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* redistribute this software in source and binary code form, provided |
| 7 |
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* that the following conditions are met: |
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* |
| 9 |
< |
* 1. Acknowledgement of the program authors must be made in any |
| 10 |
< |
* publication of scientific results based in part on use of the |
| 11 |
< |
* program. An acceptable form of acknowledgement is citation of |
| 12 |
< |
* the article in which the program was described (Matthew |
| 13 |
< |
* A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher |
| 14 |
< |
* J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented |
| 15 |
< |
* Parallel Simulation Engine for Molecular Dynamics," |
| 16 |
< |
* J. Comput. Chem. 26, pp. 252-271 (2005)) |
| 17 |
< |
* |
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* 2. Redistributions of source code must retain the above copyright |
| 9 |
> |
* 1. Redistributions of source code must retain the above copyright |
| 10 |
|
* notice, this list of conditions and the following disclaimer. |
| 11 |
|
* |
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< |
* 3. Redistributions in binary form must reproduce the above copyright |
| 12 |
> |
* 2. Redistributions in binary form must reproduce the above copyright |
| 13 |
|
* notice, this list of conditions and the following disclaimer in the |
| 14 |
|
* documentation and/or other materials provided with the |
| 15 |
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* distribution. |
| 28 |
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* arising out of the use of or inability to use software, even if the |
| 29 |
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* University of Notre Dame has been advised of the possibility of |
| 30 |
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* such damages. |
| 31 |
+ |
* |
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+ |
* SUPPORT OPEN SCIENCE! If you use OpenMD or its source code in your |
| 33 |
+ |
* research, please cite the appropriate papers when you publish your |
| 34 |
+ |
* work. Good starting points are: |
| 35 |
+ |
* |
| 36 |
+ |
* [1] Meineke, et al., J. Comp. Chem. 26, 252-271 (2005). |
| 37 |
+ |
* [2] Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006). |
| 38 |
+ |
* [3] Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008). |
| 39 |
+ |
* [4] Kuang & Gezelter, J. Chem. Phys. 133, 164101 (2010). |
| 40 |
+ |
* [5] Vardeman, Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011). |
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*/ |
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|
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#ifndef IO_FORCEFIELDOPTIONS_HPP |
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#define IO_FORCEFIELDOPTIONS_HPP |
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#include "utils/simError.h" |
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+ |
#include "types/DataHolder.hpp" |
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#include "utils/ParameterManager.hpp" |
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#include "utils/StringUtils.hpp" |
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#include "io/ParamConstraint.hpp" |
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|
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< |
namespace oopse { |
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> |
namespace OpenMD { |
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|
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< |
class ForceFieldOptions { |
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> |
class ForceFieldOptions : public DataHolder { |
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DeclareParameter(Name, std::string); |
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DeclareParameter(vdWtype, std::string); |
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DeclareParameter(DistanceMixingRule, std::string); |
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DeclareParameter(DistanceType, std::string); |
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DeclareParameter(EnergyMixingRule, std::string); |
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DeclareParameter(EnergyUnitScaling, double); |
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DeclareParameter(DistanceUnitScaling, double); |
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DeclareParameter(AngleUnitScaling, double); |
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> |
DeclareParameter(CutoffPolicy, std::string); |
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> |
DeclareParameter(EnergyUnitScaling, RealType); |
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> |
DeclareParameter(MetallicEnergyUnitScaling, RealType); |
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> |
DeclareParameter(DistanceUnitScaling, RealType); |
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> |
DeclareParameter(AngleUnitScaling, RealType); |
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DeclareParameter(TorsionAngleConvention, std::string); |
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DeclareParameter(vdw14scale, double); |
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DeclareParameter(electrostatic14scale, double); |
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DeclareParameter(dielectric, double); |
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> |
DeclareParameter(vdw12scale, RealType); |
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> |
DeclareParameter(vdw13scale, RealType); |
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> |
DeclareParameter(vdw14scale, RealType); |
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> |
DeclareParameter(electrostatic12scale, RealType); |
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> |
DeclareParameter(electrostatic13scale, RealType); |
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> |
DeclareParameter(electrostatic14scale, RealType); |
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> |
DeclareParameter(GayBerneMu, RealType); |
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> |
DeclareParameter(GayBerneNu, RealType); |
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> |
DeclareParameter(EAMMixingMethod, std::string); |
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|
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public: |
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< |
ForceFieldOptions() { |
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< |
DefineOptionalParameter(Name, "Name"); |
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DefineOptionalParameterWithDefaultValue(vdWtype, "vdWtype", "Lennard-Jones"); |
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< |
DefineOptionalParameterWithDefaultValue(DistanceMixingRule, "DistanceMixingRule", "arithmetic"); |
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DefineOptionalParameterWithDefaultValue(DistanceType, "DistanceType", "sigma"); |
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DefineOptionalParameterWithDefaultValue(EnergyMixingRule, "EnergyMixingRule", "geometric"); |
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DefineOptionalParameterWithDefaultValue(EnergyUnitScaling, "EnergyUnitScaling", 1.0); |
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< |
DefineOptionalParameterWithDefaultValue(DistanceUnitScaling, "DistanceUnitScaling", 1.0); |
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< |
DefineOptionalParameterWithDefaultValue(AngleUnitScaling, "AngleUnitScaling", 1.0); |
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< |
DefineOptionalParameterWithDefaultValue(TorsionAngleConvention, "TorsionAngleConvention", "180 is trans"); |
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DefineOptionalParameterWithDefaultValue(vdw14scale, "vdW-14-scale", 0.0); |
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< |
DefineOptionalParameterWithDefaultValue(electrostatic14scale, "electrostatic-14-scale", 0.0); |
| 78 |
< |
DefineOptionalParameterWithDefaultValue(dielectric, "dielectric", 1.0); |
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} |
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< |
|
| 76 |
> |
ForceFieldOptions(); |
| 77 |
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ForceFieldOptions(const ForceFieldOptions&); |
| 78 |
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ForceFieldOptions& operator = (const ForceFieldOptions&); |
| 79 |
|
|
| 80 |
|
void validateOptions() { |
| 81 |
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CheckParameter(vdWtype, isEqualIgnoreCase(std::string("Lennard-Jones"))); |
| 82 |
< |
CheckParameter(DistanceMixingRule, isEqualIgnoreCase(std::string("arithmetic")) || isEqualIgnoreCase(std::string("geometric"))); |
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> |
CheckParameter(DistanceMixingRule, isEqualIgnoreCase(std::string("arithmetic")) || isEqualIgnoreCase(std::string("geometric")) || isEqualIgnoreCase(std::string("cubic"))); |
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CheckParameter(DistanceType, isEqualIgnoreCase(std::string("sigma")) || isEqualIgnoreCase(std::string("Rmin"))); |
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< |
CheckParameter(EnergyMixingRule, isEqualIgnoreCase(std::string("arithmetic")) || isEqualIgnoreCase(std::string("geometric"))); |
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< |
CheckParameter(TorsionAngleConvention, isEqualIgnoreCase(std::string("180 is trans")) || isEqualIgnoreCase(std::string("0 is trans"))); |
| 86 |
< |
} |
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> |
CheckParameter(EnergyMixingRule, isEqualIgnoreCase(std::string("arithmetic")) || isEqualIgnoreCase(std::string("geometric")) || isEqualIgnoreCase(std::string("hhg"))); |
| 85 |
> |
CheckParameter(TorsionAngleConvention, isEqualIgnoreCase(std::string("180_is_trans")) || isEqualIgnoreCase(std::string("0_is_trans"))); |
| 86 |
> |
CheckParameter(CutoffPolicy, isEqualIgnoreCase(std::string("MIX")) || isEqualIgnoreCase(std::string("MAX")) || isEqualIgnoreCase(std::string("TRADITIONAL"))); |
| 87 |
> |
CheckParameter(EAMMixingMethod, isEqualIgnoreCase(std::string("JOHNSON")) || isEqualIgnoreCase(std::string("DAW"))); |
| 88 |
> |
} |
| 89 |
|
|
| 90 |
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bool setData(const std::string& keyword, const std::string& value) { |
| 91 |
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bool result; |
| 92 |
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ParamMap::iterator i =parameters_.find(keyword); |
| 93 |
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if (i != parameters_.end()) { |
| 94 |
< |
if(isType<int>(value)){ |
| 94 |
> |
if(isInteger(value)){ |
| 95 |
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int ival = lexi_cast<int>(value); |
| 96 |
|
result = i->second->setData(ival); |
| 97 |
|
} |
| 98 |
< |
else if (isType<double>(value)){ |
| 99 |
< |
double dval = lexi_cast<double>(value); |
| 98 |
> |
else if (isType<RealType>(value)){ |
| 99 |
> |
RealType dval = lexi_cast<RealType>(value); |
| 100 |
|
result = i->second->setData(dval); |
| 101 |
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} else{ |
| 102 |
|
result = i->second->setData(value); |
| 103 |
|
} |
| 104 |
+ |
|
| 105 |
+ |
if (!result) { |
| 106 |
+ |
sprintf(painCave.errMsg, |
| 107 |
+ |
"Unrecognized data type for keyword: %s = %s\n", |
| 108 |
+ |
keyword.c_str(), value.c_str() ); |
| 109 |
+ |
painCave.isFatal = 1; |
| 110 |
+ |
simError(); |
| 111 |
+ |
} |
| 112 |
|
} else { |
| 113 |
|
sprintf(painCave.errMsg, "%s is an unrecognized keyword\n", keyword.c_str() ); |
| 114 |
|
painCave.isFatal = 0; |
| 117 |
|
|
| 118 |
|
return result; |
| 119 |
|
} |
| 120 |
< |
|
| 120 |
> |
|
| 121 |
|
private: |
| 122 |
|
typedef std::map<std::string, ParameterBase*> ParamMap; |
| 123 |
|
ParamMap parameters_; |
