ProtoMol - an object-oriented component based framework for Molecular Dynamics simulations.

---

- a -

• AliasMapType : ProtoMol::Configuration

- b -

• BoundaryConditions : ProtoMol::iSGOneAtomPairTwoFull< TBoundaryConditions, TSwitchingFunctionFirst, TNonbondedForceFirst, TSwitchingFunctionSecond, TNonbondedForceSecond, TConstraint >, ProtoMol::iSGOneAtomPairTwo< TBoundaryConditions, TSwitchingFunctionFirst, TNonbondedForceFirst, TSwitchingFunctionSecond, TNonbondedForceSecond, TConstraint >, ProtoMol::iSGOneAtomPairFull< TBoundaryConditions, TSwitchingFunction, TNonbondedForce, TConstraint >, ProtoMol::iSGOneAtomPair< TBoundaryConditions, TSwitchingFunction, TNonbondedForce, TConstraint >, ProtoMol::SemiGenericTopology< TBoundaryConditions >, ProtoMol::OneMollyPairTwo< TBoundaryConditions, TSwitchingFunctionFirst, TNonbondedForceFirst, TSwitchingFunctionSecond, TNonbondedForceSecond >, ProtoMol::OneMollyPair< TBoundaryConditions, TSwitchingFunction, TNonbondedForce >, ProtoMol::OneAtomPairTwoFull< TBoundaryConditions, TSwitchingFunctionFirst, TNonbondedForceFirst, TSwitchingFunctionSecond, TNonbondedForceSecond, TConstraint >, ProtoMol::OneAtomPairTwo< TBoundaryConditions, TSwitchingFunctionFirst, TNonbondedForceFirst, TSwitchingFunctionSecond, TNonbondedForceSecond, TConstraint >, ProtoMol::OneAtomPairFull< TBoundaryConditions, TSwitchingFunction, TNonbondedForce, TConstraint >, ProtoMol::OneAtomPair< TBoundaryConditions, TSwitchingFunction, TNonbondedForce, TConstraint >, ProtoMol::NonbondedCutoffSystemForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffMollyForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffForce< TCellManager, TOneAtomPair, TForce, TImplForce >

- c -

• Cell : ProtoMol::CubicCellManager
• CellListStructure : ProtoMol::CubicCellManager
• CellManager : ProtoMol::Topology< TBoundaryConditions, TCellManager >
• CellPairType : ProtoMol::iSGNonbondedPMEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TInterpolation, TSwitchingFunction >, ProtoMol::iSGNonbondedFullEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TSwitchingFunction >, ProtoMol::NonbondedPMEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TInterpolation, TSwitchingFunction >, ProtoMol::NonbondedMultiGridSystemForce< TBoundaryConditions, TCellManager, TInterpolation, TKernel, direct, correction, smooth >, ProtoMol::NonbondedFullEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TSwitchingFunction >, ProtoMol::NonbondedCutoffSystemForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffMollyForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffForce< TCellManager, TOneAtomPair, TForce, TImplForce >
• char_type : std::stringbuf
• const_iterator : ProtoMol::ArrayCellListStructure, ProtoMol::OutputCollection, ProtoMol::HelpTextFactory, ProtoMol::Factory< Type >, ProtoMol::Configuration, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >
• const_pointer : ProtoMol::ArrayCellListStructure, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >
• const_reference : ProtoMol::ArrayCellListStructure, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >
• Constraint : ProtoMol::Bond::Constraint, ProtoMol::InputValue< TBase, type, constraint >
• Container : ProtoMol::OutputCollection

- d -

• Details : ProtoMol::FactoryTraits< GenericTopology >, ProtoMol::FactoryTraits< Output >, ProtoMol::FactoryTraits< Integrator >, ProtoMol::FactoryTraits< Force >
• difference_type : ProtoMol::ArrayCellListStructure, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >

- e -

• Empty : ProtoMol::ConstraintValueEnum
• Enum : ProtoMol::ExclusionEnum, ProtoMol::ParallelEnum, ProtoMol::ThermostatEnum, ProtoMol::InputPosVelEnum, ProtoMol::ValueEnum, ProtoMol::TimerStatistic, ProtoMol::ConstraintValueEnum, ProtoMol::BSplineEnum, ProtoMol::AbstractEnumType< T, noCase >
• Enumerator : ProtoMol::Topology< TBoundaryConditions, TCellManager >
• EnumeratorType : ProtoMol::iSGNonbondedPMEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TInterpolation, TSwitchingFunction >, ProtoMol::iSGNonbondedFullEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TSwitchingFunction >, ProtoMol::NonbondedPMEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TInterpolation, TSwitchingFunction >, ProtoMol::NonbondedMultiGridSystemForce< TBoundaryConditions, TCellManager, TInterpolation, TKernel, direct, correction, smooth >, ProtoMol::NonbondedFullEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TSwitchingFunction >, ProtoMol::NonbondedCutoffSystemForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffMollyForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffForce< TCellManager, TOneAtomPair, TForce, TImplForce >

- f -

• float4 : ProtoMol::DCDTrajectoryWriter, ProtoMol::DCDTrajectoryReader
• Force : ProtoMol::Force, ProtoMol::ValueEnum

- h -

• Hbond : ProtoMol::PAR::Hbond, ProtoMol::iSGPAR
• HelpTextMapType : ProtoMol::HelpTextFactory
• Hessian : ProtoMol::ReducedHessTraits< CoulombForce >, ProtoMol::ReducedHessTraits< LennardJonesForce >

- i -

• int32 : ProtoMol::DCDTrajectoryWriter, ProtoMol::DCDTrajectoryReader
• int_type : std::stringbuf
• Integrator : ProtoMol::Integrator, ProtoMol::ValueEnum
• iterator : ProtoMol::ArrayCellListStructure, ProtoMol::OutputCollection, ProtoMol::HelpTextFactory, ProtoMol::Configuration, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >

- n -

• Nbfix : ProtoMol::PAR::Nbfix, ProtoMol::iSGPAR
• Negative : ProtoMol::ConstraintValueEnum
• NoConstraints : ProtoMol::ConstraintValueEnum
• NotEmpty : ProtoMol::ConstraintValueEnum
• NotNegative : ProtoMol::ConstraintValueEnum
• NotPositive : ProtoMol::ConstraintValueEnum
• NotZero : ProtoMol::ConstraintValueEnum

- o -

• off_type : std::stringbuf

- p -

• pointer : ProtoMol::ArrayCellListStructure, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >
• pos_type : std::stringbuf
• Positive : ProtoMol::ConstraintValueEnum

- r -

• RealTopologyType : ProtoMol::iSGNonbondedPMEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TInterpolation, TSwitchingFunction >, ProtoMol::iSGNonbondedFullEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TSwitchingFunction >, ProtoMol::NonbondedSimpleFullSystemForce< TOneAtomPair >, ProtoMol::NonbondedPMEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TInterpolation, TSwitchingFunction >, ProtoMol::NonbondedMultiGridSystemForce< TBoundaryConditions, TCellManager, TInterpolation, TKernel, direct, correction, smooth >, ProtoMol::NonbondedFullSystemForce< TOneAtomPair >, ProtoMol::NonbondedFullEwaldSystemForce< TBoundaryConditions, TCellManager, real, reciprocal, correction, TSwitchingFunction >, ProtoMol::NonbondedCutoffSystemForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffMollyForce< TCellManager, TOneAtomPair >, ProtoMol::NonbondedCutoffForce< TCellManager, TOneAtomPair, TForce, TImplForce >
• reference : ProtoMol::ArrayCellListStructure, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >
• RepType : ProtoMol::ValueTraits< ValueType::Force >, ProtoMol::ValueTraits< ValueType::Integrator >, ProtoMol::ValueTraits< std::vector< Real > >, ProtoMol::ValueTraits< Vector3D >, ProtoMol::ValueTraits< bool >, ProtoMol::ValueTraits< Real >, ProtoMol::ValueTraits< unsigned int >, ProtoMol::ValueTraits< int >, ProtoMol::ValueTraits< std::string >

- s -

• size_t : ProtoMol::ArraySize< N >
• size_type : ProtoMol::ArrayCellListStructure, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >

- t -

• T : ProtoMol::iSGIntegrator, ProtoMol::ArrayCellListStructure, ProtoMol::IMD::IMDEnergies
• T1 : ProtoMol::ArrayCellListStructure
• T2 : ProtoMol::ArrayCellListStructure
• TContainer : ProtoMol::ArrayCellListStructure
• TextMapType : ProtoMol::Configuration
• TFactory : ProtoMol::TopologyFactoryDetails, ProtoMol::OutputFactoryDetails, ProtoMol::IntegratorFactoryDetails, ProtoMol::ForceFactoryDetails
• ticks : ProtoMol::Cycles
• Type : Format, ProtoMol::InputValue< TBase, type, constraint >, ProtoMol::Enum2ValueTraits< ValueType::FORCE >, ProtoMol::ValueTraits< ValueType::Force >, ProtoMol::Enum2ValueTraits< ValueType::INTEGRATOR >, ProtoMol::ValueTraits< ValueType::Integrator >, ProtoMol::Enum2ValueTraits< ValueType::VECTOR >, ProtoMol::ValueTraits< std::vector< Real > >, ProtoMol::Enum2ValueTraits< ValueType::VECTOR3D >, ProtoMol::ValueTraits< Vector3D >, ProtoMol::Enum2ValueTraits< ValueType::BOOL >, ProtoMol::ValueTraits< bool >, ProtoMol::Enum2ValueTraits< ValueType::REAL >, ProtoMol::ValueTraits< Real >, ProtoMol::Enum2ValueTraits< ValueType::UINT >, ProtoMol::ValueTraits< unsigned int >, ProtoMol::Enum2ValueTraits< ValueType::INT >, ProtoMol::ValueTraits< int >, ProtoMol::Enum2ValueTraits< ValueType::STRING >, ProtoMol::ValueTraits< std::string >
• type : ProtoMol::Value, ProtoMol::Value::Holder< ValueTrait, Constraint >, ProtoMol::Value::PlaceHolder, ProtoMol::IMD::IMDheader, ProtoMol::TypeSelection::Float< size >, ProtoMol::TypeSelection::Int< size >, ProtoMol::TypeSelection::SelectTypeCheck< A, size >, ProtoMol::TypeSelection::SelectTypeCheckHelper< true, A >, ProtoMol::TypeSelection::SelectType< size, A, B >, ProtoMol::TypeSelection::SelectTypeHelper< true, A, B >, ProtoMol::TypeSelection::SelectTypeHelper< cmp, A, B >, ProtoMol::Molecule, ProtoMol::Atom

- v -

• value_type : ProtoMol::ArrayCellListStructure, ProtoMol::Array< T, N >, ProtoMol::Array< T, N >::RefArray< 1 >, ProtoMol::Array< T, N >::RefArray< N >, ProtoMol::Array< T, N >, ProtoMol::RefArray< T, 1 >, ProtoMol::RefArray< T, N >
• ValueMapType : ProtoMol::Configuration

- z -

• Zero : ProtoMol::ConstraintValueEnum

Last update: . GNU GENERAL PUBLIC LICENSE, copyrighted by the University of Notre Dame and the University of Bergen, Norway.