           << 177         // dynElectronOccupancy.DumpInfo(); // DEBUG
222             "G4Molecule::G4Molecule(G4Molecule << 
223             "G4int OrbitalToFree, G4int Orbita << 
224             "G4Molecule_wrong_usage_of_constru << 
225             FatalErrorInArgument,              << 
226             "If you want to use this construct << 
227             "first defined with electron occup << 
228     }                                             178     }
                                                   >> 179 
                                                   >> 180     fpMolecularConfiguration = G4MolecularConfiguration::GetMolecularConfiguration(moleculeDefinition, dynElectronOccupancy);
229 }                                                 181 }
230                                                   182 
231 //____________________________________________ << 
232 /** Specific builder for water molecules to be    183 /** Specific builder for water molecules to be used in Geant4-DNA,
233  * the last option Excitation is true if the m    184  * the last option Excitation is true if the molecule is excited, is
234  * false is the molecule is ionized.              185  * false is the molecule is ionized.
235  */                                               186  */
236 G4Molecule::G4Molecule(G4MoleculeDefinition* p << 
237                        G4int level,            << 
238                        G4bool excitation)      << 
239     : G4VUserTrackInformation("G4Molecule")    << 
240 {                                              << 
241     if (pMoleculeDefinition->GetGroundStateEle << 
242     {                                          << 
243         G4ElectronOccupancy dynElectronOccupan << 
244                                                   187 
245         if (excitation)                        << 188 G4Molecule::G4Molecule(G4MoleculeDefinition * moleculeDefinition, G4int Level, G4bool Excitation):
246         {                                      << 189     G4VUserTrackInformation("G4Molecule"), G4IT()
247             dynElectronOccupancy.RemoveElectro << 190 {
248             dynElectronOccupancy.AddElectron(5 << 191     G4ElectronOccupancy dynElectronOccupancy (*moleculeDefinition->GetGroundStateElectronOccupancy());
249             // dynElectronOccupancy.DumpInfo() << 
250         }                                      << 
251         else                                   << 
252         {                                      << 
253             dynElectronOccupancy.RemoveElectro << 
254             // dynElectronOccupancy.DumpInfo() << 
255         }                                      << 
256                                                   192 
257         fpMolecularConfiguration = G4Molecular << 193     if (Excitation == true)
258                 dynElectronOccupancy);         << 
259     }                                          << 
260     else                                       << 
261     {                                             194     {
262         fpMolecularConfiguration = nullptr;    << 195         dynElectronOccupancy.RemoveElectron(Level,1);
263         G4Exception(                           << 196         dynElectronOccupancy.AddElectron(5,1);
264             "G4Molecule::G4Molecule(G4Molecule << 197         // dynElectronOccupancy.DumpInfo(); // DEBUG
265             "G4int OrbitalToFree, G4int Orbita << 
266             "G4Molecule_wrong_usage_of_constru << 
267             FatalErrorInArgument,              << 
268             "If you want to use this construct << 
269             "first defined with electron occup << 
270     }                                             198     }
271 }                                              << 
272                                                   199 
273 //____________________________________________ << 200     if (Excitation == false)
                                                   >> 201     {
                                                   >> 202         dynElectronOccupancy.RemoveElectron(Level,1);
                                                   >> 203         // dynElectronOccupancy.DumpInfo(); // DEBUG
                                                   >> 204     }
274                                                   205 
275 G4Molecule::G4Molecule(const G4MolecularConfig << 206     fpMolecularConfiguration = G4MolecularConfiguration::GetMolecularConfiguration(moleculeDefinition, dynElectronOccupancy);
276 {                                              << 
277     fpMolecularConfiguration = pMolecularConfi << 
278 }                                                 207 }
279                                                   208 
280 //____________________________________________ << 209 void G4Molecule::SetElectronOccupancy(const G4ElectronOccupancy* occ)
281                                                << 
282 void G4Molecule::SetElectronOccupancy(const G4 << 
283 {                                                 210 {
284     fpMolecularConfiguration =                 << 211     fpMolecularConfiguration = G4MolecularConfiguration::GetMolecularConfiguration(fpMolecularConfiguration->GetDefinition(), *occ);
285         G4MolecularConfiguration::GetOrCreateM << 
286                                                << 
287 }                                                 212 }
288                                                   213 
289 //____________________________________________ << 214 /** Method used in Geant4-DNA to excite water molecules
290                                                << 215  */
291 void G4Molecule::ExciteMolecule(G4int excitati << 216 void G4Molecule::ExciteMolecule(G4int ExcitedLevel)
292 {                                                 217 {
293     fpMolecularConfiguration = fpMolecularConf << 218     fpMolecularConfiguration = fpMolecularConfiguration->ExciteMolecule(ExcitedLevel);
294 }                                                 219 }
295                                                   220 
296 //____________________________________________ << 221 /** Method used in Geant4-DNA to ionize water molecules
297                                                << 222  */
298 void G4Molecule::IonizeMolecule(G4int ionizati << 223 void G4Molecule::IonizeMolecule(G4int IonizedLevel)
299 {                                                 224 {
300     fpMolecularConfiguration = fpMolecularConf << 225     fpMolecularConfiguration = fpMolecularConfiguration->IonizeMolecule(IonizedLevel);
301 }                                                 226 }
302                                                   227 
303 //____________________________________________ << 
304                                                << 
305 void G4Molecule::AddElectron(G4int orbit, G4in    228 void G4Molecule::AddElectron(G4int orbit, G4int number)
306 {                                                 229 {
307     fpMolecularConfiguration = fpMolecularConf << 230     fpMolecularConfiguration = fpMolecularConfiguration->AddElectron(orbit,number);
308 }                                                 231 }
309                                                   232 
310 //____________________________________________ << 233 void G4Molecule::RemoveElectron(G4int orbit,G4int number)
311                                                << 
312 void G4Molecule::RemoveElectron(G4int orbit, G << 
313 {                                                 234 {
314     fpMolecularConfiguration =                 << 235     fpMolecularConfiguration = fpMolecularConfiguration->RemoveElectron(orbit,number);
315         fpMolecularConfiguration->RemoveElectr << 
316 }                                                 236 }
317                                                   237 
318 //____________________________________________ << 238 void G4Molecule::MoveOneElectron(G4int orbitToFree,G4int orbitToFill)
319                                                << 
320 void G4Molecule::MoveOneElectron(G4int orbitTo << 
321 {                                                 239 {
322     fpMolecularConfiguration =                 << 240     fpMolecularConfiguration = fpMolecularConfiguration->MoveOneElectron(orbitToFree,orbitToFill);
323         fpMolecularConfiguration->MoveOneElect << 
324 }                                                 241 }
325                                                   242 
326 //____________________________________________ << 
327                                                << 
328 const G4String& G4Molecule::GetName() const       243 const G4String& G4Molecule::GetName() const
329 {                                                 244 {
330     return fpMolecularConfiguration->GetName()    245     return fpMolecularConfiguration->GetName();
331 }                                                 246 }
332                                                   247 
333 //____________________________________________ << 
334                                                << 
335 const G4String& G4Molecule::GetFormatedName()  << 
336 {                                              << 
337     return fpMolecularConfiguration->GetFormat << 
338 }                                              << 
339                                                << 
340 //____________________________________________ << 
341                                                << 
342 G4int G4Molecule::GetAtomsNumber() const          248 G4int G4Molecule::GetAtomsNumber() const
343 {                                                 249 {
344     return fpMolecularConfiguration->GetAtomsN    250     return fpMolecularConfiguration->GetAtomsNumber();
345 }                                                 251 }
346                                                   252 
347 //____________________________________________ << 
348                                                << 
349 G4double G4Molecule::GetNbElectrons() const       253 G4double G4Molecule::GetNbElectrons() const
350 {                                                 254 {
351     return fpMolecularConfiguration->GetNbElec    255     return fpMolecularConfiguration->GetNbElectrons();
352 }                                                 256 }
353                                                   257 
354 //____________________________________________ << 
355                                                << 
356 void G4Molecule::PrintState() const               258 void G4Molecule::PrintState() const
357 {                                                 259 {
358     fpMolecularConfiguration->PrintState();       260     fpMolecularConfiguration->PrintState();
359 }                                                 261 }
360                                                   262 
361 //____________________________________________ << 263 G4Track * G4Molecule::BuildTrack(G4double globalTime, const G4ThreeVector& Position)
362                                                << 
363 G4Track* G4Molecule::BuildTrack(G4double globa << 
364                                  const G4Three << 
365 {                                                 264 {
366     if (fpTrack != nullptr)                    << 265     if(fpTrack != 0)
367     {                                             266     {
368         G4Exception("G4Molecule::BuildTrack",  << 267         G4Exception("G4Molecule::BuildTrack","Molecule001",
369                     "A track was already assig << 268                     FatalErrorInArgument,"A track was already assigned to this molecule");
370     }                                             269     }
371                                                   270 
372     // Kinetic Values                             271     // Kinetic Values
373     // Set a random direction to the molecule     272     // Set a random direction to the molecule
374     G4double costheta = (2 * G4UniformRand() - << 273     G4double costheta = (2*G4UniformRand()-1);
375     G4double theta = acos(costheta);           << 274     G4double theta = acos (costheta);
376     G4double phi = 2 * pi * G4UniformRand();   << 275     G4double phi = 2*pi*G4UniformRand();
377                                                   276 
378     G4double xMomentum = cos(phi) * sin(theta) << 277     G4double xMomentum = cos(phi)* sin(theta);
379     G4double yMomentum = sin(theta) * sin(phi) << 278     G4double yMomentum = sin(theta)*sin(phi);
380     G4double zMomentum = costheta;                279     G4double zMomentum = costheta;
381                                                   280 
382     G4ThreeVector MomentumDirection(xMomentum,    281     G4ThreeVector MomentumDirection(xMomentum, yMomentum, zMomentum);
383     G4double KineticEnergy = GetKineticEnergy(    282     G4double KineticEnergy = GetKineticEnergy();
384                                                   283 
385     auto  dynamicParticle = new G4DynamicParti << 284     G4DynamicParticle* dynamicParticle = new G4DynamicParticle(fpMolecularConfiguration->GetDefinition(),
386         fpMolecularConfiguration->GetDefinitio << 285                                              MomentumDirection,
387         KineticEnergy);                        << 286                                              KineticEnergy);
388                                                   287 
389     if (G4VMoleculeCounter::Instance()->InUse( << 288     if(G4MoleculeCounter::GetMoleculeCounter()->InUse())
390     {                                          << 289         G4MoleculeCounter::GetMoleculeCounter()->AddAMoleculeAtTime(*this,globalTime);
391         G4VMoleculeCounter::Instance()->       << 
392             AddAMoleculeAtTime(fpMolecularConf << 
393                                globalTime,     << 
394                                &(fpTrack->GetP << 
395     }                                          << 
396                                                   290 
397     //Set the Track                               291     //Set the Track
398     fpTrack = new G4Track(dynamicParticle, glo << 292     fpTrack = new G4Track(dynamicParticle, globalTime, Position);
399     fpTrack->SetUserInformation(this);         << 293     fpTrack -> SetUserInformation (this);
400                                                   294 
401     return fpTrack;                               295     return fpTrack;
402 }                                                 296 }
403                                                   297 
404 //____________________________________________ << 
405                                                << 
406 G4double G4Molecule::GetKineticEnergy() const     298 G4double G4Molecule::GetKineticEnergy() const
407 {                                                 299 {
408     ////                                          300     ////
409     // Ideal Gaz case                             301     // Ideal Gaz case
410     double v = GetDiffusionVelocity();            302     double v = GetDiffusionVelocity();
411     double E = (fpMolecularConfiguration->GetM << 303     double E = (fpMolecularConfiguration->GetMass()/(c_squared))*(v*v)/2.;
412     ////                                          304     ////
413     return E;                                     305     return E;
414 }                                                 306 }
415                                                   307 
416 //____________________________________________ << 
417                                                << 
418 G4double G4Molecule::GetDiffusionVelocity() co    308 G4double G4Molecule::GetDiffusionVelocity() const
419 {                                                 309 {
420     double moleculeMass = fpMolecularConfigura << 310     double moleculeMass = fpMolecularConfiguration->GetMass()/(c_squared);
421                                                   311 
422     ////                                          312     ////
423     // Different possibilities                    313     // Different possibilities
424     ////                                          314     ////
425     // Ideal Gaz case : Maxwell Boltzmann Dist    315     // Ideal Gaz case : Maxwell Boltzmann Distribution
426     //    double sigma = k_Boltzmann * fgTempe    316     //    double sigma = k_Boltzmann * fgTemperature / mass;
427     //    return G4RandGauss::shoot( 0, sigma     317     //    return G4RandGauss::shoot( 0, sigma );
428     ////                                          318     ////
429     // Ideal Gaz case : mean velocity from equ    319     // Ideal Gaz case : mean velocity from equipartition theorem
430     return sqrt(3 * k_Boltzmann *              << 320     return sqrt(3*k_Boltzmann*fgTemperature/moleculeMass);
431                 G4MolecularConfiguration::GetG << 
432     ////                                          321     ////
433     // Using this approximation for liquid is     322     // Using this approximation for liquid is wrong
434     // However the brownian process avoid taki    323     // However the brownian process avoid taking
435     // care of energy consideration and plays     324     // care of energy consideration and plays only
436     // with positions                             325     // with positions
437 }                                                 326 }
438                                                   327 
439 //____________________________________________ << 
440                                                << 
441 // added - to be transformed in a "Decay metho    328 // added - to be transformed in a "Decay method"
442 const vector<const G4MolecularDissociationChan << 329 const vector <const G4MolecularDecayChannel*>* G4Molecule::GetDecayChannel() const
443 G4Molecule::GetDissociationChannels() const    << 
444 {                                              << 
445     return fpMolecularConfiguration->GetDissoc << 
446 }                                              << 
447                                                << 
448 //____________________________________________ << 
449                                                << 
450 G4int G4Molecule::GetFakeParticleID() const    << 
451 {                                                 330 {
452     return fpMolecularConfiguration->GetFakePa << 331     return fpMolecularConfiguration->GetDecayChannel();
453 }                                                 332 }
454                                                   333 
455 //____________________________________________ << 
456                                                << 
457 G4int G4Molecule::GetMoleculeID() const           334 G4int G4Molecule::GetMoleculeID() const
458 {                                                 335 {
459     return fpMolecularConfiguration->GetMolecu    336     return fpMolecularConfiguration->GetMoleculeID();
460 }                                                 337 }
461                                                   338 
462 //____________________________________________ << 339 void G4Molecule::SetDecayTime(G4double dynDecayTime)
                                                   >> 340 {
                                                   >> 341     fpMolecularConfiguration->SetDecayTime(dynDecayTime);
                                                   >> 342 }
463                                                   343 
464 G4double G4Molecule::GetDecayTime() const         344 G4double G4Molecule::GetDecayTime() const
465 {                                                 345 {
466     return fpMolecularConfiguration->GetDecayT    346     return fpMolecularConfiguration->GetDecayTime();
467 }                                                 347 }
468                                                   348 
469 //____________________________________________ << 349 void G4Molecule::SetVanDerVaalsRadius(G4double dynVanDerVaalsRadius)
                                                   >> 350 {
                                                   >> 351     fpMolecularConfiguration->SetVanDerVaalsRadius(dynVanDerVaalsRadius);
                                                   >> 352 }
470                                                   353 
471 G4double G4Molecule::GetVanDerVaalsRadius() co    354 G4double G4Molecule::GetVanDerVaalsRadius() const
472 {                                                 355 {
473     return fpMolecularConfiguration->GetVanDer    356     return fpMolecularConfiguration->GetVanDerVaalsRadius();
474 }                                                 357 }
475                                                   358 
476 //____________________________________________ << 
477                                                << 
478 G4int G4Molecule::GetCharge() const               359 G4int G4Molecule::GetCharge() const
479 {                                                 360 {
480     return fpMolecularConfiguration->GetCharge << 361     return fpMolecularConfiguration->GetCharge() ;
481 }                                                 362 }
482                                                   363 
483 //____________________________________________ << 364 void G4Molecule::SetMass(G4double aMass)
                                                   >> 365 {
                                                   >> 366     fpMolecularConfiguration->SetMass(aMass);
                                                   >> 367 }
484                                                   368 
485 G4double G4Molecule::GetMass() const              369 G4double G4Molecule::GetMass() const
486 {                                                 370 {
487     return fpMolecularConfiguration->GetMass()    371     return fpMolecularConfiguration->GetMass();
488 }                                                 372 }
489                                                   373 
490 //____________________________________________ << 
491                                                << 
492 const G4ElectronOccupancy* G4Molecule::GetElec    374 const G4ElectronOccupancy* G4Molecule::GetElectronOccupancy() const
493 {                                                 375 {
494     return fpMolecularConfiguration->GetElectr    376     return fpMolecularConfiguration->GetElectronOccupancy();
495 }                                                 377 }
496                                                   378 
497 //____________________________________________ << 
498                                                << 
499 const G4MoleculeDefinition* G4Molecule::GetDef    379 const G4MoleculeDefinition* G4Molecule::GetDefinition() const
500 {                                                 380 {
501     return fpMolecularConfiguration->GetDefini    381     return fpMolecularConfiguration->GetDefinition();
502 }                                                 382 }
503                                                   383 
504 //____________________________________________ << 384 void G4Molecule::SetDiffusionCoefficient(G4double dynDiffusionCoefficient)
505                                                << 
506 G4double G4Molecule::GetDiffusionCoefficient() << 
507 {                                                 385 {
508     return fpMolecularConfiguration->GetDiffus << 386     fpMolecularConfiguration->SetDiffusionCoefficient(dynDiffusionCoefficient);
509 }                                                 387 }
510                                                   388 
511 //____________________________________________ << 389 G4double G4Molecule::GetDiffusionCoefficient() const
512                                                << 
513 G4double G4Molecule::GetDiffusionCoefficient(c << 
514                                              d << 
515 {                                                 390 {
516     return fpMolecularConfiguration->GetDiffus << 391     return fpMolecularConfiguration->GetDiffusionCoefficient();
517                                                << 
518 }                                                 392 }
519                                                   393 
520 //____________________________________________ << 394 G4MolecularConfiguration* G4Molecule::GetMolecularConfiguration() const
521                                                << 
522 const G4MolecularConfiguration* G4Molecule::Ge << 
523 {                                                 395 {
524     return fpMolecularConfiguration;           << 396     return fpMolecularConfiguration ;
525 }                                                 397 }
526                                                   398 
527 //____________________________________________ << 399 void G4Molecule::SetGlobalTemperature(G4double temperature)
528                                                << 
529 const G4String& G4Molecule::GetLabel() const   << 
530 {                                                 400 {
531     return fpMolecularConfiguration->GetLabel( << 401     fgTemperature = temperature;
532 }                                                 402 }
533                                                   403 
534 //____________________________________________ << 404 G4double G4Molecule::GetGlobalTemperature()
535                                                << 
536 void G4Molecule::ChangeConfigurationToLabel(co << 
537 {                                                 405 {
538     // TODO check fpMolecularConfiguration alr << 406     return fgTemperature;
539     // and new one as well                     << 
540     // TODO notify for stack change            << 
541     fpMolecularConfiguration = G4MolecularConf << 
542         fpMolecularConfiguration->GetDefinitio << 
543                                                << 
544     assert(fpMolecularConfiguration != nullptr << 
545 }                                                 407 }
546                                                   408