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"); |
146 |
|
deprecatedKeywords_.insert("thermIntOmegaSpringConst"); |
147 |
|
deprecatedKeywords_.insert("useSolidThermInt"); |
148 |
|
deprecatedKeywords_.insert("useLiquidThermInt"); |
149 |
+ |
deprecatedKeywords_.insert("cutoffPolicy"); |
150 |
|
|
151 |
|
} |
152 |
|
|
179 |
|
CheckParameter(Seed, isPositive()); |
180 |
|
CheckParameter(Minimizer, isEqualIgnoreCase("SD") || isEqualIgnoreCase("CG")); |
181 |
|
CheckParameter(MinimizerMaxIter, isPositive()); |
182 |
< |
CheckParameter(MinimizerWriteFrq, isPositive()); |
182 |
> |
CheckParameter(MinimizerWriteFreq, isPositive()); |
183 |
|
CheckParameter(MinimizerStepSize, isPositive()); |
184 |
|
CheckParameter(MinimizerFTol, isPositive()); |
185 |
|
CheckParameter(MinimizerGTol, isPositive()); |
191 |
|
CheckParameter(ThermodynamicIntegrationK, isPositive()); |
192 |
|
CheckParameter(ForceFieldVariant, isNotEmpty()); |
193 |
|
CheckParameter(ForceFieldFileName, isNotEmpty()); |
194 |
< |
CheckParameter(ElectrostaticSummationMethod, isEqualIgnoreCase("NONE") || isEqualIgnoreCase("SHIFTED_POTENTIAL") || isEqualIgnoreCase("SHIFTED_FORCE") || isEqualIgnoreCase("REACTION_FIELD")); |
194 |
> |
CheckParameter(CutoffMethod, isEqualIgnoreCase("HARD") || isEqualIgnoreCase("SWITCHED") || isEqualIgnoreCase("SHIFTED_POTENTIAL") || isEqualIgnoreCase("SHIFTED_FORCE")); |
195 |
> |
CheckParameter(ElectrostaticSummationMethod, isEqualIgnoreCase("HARD") || isEqualIgnoreCase("SWITCHED") || isEqualIgnoreCase("SHIFTED_POTENTIAL") || isEqualIgnoreCase("SHIFTED_FORCE") || isEqualIgnoreCase("REACTION_FIELD")); |
196 |
|
CheckParameter(ElectrostaticScreeningMethod, isEqualIgnoreCase("UNDAMPED") || isEqualIgnoreCase("DAMPED")); |
194 |
– |
CheckParameter(CutoffPolicy, isEqualIgnoreCase("MIX") || isEqualIgnoreCase("MAX") || isEqualIgnoreCase("TRADITIONAL")); |
197 |
|
CheckParameter(SwitchingFunctionType, isEqualIgnoreCase("CUBIC") || isEqualIgnoreCase("FIFTH_ORDER_POLYNOMIAL")); |
196 |
– |
//CheckParameter(StatFileFormat,); |
198 |
|
CheckParameter(OrthoBoxTolerance, isPositive()); |
199 |
|
CheckParameter(DampingAlpha,isNonNegative()); |
200 |
|
CheckParameter(SkinThickness, isPositive()); |