Class Hierarchy

Go to the graphical class hierarchy

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

[detail level 1234]

CSSAGES::BasisEvaluator	Calculates the inner product of all the basis functions and the histogram
▼CSSAGES::BasisFunction	Abstract class for all BasisFunction inheritance
CSSAGES::Chebyshev	Defines the class of Chebyshev polynomials
CSSAGES::Fourier	Defines the class of Fourier polynomials
CSSAGES::Legendre	Defines the class of Legendre polynomials
CSSAGES::BasisLUT	Look-up table for basis functions
▼CSSAGES::CollectiveVariable	Abstract class for a collective variable
CSSAGES::ANNCV	ANN (artifical neural network) collective variables
CSSAGES::AlphaRMSDCV	Collective variable to measure alpha helix secondary structure
CSSAGES::AngleCV	Collective variable to calculate angle
CSSAGES::AntiBetaRMSDCV	Collective variable to measure antiparallel beta secondary structure
CSSAGES::BoxVolumeCV	Collective variable on the volume of a box
CSSAGES::GyrationTensorCV	Collective variable on components of the gyration tensor
CSSAGES::MockCV	Mock collective variable for testing purposes
CSSAGES::PairwiseCV	Generalized collective variable based on pairwise properties of atoms
CSSAGES::ParallelBetaRMSDCV	Collective variable to measure parallel beta sheet secondary structure
CSSAGES::ParticleCoordinateCV	Collective variable on a particle coordinate
CSSAGES::ParticlePositionCV	Collective variable on an particle position
CSSAGES::ParticleSeparationCV	Collective variable on the distance between two particles' centers of mass
CSSAGES::RMSDCV	Collective variable to calculate root mean square displacement
CSSAGES::RouseModeCV	Collective variable is a Rouse mode for a polymer chain comprised of N particle groups
CSSAGES::TorsionalCV	Collective variable on the torsion angles
CSSAGES::CVManager	Collective variable manager
▼CSSAGES::EventListener	Base abstract class for listening in to events fired by "Hook"
CSSAGES::Logger	Base class for logging SSAGES data
▼CSSAGES::Method	Interface for Method implementations
CSSAGES::ABF	Adaptive Biasing Force Algorithm
CSSAGES::ANN	Artificial Neural Network Method
CSSAGES::BFS	Basis Function Sampling Algorithm
CSSAGES::CFF	Combined Force Frequency (CFF) Algorithm
▼CSSAGES::ForwardFlux	ForwardFlux sampling method
CSSAGES::DirectForwardFlux	ForwardFlux sampling method
CSSAGES::Meta	"Vanilla" multi-dimensional Metadynamics
▼CSSAGES::StringMethod	String base class for FTS, Swarm, and elastic band
CSSAGES::ElasticBand	Multi-walker Elastic Band
CSSAGES::FiniteTempString	Finite Temperature Spring Method
CSSAGES::Swarm	Swarm of Trajectories String Method
CSSAGES::Umbrella	Umbrella sampling method
▼Cstd::exception	STL class
▼Cstd::runtime_error	STL class
CSSAGES::BuildException	Exception to be thrown when building the Driver fails
CSSAGES::ForwardFlux::FFSConfigID	Nested class to store different FFS Config IDs
▼CSSAGES::GridBase< T >	Base class for Grids
CSSAGES::Grid< T >	Basic Grid
▼CSSAGES::GridBase< double >
CSSAGES::Grid< double >
▼CSSAGES::GridBase< Eigen::VectorXd >
CSSAGES::Grid< Eigen::VectorXd >
▼CSSAGES::GridBase< int >
CSSAGES::Grid< int >
▼CSSAGES::GridBase< std::vector< double > >
CSSAGES::Grid< std::vector< double > >
▼CSSAGES::GridBase< unsigned int >
CSSAGES::Grid< unsigned int >
▼CSSAGES::GridBase< Vector >
CSSAGES::Grid< Vector >
CSSAGES::Grid< T >::GridIterator< R >	Custom Iterator
CSSAGES::Hill	Multidimensional hill
CSSAGES::Hook	Base class for hooks into the simultion engines
CSSAGES::JSONLoader	Class for loading JSON content from files
▼CSSAGES::JSONLoaderPlugin	Abstract class for JSON loader plugins
CSSAGES::IncludePlugin	Class for JSON loader include plugin
CSSAGES::Map	Map for histogram and coefficients
▼CSSAGES::PairwiseKernel	Pairwise kernel base class
CSSAGES::GaussianPK	Gaussian Function
CSSAGES::RationalSwitchPK	Rational Switching Function
CSSAGES::ReadBackbone	Utility class to read protein backbone atoms from a reference file
CSSAGES::ReadFile	Utility class to read file
▼CJson::Requirement	Requirements on input files
CJson::AllOfRequirement	Requires that all of a list of Requirements hold
CJson::AnyOfRequirement	Requires that at least one of a list of Requirements hold
CJson::ArrayRequirement	Array of Requirements
CJson::BooleanRequirement	Requires json value to be of type Bool
CJson::DependencyRequirement	Requires dependencies to be met
CJson::EnumRequirement	Requires entry to be member of an enum
CJson::IntegerRequirement	Requirements on Integer values
CJson::NotRequirement	Requires a given Requirement to fail
CJson::NullRequirement	Requires value to be of type Null
CJson::NumberRequirement	Requirements on a numeric value
CJson::ObjectRequirement	Requirements on an object
CJson::OneOfRequirement	Requires exactly one of a list of Requirements to hold
CJson::StringRequirement	Requirements on strings
CJson::RequirementLoader	Helper class to load Requirement
CSSAGES::ResourceHandler	Class that handles SSAGES resources for a simulation
CSSAGES::Snapshot	Class containing a snapshot of the current simulation in time