57 |
|
DefineOptionalParameter(Ensemble, "ensemble"); |
58 |
|
DefineOptionalParameter(Dt, "dt"); |
59 |
|
DefineOptionalParameter(RunTime, "runTime"); |
60 |
< |
DefineOptionalParameter(InitialConfig, "initialConfig"); |
60 |
> |
//DefineOptionalParameter(InitialConfig, "initialConfig"); |
61 |
|
DefineOptionalParameter(FinalConfig, "finalConfig"); |
62 |
|
DefineOptionalParameter(SampleTime, "sampleTime"); |
63 |
|
DefineOptionalParameter(ResetTime, "resetTime"); |
64 |
|
DefineOptionalParameter(StatusTime, "statusTime"); |
65 |
|
DefineOptionalParameter(CutoffRadius, "cutoffRadius"); |
66 |
|
DefineOptionalParameter(SwitchingRadius, "switchingRadius"); |
67 |
– |
DefineOptionalParameter(Dielectric, "dielectric"); |
67 |
|
DefineOptionalParameter(TempSet, "tempSet"); |
68 |
|
DefineOptionalParameter(ThermalTime, "thermalTime"); |
69 |
|
DefineOptionalParameter(TargetPressure, "targetPressure"); |
112 |
|
DefineOptionalParameterWithDefaultValue(ThermIntDistSpringConst, "thermIntDistSpringConst", 6.0); |
113 |
|
DefineOptionalParameterWithDefaultValue(ThermIntThetaSpringConst, "thermIntThetaSpringConst", 7.5); |
114 |
|
DefineOptionalParameterWithDefaultValue(ThermIntOmegaSpringConst, "thermIntOmegaSpringConst", 13.5); |
115 |
< |
DefineOptionalParameterWithDefaultValue(DampingAlpha, "dampingAlpha", 0.2); |
115 |
> |
DefineOptionalParameter(DampingAlpha, "dampingAlpha"); |
116 |
> |
DefineOptionalParameterWithDefaultValue(Dielectric, "dielectric", 78.5); |
117 |
|
DefineOptionalParameterWithDefaultValue(CompressDumpFile, "compressDumpFile", 0); |
118 |
|
DefineOptionalParameterWithDefaultValue(OutputForceVector, "outputForceVector", 0); |
119 |
|
DefineOptionalParameterWithDefaultValue(SkinThickness, "skinThickness", 1.0); |
124 |
|
|
125 |
|
deprecatedKeywords_.insert("nComponents"); |
126 |
|
deprecatedKeywords_.insert("nZconstraints"); |
127 |
+ |
deprecatedKeywords_.insert("initialConfig"); |
128 |
|
|
129 |
|
} |
130 |
|
|
138 |
|
|
139 |
|
CheckParameter(ForceField, isNotEmpty()); |
140 |
|
CheckParameter(TargetTemp, isPositive()); |
141 |
< |
CheckParameter(Ensemble, isEqualIgnoreCase("NVE") || isEqualIgnoreCase("NVT") || isEqualIgnoreCase("NPTi") || isEqualIgnoreCase("NPTf") || isEqualIgnoreCase("NPTxyz") || isEqualIgnoreCase("NPAT") || isEqualIgnoreCase("LANGEVINDYNAMICS") || isEqualIgnoreCase("LD") || isEqualIgnoreCase("NPRT") || isEqualIgnoreCase("NPGT")); |
141 |
> |
CheckParameter(Ensemble, isEqualIgnoreCase("NVE") || isEqualIgnoreCase("NVT") || isEqualIgnoreCase("NPTi") || isEqualIgnoreCase("NPTf") || isEqualIgnoreCase("NPTxyz") || isEqualIgnoreCase("NPAT") || isEqualIgnoreCase("LANGEVINDYNAMICS") || isEqualIgnoreCase("LD") || isEqualIgnoreCase("NPRT") || isEqualIgnoreCase("NPGT") || isEqualIgnoreCase("NGammaT") || isEqualIgnoreCase("NGT")); |
142 |
|
CheckParameter(Dt, isPositive()); |
143 |
|
CheckParameter(RunTime, isPositive()); |
144 |
< |
CheckParameter(InitialConfig, isNotEmpty()); |
144 |
> |
//CheckParameter(InitialConfig, isNotEmpty()); |
145 |
|
CheckParameter(FinalConfig, isNotEmpty()); |
146 |
|
CheckParameter(SampleTime, isNonNegative()); |
147 |
|
CheckParameter(ResetTime, isNonNegative()); |
150 |
|
CheckParameter(SwitchingRadius, isNonNegative()); |
151 |
|
CheckParameter(Dielectric, isPositive()); |
152 |
|
CheckParameter(ThermalTime, isNonNegative()); |
153 |
< |
CheckParameter(TargetPressure, isPositive()); |
153 |
> |
// CheckParameter(TargetPressure, isPositive()); |
154 |
|
CheckParameter(TauThermostat, isPositive()); |
155 |
|
CheckParameter(TauBarostat, isPositive()); |
156 |
|
CheckParameter(ZconsTime, isPositive()); |
173 |
|
CheckParameter(ThermIntDistSpringConst, isPositive()); |
174 |
|
CheckParameter(ThermIntThetaSpringConst, isPositive()); |
175 |
|
CheckParameter(ThermIntOmegaSpringConst, isPositive()); |
176 |
< |
CheckParameter(SurfaceTension, isNonNegative()); |
176 |
> |
// CheckParameter(SurfaceTension, isNonNegative()); |
177 |
|
CheckParameter(ElectrostaticSummationMethod, isEqualIgnoreCase("NONE") || isEqualIgnoreCase("SHIFTED_POTENTIAL") || isEqualIgnoreCase("SHIFTED_FORCE") || isEqualIgnoreCase("REACTION_FIELD")); |
178 |
|
CheckParameter(ElectrostaticScreeningMethod, isEqualIgnoreCase("UNDAMPED") || isEqualIgnoreCase("DAMPED")); |
179 |
|
CheckParameter(CutoffPolicy, isEqualIgnoreCase("MIX") || isEqualIgnoreCase("MAX") || isEqualIgnoreCase("TRADITIONAL")); |