Class Hierarchy

This inheritance list is sorted roughly, but not completely, alphabetically:

[detail level 12345]

►COpenMD::Utils::Accumulator< T >
COpenMD::Utils::AccumulatorView< PotVecAccumulator >
COpenMD::Utils::AccumulatorView< Vector3dAccumulator >
►COpenMD::Utils::Accumulator< Mat3x3d >
COpenMD::Utils::AccumulatorView< Mat3x3dAccumulator >
►COpenMD::Accumulator< RealType >
COpenMD::Utils::AccumulatorView< RealAccumulator >
►COpenMD::Utils::Accumulator< std::vector< RealType > >
COpenMD::Utils::AccumulatorView< StdVectorAccumulator >
COpenMD::Utils::Accumulator< Vector< RealType, Dim > >
COpenMD::Utils::AccumulatorView< T >
►Cantlr::ANTLRException
►Cantlr::CharStreamException
Cantlr::CharStreamIOException
Cantlr::IOException	Generic IOException used inside support code
►Cantlr::RecognitionException
Cantlr::MismatchedCharException
Cantlr::MismatchedTokenException
Cantlr::NoViableAltException
Cantlr::NoViableAltForCharException
Cantlr::SemanticException
►Cantlr::TokenStreamException	Baseclass for exceptions thrown by classes implementing the TokenStream interface
Cantlr::TokenStreamIOException
Cantlr::TokenStreamRecognitionException	Exception thrown from generated lexers when there's no default error handler specified
Cantlr::TokenStreamRetryException
►Cantlr::AST
Cantlr::ASTNULLType	There is only one instance of this class
►Cantlr::BaseAST
►Cantlr::CommonAST
Cantlr::CommonASTWithHiddenTokens	A CommonAST whose initialization copies hidden token information from the Token used to create a node
Cantlr::ASTArray	ASTArray is a class that allows ANTLR to generate code that can create and initialize an array in one expression, like: (new ASTArray(3))->add(x)->add(y)->add(z)
Cantlr::ASTFactory	AST Super Factory shared by TreeParser and Parser
Cantlr::ASTPair	ASTPair: utility class used for manipulating a pair of ASTs representing the current AST root and current AST sibling
Cantlr::ASTRef
Cantlr::ASTRefCount< T >
Cantlr::ASTRefCount< AST >
Cantlr::ASTRefCount< BaseAST >
COpenMD::AtomInfo
COpenMD::AtomType	AtomType is what OpenMD looks to for unchanging data about an atom
COpenMD::AtomTypeCompare
►COpenMD::BaseAccumulator
COpenMD::Accumulator	Basic Accumulator class for numbers
COpenMD::MatrixAccumulator
COpenMD::PotVecAccumulator
COpenMD::VectorAccumulator
►COpenMD::Utils::BaseAccumulator
COpenMD::Utils::AccumulatorView< Mat3x3dAccumulator >
COpenMD::Utils::AccumulatorView< PotVecAccumulator >
COpenMD::Utils::AccumulatorView< RealAccumulator >
COpenMD::Utils::AccumulatorView< StdVectorAccumulator >
COpenMD::Utils::AccumulatorView< Vector3dAccumulator >
►COpenMD::BaseVisitor
COpenMD::AtomNameVisitor
►COpenMD::BaseAtomVisitor
COpenMD::DefaultAtomVisitor
►COpenMD::ReplacementVisitor	Replaces an atomic object with a collection atomic sites
COpenMD::GBheadVisitor
COpenMD::GBtailVisitor
COpenMD::SSDAtomVisitor
►COpenMD::BaseRigidBodyVisitor
COpenMD::LipidHeadVisitor
COpenMD::RBCOMVisitor
COpenMD::CompositeVisitor
COpenMD::LipidTransVisitor
COpenMD::PrepareVisitor
COpenMD::ReplicateVisitor
COpenMD::WaterTypeVisitor
COpenMD::WrappingVisitor
COpenMD::XYZVisitor
COpenMD::ZConsVisitor
►Cstd::basic_streambuf
COpenMD::basic_teebuf< CharT, Traits >	As a subclass of basic_streambuf, basic_teebuf can operate on multiple stream simultaneously
COpenMD::BendData
COpenMD::BendDataSet
►COpenMD::BendType
COpenMD::CosineBendType	A simple harmonic bend using the cosine of the angle instead of the angle itself:
COpenMD::CosineSeriesBendType	A bend used primarily in UFF that utilizes a Fourier series in terms of the cosine of the bend angle:
COpenMD::CubicBendType
►COpenMD::HarmonicBendType
COpenMD::SDKBendType
COpenMD::UreyBradleyBendType
COpenMD::HarmonicSineBendType	A bend using the square of the sine of the angle instead of the angle itself:
COpenMD::PolynomialBendType	"types/PolynomialBendType.hpp"
COpenMD::QuarticBendType
COpenMD::BendTypeParser
Cantlr::BitSet	A BitSet to replace java.util.BitSet
►COpenMD::BondType	BondType class is responsible for calculating the force and energy of the bond
COpenMD::CubicBondType
COpenMD::FixedBondType	FixedBondType class is responsible for calculating the force and energy of the bond
COpenMD::HarmonicBondType	HarmonicBondType is the basic OpenMD bond type
COpenMD::MorseBondType	MorseBondType is a more realistic bond potential
COpenMD::PolynomialBondType	"types/PolynomialBondType.hpp"
COpenMD::QuarticBondType
COpenMD::ShiftedMieBondType	ShiftedMieBondType is used to correct 1-3 bend interactions in the SDK force field
COpenMD::BondTypeParser
COpenMD::BuckinghamInteractionData
►Cstd::char_traits
COpenMD::Utils::ci_char_traits
COpenMD::CharmmTorsionParameter
►Cantlr ::CharScanner
CMDLexer
CMDLexer
Cantlr::CharScannerLiteralsLess	Functor for the literals map
COpenMD::ChebyshevT	A collection of Chebyshev Polynomials
COpenMD::ChebyshevU	A collection of Chebyshev Polynomials
Cantlr::CircularQueue< T >
Cantlr::CircularQueue< antlr::TokenRefCount >
Cantlr::CircularQueue< int >
Ccmdline_parser_params	The additional parameters to pass to parser functions
►Cantlr ::CommonToken
Cantlr::TokenWithIndex
COpenMD::Communicator< D >
COpenMD::Communicator< Column >
COpenMD::Communicator< Row >
COpenMD::Comparator
►CQuantLib::Constraint	Base constraint class
CQuantLib::BoundaryConstraint	Constraint imposing all arguments to be in [low,high]
CQuantLib::CompositeConstraint	Constraint enforcing both given sub-constraints
CQuantLib::NoConstraint	No constraint
CQuantLib::PositiveConstraint	Constraint imposing positivity to all arguments
COpenMD::ConstraintData
COpenMD::ConstraintElem	An adapter class of StuntDouble which is used at constraint algorithm
COpenMD::ConstraintPair
COpenMD::ConstraintWriter
COpenMD::CubicSpline
►COpenMD::Cuboctahedron	Generates coordinates of atoms inside a Cuboctahedron
COpenMD::RegularCuboctahedron
COpenMD::TruncatedCube
COpenMD::CutoffGroup
►COpenMD::DataHolder
COpenMD::AtomStamp
COpenMD::BendStamp
COpenMD::BondStamp
COpenMD::Component
COpenMD::ConstraintStamp
COpenMD::CutoffGroupStamp
COpenMD::FluctuatingChargeParameters
COpenMD::ForceFieldOptions
COpenMD::FragmentStamp
COpenMD::Globals
COpenMD::InversionStamp
COpenMD::MinimizerParameters
COpenMD::MoleculeStamp
COpenMD::NodesStamp
COpenMD::Perturbations::LightParameters
COpenMD::RNEMD::RNEMDParameters
COpenMD::RestraintStamp
COpenMD::RigidBodyStamp
COpenMD::TorsionStamp
COpenMD::ZConsStamp
COpenMD::DataStorage
►COpenMD::Decahedron	Creates the regular decahedron, Ino decahedron, or truncated (Marks) decahedron structures (depending on the parameters)
COpenMD::CurlingStoneDecahedron
COpenMD::InoDecahedron
COpenMD::RegularDecahedron
COpenMD::DirectionalAdapter
COpenMD::DirectionalAtypeParameters
COpenMD::DistanceFinder
COpenMD::DumpReader
COpenMD::DumpWriter
►COpenMD::DynamicProperty	"applications/dynamicProps/DynamicProperty"
►COpenMD::MultipassCorrFunc< Mat3x3d >
►COpenMD::AutoCorrFunc< Mat3x3d >
►COpenMD::ObjectACF< Mat3x3d >
COpenMD::AngularVelocityAutoOutProductCorrFunc
COpenMD::ForceAutoCorrFunc
COpenMD::TorqueAutoCorrFunc
COpenMD::VelocityAutoOutProductCorrFunc
►COpenMD::SystemACF< Mat3x3d >
COpenMD::ActionCorrFunc
COpenMD::StressCorrFunc
►COpenMD::CrossCorrFunc< Mat3x3d >
►COpenMD::ObjectCCF< Mat3x3d >
COpenMD::AngularVelVelOutProdCorrFunc
COpenMD::ForTorCorrFunc
COpenMD::TorForCorrFunc
COpenMD::VelAngularVelOutProdCorrFunc
►COpenMD::MultipassCorrFunc< RealType >
►COpenMD::AutoCorrFunc< RealType >
►COpenMD::ObjectACF< RealType >
COpenMD::DipoleCorrFunc
COpenMD::FreqFlucCorrFunc	Frequency Fluctuation Correlation Function
COpenMD::RCorrFunc
COpenMD::RCorrFuncR
COpenMD::RCorrFuncZ
COpenMD::ThetaCorrFunc
COpenMD::VCorrFunc
COpenMD::VCorrFuncR
COpenMD::VCorrFuncZ
COpenMD::WCorrFunc
►COpenMD::SystemACF< RealType >
COpenMD::CurrentDensityAutoCorrFunc
COpenMD::SystemDipoleCorrFunc
COpenMD::BondCorrFunc
►COpenMD::CrossCorrFunc< RealType >
►COpenMD::ObjectCCF< RealType >
COpenMD::ChargeKineticCorrFunc
COpenMD::ChargeOrientationCorrFunc
COpenMD::MomAngMomCorrFunc
►COpenMD::MultipassCorrFunc< Vector< RealType, 4 > >
►COpenMD::AutoCorrFunc< Vector< RealType, 4 > >
►COpenMD::MoleculeACF< Vector< RealType, 4 > >
COpenMD::COHZ
►COpenMD::MultipassCorrFunc< Vector3d >
►COpenMD::AutoCorrFunc< Vector3d >
►COpenMD::MoleculeACF< Vector3d >
COpenMD::RotAngleDisplacement
►COpenMD::ObjectACF< Vector3d >
COpenMD::DirectionalRCorrFunc
COpenMD::Displacement
COpenMD::DisplacementZ
COpenMD::LegendreCorrFunc
COpenMD::LegendreCorrFuncZ
COpenMD::MeanDisplacement
►COpenMD::SystemACF< Vector3d >
COpenMD::CollectiveDipoleDisplacement	Calculates the collective dipole displacement function
►COpenMD::CrossCorrFunc< Vector3d >
►COpenMD::SystemCCF< Vector3d >
COpenMD::OnsagerCorrFunc
►COpenMD::MultipassCorrFunc< int >
►COpenMD::CrossCorrFunc< int >
►COpenMD::ObjectCCF< int >
COpenMD::SelectionCorrFunc
►COpenMD::TimeCorrFunc< Mat3x3d >
COpenMD::AutoCorrFunc< Mat3x3d >
COpenMD::CrossCorrFunc< Mat3x3d >
►COpenMD::TimeCorrFunc< RealType >
COpenMD::AutoCorrFunc< RealType >
COpenMD::CrossCorrFunc< RealType >
►COpenMD::HBondJump
COpenMD::HBondJumpR
COpenMD::HBondJumpZ
COpenMD::HBondPersistence
►COpenMD::TimeCorrFunc< Vector< RealType, 4 > >
COpenMD::AutoCorrFunc< Vector< RealType, 4 > >
►COpenMD::TimeCorrFunc< Vector3d >
COpenMD::AutoCorrFunc< Vector3d >
COpenMD::CrossCorrFunc< Vector3d >
►COpenMD::TimeCorrFunc< int >
COpenMD::CrossCorrFunc< int >
►COpenMD::MultipassCorrFunc< T >	Computes a correlation function by scanning a trajectory once to precompute quantities to be correlated
►COpenMD::AutoCorrFunc< T >
COpenMD::MoleculeACF< T >
COpenMD::ObjectACF< T >
COpenMD::SystemACF< T >
►COpenMD::CrossCorrFunc< T >
COpenMD::MoleculeCCF< T >
COpenMD::ObjectCCF< T >
COpenMD::SystemCCF< T >
COpenMD::MPFrameTimeCorrFunc< T >
►COpenMD::TimeCorrFunc< T >	Computes a correlation function by scanning a trajectory once to precompute quantities to be correlated
COpenMD::AutoCorrFunc< T >
COpenMD::CrossCorrFunc< T >
COpenMD::FrameTimeCorrFunc
COpenMD::InteractionTimeCorrFunc
COpenMD::ParticleTimeCorrFunc
COpenMD::DynamicRectMatrix< Real >	Rectangular matrix class
COpenMD::DynamicRectMatrix< RealType >
COpenMD::DynamicVector< Real, Alloc >	Dynamically-sized vector class
COpenMD::DynamicVector< RealType >
COpenMD::EAMAdapter
COpenMD::EAMAtomData
COpenMD::EAMInteractionData
COpenMD::EAMParameters
CJAMA::Eigenvalue< Real >	Computes eigenvalues and eigenvectors of a real (non-complex) matrix
COpenMD::ElectrostaticAtomData
COpenMD::Element
COpenMD::ElementsTable	Periodic Table of the Elements Using element data is a place holder when we lack information about a specific atom type
CQuantLib::EndCriteria	Criteria to end optimization process:
CerrorStruct
►Cstd::exception	STL class
COpenMD::OpenMDException
Cantlr::TokenStreamRewriteEngine::executeOperation
►Cstd::false_type
COpenMD::Utils::details::is_container< typename, typename >
CFilenameObserver
COpenMD::FixedChargeAdapter
COpenMD::FixedChargeAtypeParameters
COpenMD::FluctuatingAtypeParameters
COpenMD::FluctuatingChargeAdapter
COpenMD::FluctuatingChargeAtomData
COpenMD::FluctuatingChargeConstraints
COpenMD::FluctuatingChargeForces
►COpenMD::FluctuatingChargePropagator	Abstract class for propagating fluctuating charge variables
COpenMD::FluctuatingChargeDamped
COpenMD::FluctuatingChargeLangevin
COpenMD::FluctuatingChargeNVE
COpenMD::FluctuatingChargeNVT
►COpenMD::ForceDecomposition	ForceDecomposition is an interface for passing out and collecting information from many processors at various stages of the main non-bonded ForceLoop
COpenMD::ForceMatrixDecomposition
COpenMD::ForceField
►COpenMD::ForceManager	ForceManager is responsible for calculating both the short range (bonded) interactions and long range (non-bonded) interactions
COpenMD::RNEMD::SPFForceManager
►COpenMD::ForceModifier	Abstract class for external ForceModifier classes
COpenMD::LDForceModifier	Force modifier for Langevin Dynamics applying friction and random forces as well as torques
COpenMD::LangevinHullForceModifier	Force modifier for NPT Langevin Hull Dynamics applying friction and random forces as well as torques
COpenMD::MagneticField	Applies a uniform (vector) magnetic field to the system
COpenMD::Perturbations::Light	Applies an EM field representing light to the system
►COpenMD::RestraintForceModifier
COpenMD::ThermoIntegrationForceModifier
COpenMD::UniformField	Applies a uniform (vector) electric field to the system
COpenMD::UniformGradient	Applies a uniform electric field gradient to the system
COpenMD::ZConstraintForceModifier
COpenMD::FrameData	FrameData is a structure for holding system-wide dynamic data about the simulation
►COpenMD::FrameTimeCorrFunc< Mat3x3d >
COpenMD::MomentumCorrFunc
►COpenMD::FrameTimeCorrFunc< RealType >
COpenMD::EnergyCorrFunc
COpenMD::FuncflParameters
COpenMD::GayBerneAdapter
COpenMD::GBAtypeParameters
COpenMD::GBInteractionData
►COpenMD::GenericData	@ class GenericData GenericData.hpp "utils/GenericData.hpp"
COpenMD::AtomData
COpenMD::SimpleTypeData< ElemDataType >	SimpleTypeData class is a POD repository class
COpenMD::VectorTypeData< ElemDataType >
COpenMD::GenericFactory< Object, IdentType, Creator >	GenericFactory is a template based Object Factory Factory pattern is used to define an interface for creating an object
Cgengetopt_args_info	Where the command line options are stored
COpenMD::Grid3D< Elem >
CGrid3d	A generic 3d grid class
COpenMD::Molecule::HBondDonor
►COpenMD::Hull
COpenMD::AlphaHull	Compute alpha complex or alpha shape
COpenMD::ConvexHull
►COpenMD::HullFinder
COpenMD::AlphaHullFinder
COpenMD::HydrodynamicsElement
►COpenMD::HydrodynamicsModel
COpenMD::AnalyticalModel
►COpenMD::ApproximateModel
►COpenMD::BeadModel	References:
COpenMD::AtomicBeadModel
COpenMD::RoughShell
COpenMD::BoundaryElementModel
►COpenMD::HydrodynamicsModelCreator
COpenMD::HydrodynamicsModelBuilder< ConcreteHydrodynamicsModel >
COpenMD::HydrodynamicsModelFactory	Factory pattern and Singleton Pattern are used to define an interface for creating an HydrodynamicsModel
COpenMD::HydroIO
COpenMD::HydroProp	Container for information about the hydrodynamic behavior of objects interacting with surroundings
COpenMD::Icosahedron	Create the Mackay icosahedron structure
CQuantLib::Constraint::Impl	Base class for constraint implementations
COpenMD::ImproperCosineInversionParameter
COpenMD::IndexFinder
COpenMD::IndexListContainer
►Cantlr::InputBuffer	A Stream of characters fed to the lexer from a InputStream that can be rewound via mark()/rewind() methods
Cantlr::CharBuffer	A Stream of characters fed to the lexer from a InputStream that can be rewound via mark()/rewind() methods
Cantlr::CharInputBuffer	CharInputBuffer.hpp provides an InputBuffer for plain character arrays (buffers)
►COpenMD::Integrator	Declaration of the Integrator base class, which all other integrators inherit from
COpenMD::BAOAB	Declaration of the Langevin Dynamics BAOAB Integrator
►COpenMD::VelocityVerletIntegrator
COpenMD::LangevinDynamics
COpenMD::LangevinHullDynamics
►COpenMD::NPT
COpenMD::LangevinPiston	Constant pressure and temperature integrator
COpenMD::NPA	Constant normal pressure and lateral surface area integrator No thermostat!
COpenMD::NPAT	Constant normal pressure and lateral surface area integrator
►COpenMD::NPTf
COpenMD::NPTsz	A utility integrator (much like NPTxyz) but which keeps the relative scaling of x & y fixed
COpenMD::NPTxyz
COpenMD::NPTi
COpenMD::NPrT	Constant normal pressure and lateral surface tension integrator
COpenMD::NgammaT	Constant lateral surface tension integrator
►COpenMD::NVE
COpenMD::SPFDynamics
COpenMD::NVT	Basic thermostating via Hoover, Phys.Rev.A, 1985, Vol
►COpenMD::IntegratorCreator
COpenMD::IntegratorBuilder< ConcreteIntegrator >
COpenMD::IntegratorFactory	Factory pattern and Singleton Pattern are used to define an interface for creating an Integrator
COpenMD::InteractionData	The InteractionData struct
COpenMD::InteractionManager	InteractionManager is responsible for keeping track of the non-bonded interactions (C++)
COpenMD::InversePowerSeriesInteractionData
COpenMD::InversionData
COpenMD::InversionDataSet
►COpenMD::InversionType
COpenMD::HarmonicInversionType	This inversion potential has the form:
►COpenMD::PolynomialInversionType	"types/PolynomialInversionType.hpp"
COpenMD::AmberImproperTorsionType	"types/AmberImproperTorsionType.hpp"
COpenMD::ImproperCosineInversionType	"types/ImproperCosineInversionType.hpp"
COpenMD::InversionTypeParser	"types/InversionTypeParser.hpp"
►Cstd::ios_base	STL class
►Cstd::basic_ios< Char >	STL class
►Cstd::basic_istream< Char >	STL class
COpenMD::ifstrstream	Ifstrstream class provides a stream interface to read data from files
►Cstd::istream	STL class
COpenMD::igzstream
►Cstd::basic_ostream< Char >	STL class
►Cstd::ostream	STL class
COpenMD::ogzstream
►Cstd::ios	STL class
►COpenMD::gzstreambase
COpenMD::igzstream
COpenMD::ogzstream
►COpenMD::Lattice
►COpenMD::CubicLattice
COpenMD::BCCLattice
COpenMD::FCCLattice
COpenMD::SCLattice
►COpenMD::LatticeCreator
COpenMD::LatticeBuilder< ConcreteLattice >
COpenMD::LatticeFactory	Factory pattern and Singleton Pattern are used to define an interface for creating an Lattice
COpenMD::LegendreGauss1d< returnType, argumentType >
►COpenMD::LegendreGauss1d< RealType, RealType >
COpenMD::LegendreGauss1dParams
COpenMD::LegendrePolynomial	A collection of Legendre Polynomials
COpenMD::LennardJonesAdapter
COpenMD::LessThanPeriodicityFunctor
Cantlr::LexerInputState	This object contains the data associated with an input stream of characters
►CQuantLib::LineSearch	Base class for line search
CQuantLib::ArmijoLineSearch	Armijo line search
COpenMD::LJAtypeParameters
COpenMD::LJInteractionData
►Cantlr ::LLkParser
CMDParser
CMDParser
COpenMD::LocalIndexManager	"utils/LocalIndexManager.hpp"
COpenMD::MAWInteractionData
►CMDTokenTypes
CMDLexer
CMDLexer
CMDParser
CMDParser
►CMDTreeParserTokenTypes
CMDTreeParser
CMDTreeParser
COpenMD::RNEMD::MethodFactory
COpenMD::MieInteractionData
COpenMD::Molecule
COpenMD::MoleculeCreator
COpenMD::MoLocator
COpenMD::MomentData
COpenMD::MorseInteractionData
COpenMD::MPITraits< T >
COpenMD::MPITraits< RectMatrix< T, R, C > >
COpenMD::MPITraits< SquareMatrix3< T > >
COpenMD::MPITraits< Vector3< T > >
COpenMD::MPITraits< Vector< T, Dim > >
COpenMD::MSMSFormat
COpenMD::MultipoleAdapter
COpenMD::MultipoleAtypeParameters
COpenMD::NameFinder
►COpenMD::NonBondedInteraction	The basic interface for non-bonded interactions
►COpenMD::ElectrostaticInteraction	The basic interface for electrostatic interactions
COpenMD::Electrostatic
►COpenMD::HydrogenBondingInteraction	The basic interface for hydrogen bonding interactions
COpenMD::Sticky
►COpenMD::MetallicInteraction	The basic interface for metallic interactions
COpenMD::EAM
COpenMD::SC
►COpenMD::VanDerWaalsInteraction	The basic interface for van der Waals interactions
COpenMD::Buckingham
COpenMD::GB
COpenMD::InversePowerSeries
COpenMD::LJ
COpenMD::MAW
COpenMD::Mie
COpenMD::Morse
COpenMD::RepulsivePower
COpenMD::SHAPES
►COpenMD::NonBondedInteractionType	NonBondedInteractionType class is responsible for keeping track of static (unchanging) parameters for explicit non-bonded interactions
COpenMD::BuckinghamInteractionType	BuckinghamInteractionType is one of the basic non-bonded interactions for representing the non-Coulombic contribution in ionic and networked solids like silica and alumina
COpenMD::EAMInteractionType	EAMInteractionType is one of the basic metallic interactions for representing the bonding in metallic solids
COpenMD::InversePowerSeriesInteractionType	InversePowerSeriesInteractionType is a sum of powers in the inverse of r:
COpenMD::LennardJonesInteractionType	LennardJonesInteractionType is one of the basic interaction types
COpenMD::MAWInteractionType	MAWInteractionType (Metal-Angular-Water) is one of the basic Metal-to-NonMetal interaction types
COpenMD::MieInteractionType	MieInteractionType is one of the basic interaction types
COpenMD::MorseInteractionType	MorseInteractionType is one of the basic non-bonded interactions
COpenMD::RepulsivePowerInteractionType	RepulsivePowerInteractionType is one of the basic interaction types
COpenMD::NonBondedInteractionTypeProperties
►CQuantLib::ObjectiveFunction	Objective function abstract class for optimization problem
COpenMD::BoxObjectiveFunction
COpenMD::FluctuatingChargeObjectiveFunction
COpenMD::PotentialEnergyObjectiveFunction
COpenMD::OpenMDBitSet	OpenMDBitSet is a wrapper class of std::vector<bool> to act as a growable std::bitset
►COpenMD::OptimizationCreator
COpenMD::OptimizationBuilder< ConcreteOptimization >
COpenMD::OptimizationFactory	Factory pattern and Singleton Pattern are used to define an interface for creating an Optimization
►CQuantLib::OptimizationMethod	Abstract class for constrained optimization method
►CQuantLib::LineSearchBasedMethod
CQuantLib::BFGS	Broyden-Fletcher-Goldfarb-Shanno algorithm
CQuantLib::ConjugateGradient	Multi-dimensional Conjugate Gradient class
CQuantLib::SteepestDescent	Multi-dimensional steepest-descent class
COpenMD::StaticAnalyser::OutputData
COpenMD::PairList	PairList class maintains a general purpose list of atom pairs using the global indices of the atoms
COpenMD::ParamConstraintFacade< Derived >	This class allows to recognize constraint predicates, so that they can be combined using composition operators
►COpenMD::ParamConstraintFacade< AndParamConstraint< Cons1T, Cons2T > >
COpenMD::AndParamConstraint< Cons1T, Cons2T >
►COpenMD::ParamConstraintFacade< EqualConstraint< T > >
COpenMD::EqualConstraint< T >
►COpenMD::ParamConstraintFacade< EqualIgnoreCaseConstraint >
COpenMD::ContainsConstraint
COpenMD::EqualIgnoreCaseConstraint
►COpenMD::ParamConstraintFacade< EvenConstraint >
COpenMD::EvenConstraint
►COpenMD::ParamConstraintFacade< GreaterThanConstraint< T > >
COpenMD::GreaterThanConstraint< T >
►COpenMD::ParamConstraintFacade< GreaterThanOrEqualTo< T > >
COpenMD::GreaterThanOrEqualTo< T >
►COpenMD::ParamConstraintFacade< LessThanConstraint< T > >
COpenMD::LessThanConstraint< T >
►COpenMD::ParamConstraintFacade< LessThanOrEqualToConstraint< T > >
COpenMD::LessThanOrEqualToConstraint< T >
►COpenMD::ParamConstraintFacade< NegativeConstraint >
COpenMD::NegativeConstraint
►COpenMD::ParamConstraintFacade< NonNegativeConstraint >
COpenMD::NonNegativeConstraint
►COpenMD::ParamConstraintFacade< NonPositiveConstraint >
COpenMD::NonPositiveConstraint
►COpenMD::ParamConstraintFacade< NonZeroConstraint >
COpenMD::NonZeroConstraint
►COpenMD::ParamConstraintFacade< NotEmptyConstraint >
COpenMD::NotEmptyConstraint
►COpenMD::ParamConstraintFacade< NotParamConstraint< ConsT > >
COpenMD::NotParamConstraint< ConsT >
►COpenMD::ParamConstraintFacade< OrParamConstraint< Cons1T, Cons2T > >
COpenMD::OrParamConstraint< Cons1T, Cons2T >
►COpenMD::ParamConstraintFacade< PositiveConstraint >
COpenMD::PositiveConstraint
►COpenMD::ParamConstraintFacade< ZeroConstraint >
COpenMD::ZeroConstraint
►CParameterBase
CParameter< ParamType >
CQuantLib::ParametersTransformation
CParameterTraits< T >
CParameterTraits< bool >
CParameterTraits< int >
CParameterTraits< RealType >
CParameterTraits< std::pair< int, int > >
CParameterTraits< std::string >
CParameterTraits< std::vector< RealType > >
CParameterTraits< unsigned long int >
►Cantlr::Parser	A generic ANTLR parser (LL(k) for k>=1) containing a bunch of utility routines useful at any lookahead depth
Cantlr::LLkParser	An LL(k) parser
Cantlr::ParserInputState	This object contains the data associated with an input stream of tokens
COpenMD::Plan< T >
COpenMD::Plan< int >
COpenMD::Plan< OpenMD::SquareMatrix3 >
COpenMD::Plan< OpenMD::Vector >
COpenMD::Plan< OpenMD::Vector3 >
COpenMD::Plan< RealType >
COpenMD::PolarizableAdapter
COpenMD::PolarizableAtypeParameters
COpenMD::Polynomial< Real >	A generic Polynomial class
COpenMD::Polynomial< RealType >
CQuantLib::Problem	Constrained optimization problem
COpenMD::ProgressBar
COpenMD::PropertyMap	PropertyMap class maintains a list of GenericData
CJAMA::QR< Real >
COpenMD::Utils::RandNumGen	Minimize the interface for the standard library's Mersenne Twister PRNG while maintaining the UniformRandomBitGenerator named requirement
COpenMD::Rattle	Velocity Verlet Constraint Algorithm
COpenMD::RealSphericalHarmonic
COpenMD::RealSymmetricTridiagonal< Real >	Computes eigenvalues and eigenvectors of a real (non-complex) symmetric tridiagonal matrix by the QL method
COpenMD::RectMatrix< Real, Row, Col >	Rectangular matrix class
►COpenMD::RectMatrix< Real, Dim, Dim >
►COpenMD::SquareMatrix< Real, 3 >
COpenMD::SquareMatrix3< Real >
COpenMD::SquareMatrix< Real, Dim >	A square matrix class
►COpenMD::RectMatrix< RealType, Dim, Dim >
►COpenMD::SquareMatrix< RealType, 3 >
COpenMD::SquareMatrix3< RealType >
COpenMD::SquareMatrix< RealType, 6 >
Cantlr::RefCount< T >
Cantlr::RefCount< LexerInputState >
Cantlr::RefCount< ParserInputState >
Cantlr::RefCount< TreeParserInputState >
►COpenMD::Restraint
COpenMD::MolecularRestraint	MolecularRestraint is the restraint (both positional and orientational) for the configuration of a flexible Molecule relative to some reference structure for the same Molecule
COpenMD::ObjectRestraint	ObjectRestraint is the basic harmonic restraint for the degrees of freedom of a StuntDouble
COpenMD::RestReader
COpenMD::RestWriter
COpenMD::Revision
►Cantlr::TokenStreamRewriteEngine::RewriteOperation
Cantlr::TokenStreamRewriteEngine::InsertBeforeOp
►Cantlr::TokenStreamRewriteEngine::ReplaceOp
Cantlr::TokenStreamRewriteEngine::DeleteOp
COpenMD::RMSD
►COpenMD::RNEMD::RNEMD
COpenMD::RNEMD::NIVSMethod
COpenMD::RNEMD::SPFMethod
COpenMD::RNEMD::SwapMethod
COpenMD::RNEMD::VSSMethod
►COpenMD::RotationAlgorithm	Abstract class for rotation
COpenMD::DLM
COpenMD::RPInteractionData
COpenMD::SameSectionParserFunctor
COpenMD::SCAtomData
COpenMD::SCAtypeParameters
COpenMD::SCDElem
COpenMD::SCInteractionData
COpenMD::SDShape
►COpenMD::SectionParser
COpenMD::AtomTypesSectionParser	"io/AtomTypesSectionParser.hpp"
COpenMD::BaseAtomTypesSectionParser	"io/BaseAtomTypesSectionParser.hpp"
COpenMD::BendTypesSectionParser	"io/BendTypesSectionParser.hpp"
COpenMD::BondTypesSectionParser	"io/BondTypesSectionParser.hpp"
COpenMD::ChargeAtomTypesSectionParser
COpenMD::DirectionalAtomTypesSectionParser
COpenMD::EAMAtomTypesSectionParser	"io/EAMAtomTypesSectionParser.hpp"
COpenMD::FluctuatingChargeAtomTypesSectionParser
COpenMD::GayBerneAtomTypesSectionParser
COpenMD::InversionTypesSectionParser	"io/InversionTypesSectionParser.hpp"
COpenMD::LennardJonesAtomTypesSectionParser
COpenMD::MultipoleAtomTypesSectionParser
COpenMD::NonBondedInteractionsSectionParser
COpenMD::OptionSectionParser	"io/OptionSectionParser.hpp"
COpenMD::PolarizableAtomTypesSectionParser
COpenMD::SCAtomTypesSectionParser	"io/SCAtomTypesSectionParser.hpp"
COpenMD::ShapeAtomTypesSectionParser
COpenMD::StickyAtomTypesSectionParser	"io/StickyAtomTypesSectionParser.hpp"
COpenMD::StickyPowerAtomTypesSectionParser	StickyPowerAtomTypesSectionParser.hpp "io/StickyAtomTypesSectionParser.hpp"
COpenMD::TorsionTypesSectionParser	"io/TorsionTypesSectionParser.hpp"
COpenMD::UFFAtomTypesSectionParser
COpenMD::SectionParserContext
COpenMD::SectionParserManager	"io/SectionParserManager.hpp" SectionParserManager maintains a priority list
COpenMD::SelectionCompiler	"selection/SelectionCompiler.hpp"
COpenMD::SelectionEvaluator	"selection/SelectionEvaluator"
COpenMD::SelectionManager
COpenMD::SelectionSet
COpenMD::SelfData	The SelfData struct
►COpenMD::SequentialAnalyzer	"applications/sequentialProps/SequentialAnalyzer"
COpenMD::COMVel
COpenMD::CenterOfMass
COpenMD::ContactAngle1	Calculates the contact angle of a droplet with a surface using a spherical cap approximation for the droplet
COpenMD::ContactAngle2
COpenMD::Equipartition
COpenMD::GCNSeq	Generalized Coordinate Number Sequence
COpenMD::Shake
►COpenMD::Shape
COpenMD::CompositeShape	Combine composite pattern and visitor pattern
COpenMD::Ellipsoid	An ellipsoid in OpenMD is restricted to having two equal equatorial semi-axes
COpenMD::Mesh
COpenMD::Sphere
COpenMD::ShapeAtomType
COpenMD::ShapeBuilder
►COpenMD::shapedLattice	Returns a vector of vector3 position on a lattice truncated
COpenMD::shapedLatticeEllipsoid	Implements an ellipsoid-shaped lattice
COpenMD::shapedLatticePentRod	Implements a spherically-capped rod-shaped lattice
COpenMD::shapedLatticeRod	Implements a spherically-capped rod-shaped lattice
COpenMD::shapedLatticeSpherical	Implements a spherical lattice
►COpenMD::ShortRangeInteraction	A ShortRangeInteraction holds some bookeeping data for bonded interactions (e.g
►COpenMD::Bend
COpenMD::GhostBend
COpenMD::SDKBend
COpenMD::UreyBradleyBend
COpenMD::Bend
COpenMD::Bond
COpenMD::Inversion
►COpenMD::Torsion
COpenMD::GhostTorsion
COpenMD::SimCreator	The only responsibility of SimCreator is to parse the meta-data file and create a SimInfo instance based on the information returned by parser
COpenMD::SimInfo	One of the heavy-weight classes of OpenMD, SimInfo maintains objects and variables relating to the current simulation
COpenMD::SimplePreprocessor
CSimplePreprocessor	A simple preprocessor
COpenMD::Snapshot	Repository storing dynamic data during a Simulation
►COpenMD::SnapshotManager	SnapshotManager class is an abstract class which maintains a series of snapshots
COpenMD::BlockSnapshotManager
COpenMD::SimSnapshotManager	"brains/SimSnapshotManager.hpp"
COpenMD::SPFData
COpenMD::SphericalHarmonic
►COpenMD::StaticAnalyser
►COpenMD::Field< RealType >
COpenMD::ChargeField
COpenMD::DensityField
►COpenMD::Field< Vector3d >
COpenMD::DipoleField
COpenMD::VelocityField
COpenMD::AngleR
COpenMD::AngleR
►COpenMD::BOPofR
COpenMD::FCCOfR
COpenMD::IcosahedralOfR
COpenMD::BondAngleDistribution	BondAngleDistribution
COpenMD::BondOrderParameter	Bond Order Parameter
COpenMD::ChargeDensityZ
COpenMD::ChargeHistogram
COpenMD::ChargeR
COpenMD::ChargeZ
►COpenMD::CoordinationNumber	CoordinationNumber
COpenMD::GCN	Generalized Coordinate Number
COpenMD::SCN	Secondary Coordinate Number
COpenMD::CurrentDensity
COpenMD::DensityHistogram
COpenMD::DensityPlot
COpenMD::Field< T >
COpenMD::HBondGeometric	Hydrogen Bonding statistics using geometric criteria
COpenMD::HBondR	Hydrogen Bonding density binned by r
COpenMD::HBondRvol	Hydrogen Bonding density binned by r
COpenMD::HBondZ	Hydrogen Bonding density binned by z
COpenMD::HBondZvol	Hydrogen Bonding density binned by z
COpenMD::Hxy
COpenMD::MassDensityR
COpenMD::MassDensityZ
COpenMD::MomentumHistogram
►COpenMD::MultiComponentRDF	Multi-Component Radial Distribution Function
COpenMD::KirkwoodBuff
COpenMD::MultipoleSum
COpenMD::NanoLength
COpenMD::NanoVolume
COpenMD::NitrileFrequencyMap
COpenMD::NumberR
COpenMD::NumberZ
►COpenMD::ObjectCount
COpenMD::MoleculeCount
COpenMD::OrderParameterProbZ
COpenMD::P2OrderParameter
►COpenMD::P2R
COpenMD::P2Z
COpenMD::PipeDensity
COpenMD::PositionZ
COpenMD::PotDiff	Potential Energy differences with charges turned off
►COpenMD::RadialDistrFunc	Radial Distribution Function
COpenMD::GofAngle2
COpenMD::GofR
►COpenMD::GofRAngle
COpenMD::GofROmega
COpenMD::GofRTheta
COpenMD::GofRAngle2
COpenMD::GofRZ
COpenMD::GofXyz
COpenMD::GofZ
►COpenMD::Kirkwood
COpenMD::KirkwoodQuadrupoles
COpenMD::TranslationalOrderParamZ	TranslationalOrder ParameterZ
COpenMD::TwoDGofR
COpenMD::RhoR
COpenMD::RhoZ
COpenMD::RippleOP
COpenMD::SCDOrderParameter
►COpenMD::SpatialStatistics
►COpenMD::ShellStatistics
COpenMD::RNEMDR
COpenMD::RNEMDRTheta
►COpenMD::SlabStatistics
COpenMD::DipoleOrientation
COpenMD::RNEMDZ
COpenMD::SurfaceDiffusion
COpenMD::TetrahedralityHBMatrix	Tetrahedrality Hydrogen Bonding Matrix
COpenMD::TetrahedralityParam	Tetrahedrality Parameter
COpenMD::TetrahedralityParamDens	Tetrahedrality ParameterDens
COpenMD::TetrahedralityParamR	Tetrahedrality ParameterR
COpenMD::TetrahedralityParamXYZ	Tetrahedrality Parameter XYZ
COpenMD::TetrahedralityParamZ	Tetrahedrality ParameterZ
COpenMD::VelocityZ
COpenMD::pAngle
COpenMD::Stats
COpenMD::Stats::StatsData
►COpenMD::StatusFunction
COpenMD::DumpStatusFunction
COpenMD::NoStatus	No status
COpenMD::StatWriter	A configurable Statistics Writer
COpenMD::StickyAdapter
COpenMD::StickyAtypeParameters
COpenMD::StickyInteractionData
CSTLContainerTypeData	STL container type generic data which is associated with an id
►Cstd::streambuf
COpenMD::gzstreambuf
COpenMD::StringTokenizer	The string tokenizer class allows an application to break a string into tokens The set of delimiters (the characters that separate tokens) may be specified either at creation time or on a per-token basis
►COpenMD::StuntDouble	"Don't move, or you're dead! Stand up! Captain, we've got them!"
►COpenMD::Atom
COpenMD::DirectionalAtom
COpenMD::Atom
COpenMD::RigidBody
COpenMD::SuttonChenAdapter
CJAMA::SVD< Real >	Singular Value Decomposition
COpenMD::SwitchingFunction
COpenMD::SystemDecomposition	SystemDecomposition is an interface for passing out and collecting information from many processors for use during integration and computation of physical properties
COpenMD::Thermo
►Cantlr::Token	A token is minimally a token type
►Cantlr::CommonToken
Cantlr::CommonHiddenStreamToken
COpenMD::Token
Cantlr::TokenBuffer	A Stream of Token objects fed to the parser from a TokenStream that can be rewound via mark()/rewind() methods
COpenMD::TokenMap
Cantlr::TokenRef
Cantlr::TokenRefCount< T >
Cantlr::TokenRefCount< Token >
►Cantlr::TokenStream	This interface allows any object to pretend it is a stream of tokens
Cantlr::CharScanner	Superclass of generated lexers
►Cantlr::TokenStreamBasicFilter	This object is a TokenStream that passes through all tokens except for those that you tell it to discard
Cantlr::TokenStreamHiddenTokenFilter	This object filters a token stream coming from a lexer or another TokenStream so that only certain token channels get transmitted to the parser
Cantlr::TokenStreamRewriteEngine	This token stream tracks the entire token stream coming from a lexer, but does not pass on the whitespace (or whatever else you want to discard) to the parser
Cantlr::TokenStreamSelector	A token stream MUX (multiplexor) knows about n token streams and can multiplex them onto the same channel for use by token stream consumer like a parser
Cantlr::TokenStreamRewriteEngine::tokenToStream
COpenMD::TorsionData
COpenMD::TorsionDataSet
►COpenMD::TorsionType
COpenMD::CharmmTorsionType	"types/CharmmTorsionType.hpp" These torsion types are defined identically with functional form given in the following paper:
COpenMD::CubicTorsionType
COpenMD::HarmonicTorsionType	These torsion types are defined identically with functional form given in equation 5 in the following paper:
►COpenMD::PolynomialTorsionType	"types/PolynomialTorsionType.hpp"
COpenMD::OplsTorsionType	These torsion types are defined identically with functional form given in the following paper:
COpenMD::TrappeTorsionType	"types/TrappeTorsionType.hpp" These torsion types are defined identically with functional form given in the following paper:
COpenMD::QuarticTorsionType
COpenMD::TorsionTypeParser	"types/TorsionTypeParser.hpp"
Cantlr::CharScanner::Tracer	Tracer class, used when -traceLexer is passed to antlr
Cantlr::Parser::Tracer	Utility class which allows tracing to work even when exceptions are thrown
Cantlr::TreeParser::Tracer	Utility class which allows tracing to work even when exceptions are thrown
COpenMD::TreeNode
►Cantlr ::TreeParser
CMDTreeParser
CMDTreeParser
Cantlr::TreeParser
Cantlr::TreeParserInputState	This object contains the data associated with an input AST
COpenMD::Triangle	Triangle provides geometric data to OpenMD
COpenMD::TriangleQuadrature< NumericReturnType, T >	A class for integrating a function using numerical quadrature over triangular domains
►COpenMD::TriangleQuadratureRule	A "rule" (weights and quadrature points) for computing quadrature over triangular domains
COpenMD::GaussianTriangleQuadratureRule
COpenMD::StrangFixCowperTriangleQuadratureRule
►Cstd::true_type
COpenMD::Utils::details::is_container< T, std::void_t< typename T::value_type, typename T::reference, typename T::const_reference, typename T::iterator, typename T::const_iterator, typename T::difference_type, typename T::size_type, decltype(std::declval< T >().begin()), decltype(std::declval< T >().end()), decltype(std::declval< T >().cbegin()), decltype(std::declval< T >().cend()), decltype(std::declval< T >().max_size()), decltype(std::declval< T >().empty())> >
COpenMD::TypeContainer< ElemType, SIZE >
COpenMD::TypeContainer< AtomType, 1 >
COpenMD::TypeContainer< BendType, 3 >
COpenMD::TypeContainer< BondType, 2 >
COpenMD::TypeContainer< InversionType, 4 >
COpenMD::TypeContainer< NonBondedInteractionType, 2 >
COpenMD::TypeContainer< TorsionType, 4 >
COpenMD::UFFAdapter
COpenMD::UFFAtypeParameters
COpenMD::Vector< Real, Dim >	Fix length vector class
►COpenMD::Vector< int, 3 >
COpenMD::Vector3< int >
►COpenMD::Vector< Real, 2 >
COpenMD::Vector2< Real >
►COpenMD::Vector< Real, 3 >
COpenMD::Vector3< Real >
►COpenMD::Vector< Real, 4 >
COpenMD::Quaternion< Real >	Quaternion is a sort of a higher-level complex number
COpenMD::Vector< Real, 6 >
►COpenMD::Vector< RealType, 3 >
COpenMD::Vector3< RealType >
COpenMD::Vector< RealType, 4 >
COpenMD::Vector< RealType, Dim >
COpenMD::Vector< RealType, N_INTERACTION_FAMILIES >
COpenMD::Velocitizer	Velocity-modifying routines
CWildcard
COpenMD::XYZAtom
COpenMD::XYZFormat
COpenMD::ZconsData
COpenMD::ZConsReader
COpenMD::ZconstraintMol
COpenMD::ZconstraintParam
COpenMD::ZConsWriter
COpenMD::ZhouParameters