ViewVC Help
View File | Revision Log | Show Annotations | View Changeset | Root Listing
root/OpenMD/branches/development/src/flucq/FluctuatingChargeNVT.cpp
(Generate patch)

Comparing branches/development/src/flucq/FluctuatingChargeNVT.cpp (file contents):
Revision 1735 by jmichalk, Tue Jun 5 17:50:53 2012 UTC vs.
Revision 1761 by gezelter, Fri Jun 22 20:01:37 2012 UTC

# Line 45 | Line 45
45   #include "utils/simError.h"
46   #include "utils/PhysicalConstants.hpp"
47  
48 +
49   namespace OpenMD {
50  
51    FluctuatingChargeNVT::FluctuatingChargeNVT(SimInfo* info) :
52 <    FluctuatingChargePropagator(info), chiTolerance_ (1e-6), maxIterNum_(4),
53 <    thermo(info),
54 <    currentSnapshot_(info->getSnapshotManager()->getCurrentSnapshot()) {
54 <
55 <
56 <    if (info_->usesFluctuatingCharges()) {
57 <      if (info_->getNFluctuatingCharges() > 0) {
58 <
59 <        hasFlucQ_ = true;
60 <        Globals* simParams = info_->getSimParams();
61 <        FluctuatingChargeParameters* fqParams = simParams->getFluctuatingChargeParameters();
62 <
63 <        if (simParams->haveDt()) {
64 <          dt_ = simParams->getDt();
65 <          dt2_ = dt_ * 0.5;
66 <        } else {
67 <          sprintf(painCave.errMsg,
68 <                  "FluctuatingChargeNVT Error: dt is not set\n");
69 <          painCave.isFatal = 1;
70 <          simError();
71 <        }
72 <        
73 <        if (!simParams->getUseIntialExtendedSystemState()) {
74 <          currentSnapshot_->setChiElectronic(0.0);
75 <          currentSnapshot_->setIntegralOfChiElectronicDt(0.0);
76 <        }
77 <        
78 <        if (!fqParams->haveTargetTemp()) {
79 <          sprintf(painCave.errMsg, "You can't use the FluctuatingChargeNVT "
80 <                  "propagator without a flucQ.targetTemp!\n");
81 <          painCave.isFatal = 1;
82 <          painCave.severity = OPENMD_ERROR;
83 <          simError();
84 <        } else {
85 <          targetTemp_ = fqParams->getTargetTemp();
86 <        }
87 <        
88 <        // We must set tauThermostat.
89 <        
90 <        if (!fqParams->haveTauThermostat()) {
91 <          sprintf(painCave.errMsg, "If you use the FluctuatingChargeNVT\n"
92 <                  "\tpropagator, you must set flucQ.tauThermostat .\n");
93 <          
94 <          painCave.severity = OPENMD_ERROR;
95 <          painCave.isFatal = 1;
96 <          simError();
97 <        } else {
98 <          tauThermostat_ = fqParams->getTauThermostat();
99 <        }
100 <        updateSizes();
101 <      }
102 <    }      
52 >    FluctuatingChargePropagator(info), chiTolerance_ (1e-6),
53 >    maxIterNum_(4), thermo(info),
54 >    currentSnapshot_(info->getSnapshotManager()->getCurrentSnapshot()) {    
55    }
56  
57    void FluctuatingChargeNVT::initialize() {
58 <
59 <    if (!hasFlucQ_) return;
60 <
61 <    SimInfo::MoleculeIterator i;
62 <    Molecule::FluctuatingChargeIterator  j;
63 <    Molecule* mol;
64 <    Atom* atom;
65 <    
66 <    for (mol = info_->beginMolecule(i); mol != NULL;
67 <         mol = info_->nextMolecule(i)) {
116 <      for (atom = mol->beginFluctuatingCharge(j); atom != NULL;
117 <           atom = mol->nextFluctuatingCharge(j)) {
118 <        atom->setFlucQPos(0.0);
119 <        atom->setFlucQVel(0.0);
58 >    FluctuatingChargePropagator::initialize();  
59 >    if (hasFlucQ_) {
60 >      if (info_->getSimParams()->haveDt()) {
61 >        dt_ = info_->getSimParams()->getDt();
62 >        dt2_ = dt_ * 0.5;
63 >      } else {
64 >        sprintf(painCave.errMsg,
65 >                "FluctuatingChargeNVT Error: dt is not set\n");
66 >        painCave.isFatal = 1;
67 >        simError();
68        }
69 +      
70 +      if (!info_->getSimParams()->getUseIntialExtendedSystemState()) {
71 +        currentSnapshot_->setChiElectronic(0.0);
72 +        currentSnapshot_->setIntegralOfChiElectronicDt(0.0);
73 +      }
74 +      
75 +      if (!fqParams_->haveTargetTemp()) {
76 +        sprintf(painCave.errMsg, "You can't use the FluctuatingChargeNVT "
77 +                "propagator without a flucQ.targetTemp!\n");
78 +        painCave.isFatal = 1;
79 +        painCave.severity = OPENMD_ERROR;
80 +        simError();
81 +      } else {
82 +        targetTemp_ = fqParams_->getTargetTemp();
83 +      }
84 +      
85 +      // We must set tauThermostat.
86 +      
87 +      if (!fqParams_->haveTauThermostat()) {
88 +        sprintf(painCave.errMsg, "If you use the FluctuatingChargeNVT\n"
89 +                "\tpropagator, you must set flucQ.tauThermostat .\n");
90 +        
91 +        painCave.severity = OPENMD_ERROR;
92 +        painCave.isFatal = 1;
93 +        simError();
94 +      } else {
95 +        tauThermostat_ = fqParams_->getTauThermostat();
96 +      }
97 +      updateSizes();
98      }
122 –    
123 –    cerr << "Yeah, you should probably implement this\n";
99    }
100  
101 +
102    void FluctuatingChargeNVT::moveA() {
103  
104      if (!hasFlucQ_) return;
# Line 137 | Line 113 | namespace OpenMD {
113      RealType integralOfChidt = currentSnapshot_->getIntegralOfChiElectronicDt();
114      RealType instTemp = thermo.getElectronicTemperature();
115  
140 –
116      for (mol = info_->beginMolecule(i); mol != NULL;
117           mol = info_->nextMolecule(i)) {
118        for (atom = mol->beginFluctuatingCharge(j); atom != NULL;
# Line 146 | Line 121 | namespace OpenMD {
121          cvel = atom->getFlucQVel();
122          cpos = atom->getFlucQPos();
123          cfrc = atom->getFlucQFrc();
124 <        cmass = atom->getChargeMass();
125 <        
151 <        cerr << atom->getType() << "\n";
152 <        cerr << "Before\n";
153 <        cerr << "cvel: " << cvel << "\tcpos: " << cpos << "\tcfrc: " << cfrc << "\tcmass: " << cmass << "\n";
154 <        
124 >        cmass = atom->getChargeMass();      
125 >
126          // velocity half step
127          cvel += dt2_ * cfrc / cmass - dt2_*chi*cvel;                    
128          // position whole step
129          cpos += dt_ * cvel;
130          
160 –        cerr << "After\n";
161 –        cerr << "cvel: " << cvel << "\tcpos: " << cpos << "\n\n";        
162 –
131          atom->setFlucQVel(cvel);
132          atom->setFlucQPos(cpos);
133        }
# Line 169 | Line 137 | namespace OpenMD {
137        (tauThermostat_ * tauThermostat_);
138  
139      integralOfChidt += chi * dt2_;
172 –    cerr << "Move A instTemp: " << instTemp << "\n";
140      currentSnapshot_->setChiElectronic(chi);
141      currentSnapshot_->setIntegralOfChiElectronicDt(integralOfChidt);
142        
143    }
144  
145    void FluctuatingChargeNVT::updateSizes() {
179 –    if (!hasFlucQ_) return;
146      oldVel_.resize(info_->getNFluctuatingCharges());
147    }
148  
# Line 210 | Line 176 | namespace OpenMD {
176      for(int k = 0; k < maxIterNum_; k++) {
177        index = 0;
178        instTemp = thermo.getElectronicTemperature();
213 –      cerr << "MoveB instTemp: " << instTemp << "\n";
179        // evolve chi another half step using the temperature at t + dt/2
180        prevChi = chi;
181        chi = oldChi + dt2_ * (instTemp / targetTemp_ - 1.0) /
# Line 227 | Line 192 | namespace OpenMD {
192            
193            // velocity half step
194            cvel = oldVel_[index] + dt2_ * cfrc / cmass - dt2_*chi*oldVel_[index];
230 –          
195            atom->setFlucQVel(cvel);      
196            ++index;          
197          }

Diff Legend

– Removed lines
+ Added lines
< Changed lines
> Changed lines