| 74 | 
  | 
  DefineOptionalParameter(Seed, "seed"); | 
| 75 | 
  | 
  DefineOptionalParameter(Minimizer, "minimizer"); | 
| 76 | 
  | 
  DefineOptionalParameter(MinimizerMaxIter,"minimizerMaxIter"); | 
| 77 | 
< | 
  DefineOptionalParameter(MinimizerWriteFrq, "minimizerWriteFrq"); | 
| 77 | 
> | 
  DefineOptionalParameter(MinimizerWriteFreq, "minimizerWriteFreq"); | 
| 78 | 
  | 
  DefineOptionalParameter(MinimizerStepSize, "minimizerStepSize"); | 
| 79 | 
  | 
  DefineOptionalParameter(MinimizerFTol, "minimizerFTol"); | 
| 80 | 
  | 
  DefineOptionalParameter(MinimizerGTol, "minimizerGTol"); | 
| 92 | 
  | 
  DefineOptionalParameter(PrintPressureTensor, "printPressureTensor"); | 
| 93 | 
  | 
  DefineOptionalParameter(TaggedAtomPair, "taggedAtomPair"); | 
| 94 | 
  | 
  DefineOptionalParameter(PrintTaggedPairDistance, "printTaggedPairDistance"); | 
| 95 | 
– | 
  DefineOptionalParameter(CutoffPolicy, "cutoffPolicy"); | 
| 95 | 
  | 
  DefineOptionalParameter(SwitchingFunctionType, "switchingFunctionType"); | 
| 96 | 
  | 
  DefineOptionalParameter(HydroPropFile, "HydroPropFile"); | 
| 97 | 
  | 
  DefineOptionalParameter(Viscosity, "viscosity"); | 
| 100 | 
  | 
  DefineOptionalParameter(LangevinBufferRadius, "langevinBufferRadius"); | 
| 101 | 
  | 
  DefineOptionalParameter(NeighborListNeighbors,"NeighborListNeighbors"); | 
| 102 | 
  | 
  DefineOptionalParameter(UseMultipleTemperatureMethod, "useMultipleTemperatureMethod"); | 
| 103 | 
+ | 
  DefineOptionalParameter(ElectrostaticSummationMethod, "electrostaticSummationMethod"); | 
| 104 | 
  | 
  DefineOptionalParameter(MTM_Ce, "MTM_Ce"); | 
| 105 | 
  | 
  DefineOptionalParameter(MTM_G, "MTM_G"); | 
| 106 | 
  | 
  DefineOptionalParameter(MTM_Io, "MTM_Io"); | 
| 114 | 
  | 
  DefineOptionalParameterWithDefaultValue(UseInitalTime, "useInitialTime", false); | 
| 115 | 
  | 
  DefineOptionalParameterWithDefaultValue(UseIntialExtendedSystemState, "useInitialExtendedSystemState", false); | 
| 116 | 
  | 
  DefineOptionalParameterWithDefaultValue(OrthoBoxTolerance, "orthoBoxTolerance", 1E-6);   | 
| 117 | 
< | 
  DefineOptionalParameterWithDefaultValue(ElectrostaticSummationMethod, "electrostaticSummationMethod", "SHIFTED_FORCE"); | 
| 117 | 
> | 
  DefineOptionalParameterWithDefaultValue(CutoffMethod, "cutoffMethod", "SHIFTED_FORCE"); | 
| 118 | 
  | 
  DefineOptionalParameterWithDefaultValue(ElectrostaticScreeningMethod, "electrostaticScreeningMethod", "DAMPED"); | 
| 119 | 
< | 
  DefineOptionalParameterWithDefaultValue(Dielectric, "dielectric", 78.5); | 
| 119 | 
> | 
  DefineOptionalParameterWithDefaultValue(Dielectric, "dielectric", 80.0); | 
| 120 | 
  | 
  DefineOptionalParameterWithDefaultValue(CompressDumpFile, "compressDumpFile", 0); | 
| 121 | 
  | 
  DefineOptionalParameterWithDefaultValue(OutputForceVector, "outputForceVector", 0); | 
| 122 | 
  | 
  DefineOptionalParameterWithDefaultValue(SkinThickness, "skinThickness", 1.0); | 
| 137 | 
  | 
  DefineOptionalParameterWithDefaultValue(HULL_Method,"HULL_Method","Convex"); | 
| 138 | 
  | 
 | 
| 139 | 
  | 
 | 
| 140 | 
+ | 
 | 
| 141 | 
  | 
  deprecatedKeywords_.insert("nComponents"); | 
| 142 | 
  | 
  deprecatedKeywords_.insert("nZconstraints"); | 
| 143 | 
  | 
  deprecatedKeywords_.insert("initialConfig"); | 
| 178 | 
  | 
  CheckParameter(Seed, isPositive()); | 
| 179 | 
  | 
  CheckParameter(Minimizer, isEqualIgnoreCase("SD") || isEqualIgnoreCase("CG")); | 
| 180 | 
  | 
  CheckParameter(MinimizerMaxIter, isPositive()); | 
| 181 | 
< | 
  CheckParameter(MinimizerWriteFrq, isPositive()); | 
| 181 | 
> | 
  CheckParameter(MinimizerWriteFreq, isPositive()); | 
| 182 | 
  | 
  CheckParameter(MinimizerStepSize, isPositive()); | 
| 183 | 
  | 
  CheckParameter(MinimizerFTol, isPositive()); | 
| 184 | 
  | 
  CheckParameter(MinimizerGTol, isPositive()); | 
| 190 | 
  | 
  CheckParameter(ThermodynamicIntegrationK, isPositive()); | 
| 191 | 
  | 
  CheckParameter(ForceFieldVariant, isNotEmpty()); | 
| 192 | 
  | 
  CheckParameter(ForceFieldFileName, isNotEmpty()); | 
| 193 | 
< | 
  CheckParameter(ElectrostaticSummationMethod, isEqualIgnoreCase("NONE") || isEqualIgnoreCase("SHIFTED_POTENTIAL") || isEqualIgnoreCase("SHIFTED_FORCE") || isEqualIgnoreCase("REACTION_FIELD")); | 
| 193 | 
< | 
  CheckParameter(ElectrostaticScreeningMethod, isEqualIgnoreCase("UNDAMPED") || isEqualIgnoreCase("DAMPED"));  | 
| 193 | 
> | 
  CheckParameter(CutoffMethod, isEqualIgnoreCase("HARD") || isEqualIgnoreCase("SWITCHED") || isEqualIgnoreCase("SHIFTED_POTENTIAL") || isEqualIgnoreCase("SHIFTED_FORCE")); | 
| 194 | 
  | 
  CheckParameter(CutoffPolicy, isEqualIgnoreCase("MIX") || isEqualIgnoreCase("MAX") || isEqualIgnoreCase("TRADITIONAL")); | 
| 195 | 
+ | 
  CheckParameter(ElectrostaticSummationMethod, isEqualIgnoreCase("NONE") || isEqualIgnoreCase("HARD") || isEqualIgnoreCase("SWITCHED") || isEqualIgnoreCase("SHIFTED_POTENTIAL") || isEqualIgnoreCase("SHIFTED_FORCE") || isEqualIgnoreCase("REACTION_FIELD")); | 
| 196 | 
+ | 
  CheckParameter(ElectrostaticScreeningMethod, isEqualIgnoreCase("UNDAMPED") || isEqualIgnoreCase("DAMPED"));  | 
| 197 | 
  | 
  CheckParameter(SwitchingFunctionType, isEqualIgnoreCase("CUBIC") || isEqualIgnoreCase("FIFTH_ORDER_POLYNOMIAL")); | 
| 196 | 
– | 
  //CheckParameter(StatFileFormat,);      | 
| 198 | 
  | 
  CheckParameter(OrthoBoxTolerance, isPositive());   | 
| 199 | 
  | 
  CheckParameter(DampingAlpha,isNonNegative()); | 
| 200 | 
  | 
  CheckParameter(SkinThickness, isPositive()); | 
| 219 | 
  | 
    } | 
| 220 | 
  | 
  } | 
| 221 | 
  | 
} | 
| 222 | 
< | 
   | 
| 222 | 
> | 
 | 
| 223 | 
  | 
bool Globals::addComponent(Component* comp) { | 
| 224 | 
  | 
    components_.push_back(comp); | 
| 225 | 
  | 
    return true; |