Class Hierarchy

Go to the graphical class hierarchy

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

[detail level 12345]

►CGrid::AcceleratorBase
CPLMD::Accelerator< dimension_ >
CPLMD::GridBase::AcceleratorBase	Auxiliary class for accelerating grid calculations
CPLMD::GridBase::AcceleratorHandler	Auxiliary class for managing AcceleratorBase
►CPLMD::Action	Base class for all the input Actions
►CPLMD::ActionAnyorder	Action used to create a PLMD::Action that can go both before and after ActionSetup actions
CPLMD::GenericMolInfo
CPLMD::generic::Include	Provides the keyword INCLUDE
CPLMD::setup::Load	Provides the keyword LOAD
►CPLMD::ActionAtomistic	Action used to create objects that access the positions of the atoms from the MD code
►CPLMD::ActionWithVector
CPLMD::adjmat::Neighbors< OneLowInput >
CPLMD::adjmat::Neighbors< NLowInput >
CPLMD::adjmat::Neighbors< OneHighInput >
CPLMD::adjmat::Neighbors< NHighInput >
CPLMD::colvar::MultiColvarTemplate< Angle >
CPLMD::colvar::MultiColvarTemplate< DihedralCorrelation >
CPLMD::colvar::MultiColvarTemplate< Dipole >
CPLMD::colvar::MultiColvarTemplate< Distance >
CPLMD::colvar::MultiColvarTemplate< Plane >
CPLMD::colvar::MultiColvarTemplate< Position >
CPLMD::colvar::MultiColvarTemplate< Torsion >
CPLMD::colvar::MultiColvarTemplate< Quaternion >
CPLMD::function::FunctionOfMatrix< Between >
CPLMD::function::FunctionOfMatrix< Combine >
CPLMD::function::FunctionOfMatrix< Custom >
CPLMD::function::FunctionOfMatrix< LessThan >
CPLMD::function::FunctionOfMatrix< MoreThan >
CPLMD::function::FunctionOfMatrix< CylindricalHarmonic >
CPLMD::function::FunctionOfMatrix< Fccubic >
CPLMD::function::FunctionOfMatrix< SphericalHarmonic >
CPLMD::function::FunctionOfVector< Bessel >
CPLMD::function::FunctionOfVector< Between >
CPLMD::function::FunctionOfVector< Combine >
CPLMD::function::FunctionOfVector< Custom >
CPLMD::function::FunctionOfVector< Highest >
CPLMD::function::FunctionOfVector< LessThan >
CPLMD::function::FunctionOfVector< Moments >
CPLMD::function::FunctionOfVector< MoreThan >
CPLMD::function::FunctionOfVector< Sort >
CPLMD::function::FunctionOfVector< EvaluateGridFunction >
CPLMD::function::FunctionOfVector< Difference >
CPLMD::matrixtools::MatrixTimesVectorBase< MatrixTimesVectorRowSums >
CPLMD::matrixtools::MatrixTimesVectorBase< MatrixTimesVectorProper >
CPLMD::secondarystructure::SecondaryStructureBase< SecondaryStructureDRMSDInput >
CPLMD::volumes::ActionVolume< VolumeAround >
CPLMD::volumes::ActionVolume< VolumeInEnvelope >
CPLMD::volumes::ActionVolume< VolumeCavity >
CPLMD::volumes::ActionVolume< VolumeInCylinder >
CPLMD::volumes::ActionVolume< VolumeInSphere >
CPLMD::volumes::ActionVolume< VolumeTetrapore >
►CPLMD::ActionWithMatrix
CPLMD::adjmat::AdjacencyMatrixBase< BridgeMatrix >
CPLMD::adjmat::AdjacencyMatrixBase< ContactMatrix >
CPLMD::adjmat::AdjacencyMatrixBase< DistanceMatrix >
CPLMD::adjmat::AdjacencyMatrixBase< HbondMatrix >
CPLMD::adjmat::AdjacencyMatrixBase< TopologyMatrix >
CPLMD::adjmat::AdjacencyMatrixBase< HBPammMatrix >
CPLMD::matrixtools::MatrixTimesMatrix< MatrixProduct >
CPLMD::matrixtools::MatrixTimesMatrix< Dissimilarities >
CPLMD::matrixtools::OuterProductBase< QuaternionProductMatrix >
CPLMD::matrixtools::OuterProductBase< OutputProductMin >
CPLMD::matrixtools::OuterProductBase< OutputProductMax >
CPLMD::matrixtools::OuterProductBase< OutputProductFunc >
CPLMD::adjmat::AdjacencyMatrixBase< T >
CPLMD::adjmat::TorsionsMatrix	Provides the keyword TORSIONS_MATRIX
CPLMD::matrixtools::MatrixTimesMatrix< T >
CPLMD::matrixtools::OuterProductBase< T >
CPLMD::adjmat::Neighbors< T >
CPLMD::colvar::MultiColvarTemplate< T >
CPLMD::colvar::RMSDVector	Provides the keyword RMSD_VECTOR
CPLMD::contour::FindContour	Provides the keyword FIND_CONTOUR
CPLMD::crystdistrib::QuaternionBondProductMatrix	Provides the keyword QUATERNION_BOND_PRODUCT_MATRIX
CPLMD::dimred::ProjectPoints	Provides the keyword PROJECT_POINTS
CPLMD::function::FunctionOfMatrix< T >
CPLMD::function::FunctionOfVector< T >
►CPLMD::gridtools::ActionWithGrid
CPLMD::gridtools::FunctionOfGrid< function::Custom >
CPLMD::gridtools::KDE< DiagonalKernelParams, DiscreteKernel, KDEGridTools< DiagonalKernelParams, DiscreteKernel > >
CPLMD::gridtools::KDE< DiagonalKernelParams, HistogramBeadKernel, KDEGridTools< DiagonalKernelParams, HistogramBeadKernel > >
CPLMD::gridtools::KDE< DiagonalKernelParams, RegularKernel< DiagonalKernelParams >, KDEGridTools< DiagonalKernelParams, RegularKernel< DiagonalKernelParams > > >
CPLMD::gridtools::KDE< VonMissesKernelParams, UniversalVonMisses, SphericalKDEGridTools >
CPLMD::gridtools::KDE< NonDiagonalKernelParams, RegularKernel< NonDiagonalKernelParams >, KDEGridTools< NonDiagonalKernelParams, RegularKernel< NonDiagonalKernelParams > > >
CPLMD::contour::FindContourSurface	Provides the keyword FIND_CONTOUR_SURFACE
CPLMD::contour::FindSphericalContour	Provides the keyword FIND_SPHERICAL_CONTOUR
CPLMD::fourier::FourierTransform	Provides the keyword FOURIER_TRANSFORM
CPLMD::gridtools::FunctionOfGrid< T >
CPLMD::gridtools::InterpolateGrid	Provides the keyword INTERPOLATE_GRID
CPLMD::gridtools::KDE< K, P, G >
CPLMD::gridtools::Marginal	Provides the keyword MARGINAL
CPLMD::gridtools::ReadGridInSetup	Provides the keyword REFERENCE_GRID
CPLMD::mapping::GeometricPath	Provides the keyword GEOMETRIC_PATH
CPLMD::matrixtools::MatrixTimesVectorBase< T >
CPLMD::refdist::MatrixProductDiagonal	Provides the keyword MATRIX_PRODUCT_DIAGONAL
CPLMD::secondarystructure::SecondaryStructureBase< T >	Base action for calculating things like AlphRMSD, AntibetaRMSD, etc
CPLMD::symfunc::ThreeBodyGFunctions	Provides the keyword GSYMFUNC_THREEBODY
CPLMD::volumes::ActionVolume< T >	This is the abstract base class to use for implementing a new way of defining a particular region of the simulation box
►CPLMD::ActionWithVirtualAtom	Inherit from here if you are calculating the position of a virtual atom (eg a center of mass)
CPLMD::vatom::Center	Provides the keyword CENTER_FAST
CPLMD::vatom::FixedAtom	Provides the keyword FIXEDATOM
CPLMD::vatom::Ghost	Provides the keyword GHOST
►CPLMD::Colvar	This is the abstract base class to use for implementing new collective variables, within it there is information as to how to go about implementing a new CV
CPLMD::colvar::Angle	Provides the keyword ANGLE_SCALAR
CPLMD::colvar::Cell	Provides the keyword CELL
CPLMD::colvar::ColvarFake	Provides the keyword FAKE
CPLMD::colvar::ContactMap	Provides the keyword CONTACTMAP
►CPLMD::colvar::CoordinationBase
CPLMD::colvar::Coordination	Provides the keyword COORDINATION
CPLMD::colvar::DHEnergy	Provides the keyword DHENERGY
CPLMD::colvar::GHBFIX	Provides the keyword GHBFIX
CPLMD::colvar::DihedralCorrelation	Provides the keyword DIHEDRAL_CORRELATION_SCALAR
CPLMD::colvar::Dimer	Provides the keyword <a href="../../user-doc/html/_"_d_i_m_e_r.html"> "DIMER
CPLMD::colvar::Dipole	Provides the keyword DIPOLE_SCALAR
CPLMD::colvar::Distance	Provides the keyword DISTANCE_SCALAR
CPLMD::colvar::EEFSolv	Provides the keyword EEFSOLV
CPLMD::colvar::ERMSD	Provides the keyword ERMSD
CPLMD::colvar::Gyration	Provides the keyword GYRATION_FAST
CPLMD::colvar::PCARMSD	Provides the keyword PCARMSD
►CPLMD::colvar::PathMSDBase
CPLMD::colvar::PathMSD	Provides the keyword PATHMSD
CPLMD::colvar::PropertyMap	Provides the keyword PROPERTYMAP
CPLMD::colvar::Plane	Provides the keyword PLANE_SCALAR
CPLMD::colvar::Position	Provides the keyword POSITION_SCALAR
CPLMD::colvar::ProjectionOnAxis	Provides the keyword PROJECTION_ON_AXIS
CPLMD::colvar::Puckering	Provides the keyword PUCKERING
CPLMD::colvar::RMSD	Provides the keyword RMSD_SCALAR
CPLMD::colvar::Template	Provides the keyword TEMPLATE
CPLMD::colvar::Torsion	Provides the keyword TORSION_SCALAR
CPLMD::colvar::Volume	Provides the keyword VOLUME
CPLMD::crystdistrib::Quaternion	Provides the keyword QUATERNION_SCALAR
CPLMD::funnel::FUNNEL_PS	Provides the keyword FUNNEL_PS
CPLMD::isdb::BAIES	Provides the keyword BAIES
CPLMD::isdb::FretEfficiency	Provides the keyword FRET
CPLMD::isdb::Shadow	Provides the keyword SHADOW
CPLMD::maze::Loss	Provides the keyword <a href="../../user-doc/html/_"_m_a_z_e__l_o_s_s.html"> "MAZE_LOSS
►CPLMD::maze::Optimizer	Base class for implementing optimizers for ligand unbinding
CPLMD::maze::Memetic	Provides the keyword <a href="../../user-doc/html/_"_m_a_z_e__m_e_m_e_t_i_c__s_a_m_p_l_i_n_g.html"> "MAZE_MEMETIC_SAMPLING
CPLMD::maze::Random_Acceleration_MD	Provides the keyword <a href="../../user-doc/html/_"_m_a_z_e__r_a_n_d_o_m__a_c_c_e_l_e_r_a_t_i_o_n__m_d.html"> "MAZE_RANDOM_ACCELERATION_MD
CPLMD::maze::Random_Walk	Provides the keyword <a href="../../user-doc/html/_"_m_a_z_e__r_a_n_d_o_m__w_a_l_k.html"> "MAZE_RANDOM_WALK
CPLMD::maze::Simulated_Annealing	Provides the keyword <a href="../../user-doc/html/_"_m_a_z_e__s_i_m_u_l_a_t_e_d__a_n_n_e_a_l_i_n_g.html"> "MAZE_SIMULATED_ANNEALING
CPLMD::maze::Steered_MD	Provides the keyword <a href="../../user-doc/html/_"_m_a_z_e__s_t_e_e_r_e_d__m_d.html"> "MAZE_STEERED_MD
CPLMD::membranefusion::fusionPoreExpansionP	Provides the keyword <a href="../../user-doc/html/_"_f_u_s_i_o_n_p_o_r_e_e_x_p_a_n_s_i_o_n_p.html"> "FUSIONPOREEXPANSIONP
CPLMD::membranefusion::fusionPoreNucleationP	Provides the keyword <a href="../../user-doc/html/_"_f_u_s_i_o_n_p_o_r_e_n_u_c_l_e_a_t_i_o_n_p.html"> "FUSIONPORENUCLEATIONP
CPLMD::membranefusion::memFusionP	Provides the keyword <a href="../../user-doc/html/_"_m_e_m_f_u_s_i_o_n_p.html"> "MEMFUSIONP
CPLMD::piv::PIV	Provides the keyword PIV
CPLMD::s2cm::S2ContactModel	Provides the keyword S2CM
CPLMD::sasa::SASA_HASEL	Provides the keyword SASA_HASEL
CPLMD::sasa::SASA_LCPO	Provides the keyword SASA_LCPO
CPLMD::sizeshape::position_linear_proj	Provides the keyword <a href="../../user-doc/html/_"_s_i_z_e_s_h_a_p_e__p_o_s_i_t_i_o_n__l_i_n_e_a_r__p_r_o_j.html"> "SIZESHAPE_POSITION_LINEAR_PROJ
CPLMD::sizeshape::position_maha_dist	Provides the keyword SIZESHAPE_POSITION_MAHA_DIST
CPLMD::GenericMolInfo
CPLMD::Group	Provides the keyword GROUP
CPLMD::colvar::SelectMassCharge	Provides the keyword MASS
►CPLMD::contour::DistanceFromContourBase
CPLMD::contour::DistanceFromContour	Provides the keyword DISTANCE_FROM_CONTOUR
CPLMD::contour::DistanceFromSphericalContour	Provides the keyword DISTANCE_FROM_SPHERICAL_CONTOUR
CPLMD::generic::DumpAtoms	Provides the keyword DUMPATOMS
CPLMD::generic::DumpMassCharge	Provides the keyword DUMPMASSCHARGE
CPLMD::generic::FitToTemplate	Provides the keyword FIT_TO_TEMPLATE
CPLMD::generic::Plumed	Provides the keyword PLUMED
CPLMD::generic::PrintNDX	Provides the keyword PRINT_NDX
CPLMD::generic::ResetCell	Provides the keyword RESET_CELL
CPLMD::generic::WholeMolecules	Provides the keyword WHOLEMOLECULES
CPLMD::generic::WrapAround	Provides the keyword WRAPAROUND
CPLMD::isdb::EMMI	Provides the keyword EMMI
►CPLMD::isdb::MetainferenceBase	This is the abstract base class to use for implementing new ISDB Metainference actions, within it there is information as to how to go about implementing a new Metainference action
CPLMD::isdb::CS2Backbone	Provides the keyword CS2BACKBONE
CPLMD::isdb::JCoupling	Provides the keyword <a href="../../user-doc/html/_"_j_c_o_u_p_l_i_n_g.html"> "JCOUPLING
CPLMD::isdb::NOE	Provides the keyword NOE
CPLMD::isdb::PRE	Provides the keyword PRE
CPLMD::isdb::RDC	Provides the keyword RDC
CPLMD::isdb::SAXS	Provides the keyword SAXS
CPLMD::metatomic::MetatomicPlumedAction	Provides the keyword <a href="../../user-doc/html/_"_m_e_t_a_t_o_m_i_c.html"> "METATOMIC
►CPLMD::ActionPilot	This is used to create PLMD::Action objects that are run with some set frequency
CPLMD::ActionToGetData	Provides the keyword GET
CPLMD::GenericMolInfo
►CPLMD::bias::Bias	This is the abstract base class to use for implementing new simulation biases, within it there is information as to how to go about implementing a new bias
CPLMD::opes::OPESmetad< convergence >
CPLMD::opes::OPESmetad< exploration >
CPLMD::bias::ABMD	Provides the keyword ABMD
CPLMD::bias::BiasValue	Provides the keyword BIASVALUE
CPLMD::bias::ExtendedLagrangian	Provides the keyword EXTENDED_LAGRANGIAN
CPLMD::bias::External	Provides the keyword EXTERNAL
CPLMD::bias::LWalls	Provides the keyword LOWER_WALLS_SCALAR
CPLMD::bias::MaxEnt	Provides the keyword MAXENT
CPLMD::bias::MetaD	Provides the keyword METAD
CPLMD::bias::MovingRestraint	Provides the keyword MOVINGRESTRAINT
CPLMD::bias::PBMetaD	Provides the keyword PBMETAD
CPLMD::bias::Restraint	Provides the keyword RESTRAINT_SCALAR
CPLMD::bias::UWalls	Provides the keyword UPPER_WALLS_SCALAR
CPLMD::eds::EDS	Provides the keyword <a href="../../user-doc/html/_"_e_d_s.html"> "EDS
CPLMD::fisst::FISST	Provides the keyword FISST
CPLMD::funnel::Funnel	Provides the keyword FUNNEL
CPLMD::isdb::Caliber	Provides the keyword CALIBER
CPLMD::isdb::Metainference	Provides the keyword METAINFERENCE
CPLMD::isdb::Rescale	Provides the keyword RESCALE
CPLMD::logmfd::LogMFD	Class for LogMFD parameters, variables and subroutines
CPLMD::maze::OptimizerBias	Provides the keyword <a href="../../user-doc/html/_"_m_a_z_e__o_p_t_i_m_i_z_e_r__b_i_a_s.html"> "MAZE_OPTIMIZER_BIAS
CPLMD::opes::OPESexpanded	Provides the keyword OPES_EXPANDED
CPLMD::opes::OPESmetad< mode >
►CPLMD::ves::VesBias	Abstract base class for implementing biases the extents the normal Bias.h class to include functions related to the variational approach
CPLMD::ves::VesLinearExpansion	Provides the keyword VES_LINEAR_EXPANSION
CPLMD::ves::VesDeltaF	Provides the keyword VES_DELTA_F
CPLMD::contour::DumpContour	Provides the keyword DUMPCONTOUR
CPLMD::generic::Accumulate	Provides the keyword ACCUMULATE
CPLMD::generic::Collect	Provides the keyword COLLECT
CPLMD::generic::Committor	Provides the keyword COMMITTOR
CPLMD::generic::Debug	Provides the keyword DEBUG
CPLMD::generic::DumpAtoms	Provides the keyword DUMPATOMS
CPLMD::generic::DumpDerivatives	Provides the keyword DUMPDERIVATIVES
CPLMD::generic::DumpForces	Provides the keyword DUMPFORCES
CPLMD::generic::DumpMassCharge	Provides the keyword DUMPMASSCHARGE
CPLMD::generic::DumpPDB	Provides the keyword DUMPPDB
CPLMD::generic::DumpProjections	Provides the keyword DUMPPROJECTIONS
CPLMD::generic::DumpVector	Provides the keyword DUMPVECTOR
CPLMD::generic::EffectiveEnergyDrift	Provides the keyword EFFECTIVE_ENERGY_DRIFT
CPLMD::generic::FitToTemplate	Provides the keyword FIT_TO_TEMPLATE
CPLMD::generic::Flush	Provides the keyword FLUSH
CPLMD::generic::Plumed	Provides the keyword PLUMED
CPLMD::generic::Print	Provides the keyword PRINT
CPLMD::generic::PrintNDX	Provides the keyword PRINT_NDX
CPLMD::generic::Read	Provides the keyword READ
CPLMD::generic::ResetCell	Provides the keyword RESET_CELL
CPLMD::generic::UpdateIf	Provides the keyword UPDATE_IF
CPLMD::generic::WholeMolecules	Provides the keyword WHOLEMOLECULES
CPLMD::generic::WrapAround	Provides the keyword WRAPAROUND
CPLMD::gridtools::DumpGrid	Provides the keyword DUMPCUBE
CPLMD::mapping::PathDisplacements	Provides the keyword AVERAGE_PATH_DISPLACEMENT
CPLMD::mapping::PathReparameterization	Provides the keyword REPARAMETERIZE_PATH
►CPLMD::ves::Optimizer
CPLMD::ves::Opt_Adam	Provides the keyword OPT_ADAM
CPLMD::ves::Opt_BachAveragedSGD	Provides the keyword OPT_AVERAGED_SGD
CPLMD::ves::Opt_Dummy	Provides the keyword OPT_DUMMY
CPLMD::ves::Opt_RobbinsMonroSGD	Provides the keyword OPT_ROBBINS_MONRO_SGD
►CPLMD::ActionSetup	Action used to create a PLMD::Action that do something during setup only e.g
CPLMD::setup::Restart	Provides the keyword RESTART
CPLMD::setup::Units	Provides the keyword UNITS
►CPLMD::ActionShortcut	Action used to create a command that expands to multiple PLMD::Action commands when read in during input
CPLMD::colvar::ColvarShortcut< Angle >
CPLMD::colvar::ColvarShortcut< DihedralCorrelation >
CPLMD::colvar::ColvarShortcut< Dipole >
CPLMD::colvar::ColvarShortcut< Distance >
CPLMD::colvar::ColvarShortcut< Plane >
CPLMD::colvar::ColvarShortcut< Position >
CPLMD::colvar::ColvarShortcut< Torsion >
CPLMD::colvar::ColvarShortcut< Quaternion >
CPLMD::function::FunctionShortcut< Bessel >
CPLMD::function::FunctionShortcut< Between >
CPLMD::function::FunctionShortcut< Combine >
CPLMD::function::FunctionShortcut< Custom >
CPLMD::function::FunctionShortcut< Highest >
CPLMD::function::FunctionShortcut< LessThan >
CPLMD::function::FunctionShortcut< Moments >
CPLMD::function::FunctionShortcut< MoreThan >
CPLMD::function::FunctionShortcut< Piecewise >
CPLMD::function::FunctionShortcut< Sort >
CPLMD::function::FunctionShortcut< Difference >
CPLMD::function::FunctionShortcut< CylindricalHarmonic >
CPLMD::function::FunctionShortcut< Fccubic >
CPLMD::function::FunctionShortcut< SphericalHarmonic >
CPLMD::volumes::VolumeShortcut< glob_around >
CPLMD::volumes::VolumeShortcut< glob_contours >
CPLMD::volumes::VolumeShortcut< glob_cavity >
CPLMD::volumes::VolumeShortcut< glob_cylinder >
CPLMD::volumes::VolumeShortcut< glob_sphere >
CPLMD::volumes::VolumeShortcut< glob_tetrapore >
CPLMD::adjmat::Bridge	Provides the keyword BRIDGE
CPLMD::adjmat::ContactMatrixShortcut	Provides the keyword CONTACT_MATRIX
CPLMD::adjmat::NeighborsShortcut	Provides the keyword NEIGHBORS
CPLMD::bias::RestraintShortcut	Provides the keyword RESTRAINT
CPLMD::bias::Walls	Provides the keyword UPPER_WALLS
CPLMD::clusters::ClusterDiameter	Provides the keyword CLUSTER_DIAMETER
CPLMD::clusters::ClusterDistributionShortcut	Provides the keyword CLUSTER_DISTRIBUTION
CPLMD::clusters::ClusterNatoms	Provides the keyword CLUSTER_NATOMS
CPLMD::clusters::ClusterProperties	Provides the keyword CLUSTER_PROPERTIES
CPLMD::clusters::ClusterWithSurface	Provides the keyword CLUSTER_WITHSURFACE
CPLMD::clusters::OutputCluster	Provides the keyword OUTPUT_CLUSTER
CPLMD::colvar::ColvarShortcut< T >
CPLMD::colvar::DRMSD	Provides the keyword DRMSD
CPLMD::colvar::ExtraCV	Provides the keyword EXTRACV
CPLMD::colvar::GyrationShortcut	Provides the keyword GYRATION
CPLMD::colvar::MultiRMSD	Provides the keyword MULTI_RMSD
CPLMD::colvar::RMSDShortcut	Provides the keyword RMSD
CPLMD::crystdistrib::BopsShortcut	Provides the keyword BOPS
CPLMD::crystdistrib::DopsShortcut	Provides the keyword DOPS
CPLMD::crystdistrib::RopsShortcut	Provides the keyword ROPS
CPLMD::dimred::ClassicalMultiDimensionalScaling	Provides the keyword CLASSICAL_MDS
CPLMD::dimred::PCA	Provides the keyword PCA
CPLMD::dimred::SketchMap	Provides the keyword SKETCHMAP
CPLMD::dimred::SketchMapProjection	Provides the keyword SKETCHMAP_PROJECTION
CPLMD::envsim::EnvironmentSimilarity	Provides the keyword ENVIRONMENTSIMILARITY
CPLMD::function::FunctionShortcut< T >
CPLMD::function::Product	Provides the keyword PRODUCT
CPLMD::generic::Average	Provides the keyword AVERAGE
CPLMD::generic::MassChargeInput	Provides the keyword READMASSCHARGE
CPLMD::generic::Ones	Provides the keyword ONES
CPLMD::generic::PDB2Constant	Provides the keyword PDB2CONSTANT
CPLMD::gridtools::ConvertToFES	Provides the keyword CONVERT_TO_FES
CPLMD::gridtools::EvaluateFunctionOnGrid	Provides the keyword EVALUATE_FUNCTION_FROM_GRID
CPLMD::gridtools::Gradient	Provides the keyword GRADIENT
CPLMD::gridtools::Histogram	Provides the keyword HISTOGRAM
CPLMD::gridtools::IntegrateGrid	Provides the keyword INTEGRATE_GRID
CPLMD::gridtools::KDEShortcut	Provides the keyword KDE
CPLMD::gridtools::KLEntropy	Provides the keyword KL_ENTROPY
CPLMD::gridtools::MultiColvarDensity	Provides the keyword MULTICOLVARDENS
CPLMD::gridtools::PairEntropy	Provides the keyword PAIRENTROPY
CPLMD::gridtools::RDF	Provides the keyword RDF
CPLMD::landmarks::CollectFrames	Provides the keyword COLLECT_FRAMES
CPLMD::landmarks::LandmarkSelection	Provides the keyword LANDMARK_SELECT_STRIDE
CPLMD::landmarks::LogSumExp	Provides the keyword LOGSUMEXP
CPLMD::liquid_crystal::FerroNematicOrder	Provides the keyword FERRONEMATIC_ORDER
CPLMD::liquid_crystal::NematicOrder	Provides the keyword NEMATIC_ORDER
CPLMD::mapping::AdaptivePath	Provides the keyword ADAPTIVE_PATH
CPLMD::mapping::GeometricPathShortcut	Provides the keyword GPATH
CPLMD::mapping::PCAVars	Provides the keyword PCAVARS
CPLMD::mapping::Path	Provides the keyword PATH
CPLMD::matrixtools::CovarianceMatrix	Provides the keyword COVARIANCE_MATRIX
CPLMD::matrixtools::Determinant	Provides the keyword DETERMINANT
CPLMD::matrixtools::MatrixTimesVector	Provides the keyword MATRIX_VECTOR_PRODUCT
CPLMD::matrixtools::OuterProduct	Provides the keyword OUTER_PRODUCT
CPLMD::matrixtools::Voronoi	Provides the keyword VORONOI
CPLMD::multicolvar::AlphaBeta	Provides the keyword ALPHABETA
CPLMD::multicolvar::Angles	Provides the keyword ANGLES
CPLMD::multicolvar::CoordAngles	Provides the keyword COORD_ANGLES
CPLMD::multicolvar::Dihcor	Provides the keyword DIHCOR
CPLMD::multicolvar::Distances	Provides the keyword DISTANCES
CPLMD::multicolvar::DumpMultiColvar	Provides the keyword DUMPMULTICOLVAR
CPLMD::multicolvar::InPlaneDistances	Provides the keyword INPLANEDISTANCES
CPLMD::multicolvar::MFilterLess	Provides the keyword MFILTER_LESS
CPLMD::multicolvar::MFilterMore	Provides the keyword MFILTER_MORE
CPLMD::multicolvar::PlaneShortcut	Provides the keyword PLANES
CPLMD::multicolvar::Torsions	Provides the keyword TORSIONS
CPLMD::multicolvar::UWalls	Provides the keyword UWALLS
CPLMD::multicolvar::XAngle	Provides the keyword XANGLES
CPLMD::multicolvar::XYTorsions	Provides the keyword XYTORSIONS
CPLMD::pamm::HBPammShortcut	Provides the keyword HBPAMM_SD
CPLMD::pamm::PAMM	Provides the keyword PAMM
CPLMD::refdist::Displacement	Provides the keyword DISPLACEMENT
CPLMD::refdist::EuclideanDistance	Provides the keyword EUCLIDEAN_DISTANCE
CPLMD::refdist::Kernel	Provides the keyword KERNEL
CPLMD::refdist::MahalanobisDistance	Provides the keyword MAHALANOBIS_DISTANCE
CPLMD::refdist::NormalizedEuclideanDistance	Provides the keyword NORMALIZED_EUCLIDEAN_DISTANCE
CPLMD::secondarystructure::AlphaRMSD	Provides the keyword ALPHARMSD
CPLMD::secondarystructure::AntibetaRMSD	Provides the keyword ANTIBETARMSD
CPLMD::secondarystructure::ParabetaRMSD	Provides the keyword PARABETARMSD
CPLMD::sprint::Sprint	Provides the keyword SPRINT
CPLMD::symfunc::AngularTetra	Provides the keyword TETRA_ANGULAR
CPLMD::symfunc::AtomicSMAC	Provides the keyword ATOMIC_SMAC
CPLMD::symfunc::CoordShellVectorFunction	Provides the keyword FCCUBIC
CPLMD::symfunc::CoordinationNumbers	Provides the keyword COORDINATIONNUMBER
CPLMD::symfunc::HexacticParameter	Provides the keyword HEXACTIC_PARAMETER
CPLMD::symfunc::LocalAverage	Provides the keyword LOCAL_AVERAGE
CPLMD::symfunc::LocalCrystallinity	Provides the keyword LOCAL_CRYSTALINITY
CPLMD::symfunc::LocalSteinhardt	Provides the keyword LOCAL_Q1
CPLMD::symfunc::RadialTetra	Provides the keyword TETRA_RADIAL
CPLMD::symfunc::SMAC	Provides the keyword SMAC
CPLMD::symfunc::Steinhardt	Provides the keyword Q1
CPLMD::valtools::SelectComponents	Provides the keyword SELECT_COMPONENTS
CPLMD::vatom::CenterShortcut	Provides the keyword CENTER
CPLMD::volumes::Density	Provides the keyword DENSITY
CPLMD::volumes::VolumeShortcut< v >
CPLMD::wham::WhamHistogram	Provides the keyword WHAM_HISTOGRAM
CPLMD::wham::WhamWeights	Provides the keyword WHAM_WEIGHTS
►CPLMD::ActionWithArguments
CPLMD::function::FunctionWithSingleArgument< Highest >
CPLMD::function::FunctionWithSingleArgument< Moments >
CPLMD::ActionToGetData	Provides the keyword GET
CPLMD::ActionWithVector
CPLMD::bias::Bias	This is the abstract base class to use for implementing new simulation biases, within it there is information as to how to go about implementing a new bias
►CPLMD::bias::ReweightBase
CPLMD::bias::ReweightBias	Provides the keyword REWEIGHT_BIAS
CPLMD::bias::ReweightMetad	Provides the keyword REWEIGHT_METAD
CPLMD::bias::ReweightTemperaturePressure	Provides the keyword REWEIGHT_TEMP_PRESS
CPLMD::clusters::ClusterDistribution	Provides the keyword CLUSTER_DISTRIBUTION_CALC
CPLMD::clusters::ClusterWeights	Provides the keyword CLUSTER_WEIGHTS
CPLMD::contour::DistanceFromContourBase
CPLMD::dimred::ArrangePoints	Provides the keyword ARRANGE_POINTS
►CPLMD::function::Function	This is the abstract base class to use for implementing new CV function, within it there is information as to how to go about implementing a new function
CPLMD::function::FunctionOfScalar< Bessel >
CPLMD::function::FunctionOfScalar< Between >
CPLMD::function::FunctionOfScalar< Combine >
CPLMD::function::FunctionOfScalar< Custom >
CPLMD::function::FunctionOfScalar< Highest >
CPLMD::function::FunctionOfScalar< LessThan >
CPLMD::function::FunctionOfScalar< Moments >
CPLMD::function::FunctionOfScalar< MoreThan >
CPLMD::function::FunctionOfScalar< Piecewise >
CPLMD::function::FunctionOfScalar< Sort >
CPLMD::function::FunctionOfScalar< EvaluateGridFunction >
CPLMD::function::FunctionOfScalar< Difference >
CPLMD::function::Ensemble	Provides the keyword ENSEMBLE
CPLMD::function::FuncPathGeneral	Provides the keyword <a href="../../user-doc/html/_"_f_u_n_c_p_a_t_h_g_e_n_e_r_a_l.html"> "FUNCPATHGENERAL
CPLMD::function::FuncPathMSD	Provides the keyword FUNCPATHMSD
CPLMD::function::FuncSumHills	Provides the keyword FUNCSUMHILLS
CPLMD::function::FunctionOfScalar< T >	This is the abstract base class to use for implementing new CV function, within it there is information as to how to go about implementing a new function
CPLMD::function::LocalEnsemble	Provides the keyword LOCALENSEMBLE
CPLMD::function::Stats	Provides the keyword STATS
CPLMD::function::annfunc::ANN
CPLMD::isdb::Select	Provides the keyword SELECT
CPLMD::function::FunctionWithSingleArgument< T >
CPLMD::function::SortWithSingleArgument	Provides the keyword SORT_ONEARG
CPLMD::function::Sum	Provides the keyword SUM
CPLMD::generic::Accumulate	Provides the keyword ACCUMULATE
CPLMD::generic::Collect	Provides the keyword COLLECT
CPLMD::generic::Committor	Provides the keyword COMMITTOR
CPLMD::generic::CreateMask	Provides the keyword CREATE_MASK
CPLMD::generic::DumpAtoms	Provides the keyword DUMPATOMS
CPLMD::generic::DumpDerivatives	Provides the keyword DUMPDERIVATIVES
CPLMD::generic::DumpForces	Provides the keyword DUMPFORCES
CPLMD::generic::DumpPDB	Provides the keyword DUMPPDB
CPLMD::generic::DumpProjections	Provides the keyword DUMPPROJECTIONS
CPLMD::generic::DumpVector	Provides the keyword DUMPVECTOR
CPLMD::generic::GatherReplicas	Provides the keyword GATHER_REPLICAS
CPLMD::generic::Print	Provides the keyword PRINT
CPLMD::generic::PrintNDX	Provides the keyword PRINT_NDX
CPLMD::generic::UpdateIf	Provides the keyword UPDATE_IF
CPLMD::gridtools::DumpGrid	Provides the keyword DUMPCUBE
CPLMD::gridtools::FindGridOptimum	Provides the keyword FIND_GRID_MAXIMUM
CPLMD::gridtools::GetGridVolumeElement	Provides the keyword GET_VOLUME_ELEMENT
CPLMD::isdb::EMMI	Provides the keyword EMMI
CPLMD::isdb::MetainferenceBase	This is the abstract base class to use for implementing new ISDB Metainference actions, within it there is information as to how to go about implementing a new Metainference action
CPLMD::mapping::PathDisplacements	Provides the keyword AVERAGE_PATH_DISPLACEMENT
►CPLMD::matrixtools::MatrixOperationBase
►CPLMD::clusters::ClusteringBase
CPLMD::clusters::DFSClustering	Provides the keyword DFSCLUSTERING
CPLMD::landmarks::FarthestPointSampling	Provides the keyword FARTHEST_POINT_SAMPLING
CPLMD::matrixtools::DiagonalizeMatrix	Provides the keyword DIAGONALIZE
CPLMD::matrixtools::InvertMatrix	Provides the keyword INVERT_MATRIX
CPLMD::matrixtools::TransposeMatrix	Provides the keyword TRANSPOSE
►CPLMD::opes::ExpansionCVs
CPLMD::opes::ECVcustom	Provides the keyword ECV_CUSTOM
CPLMD::opes::ECVlinear	Provides the keyword ECV_LINEAR
CPLMD::opes::ECVmultiThermal	Provides the keyword ECV_MULTITHERMAL
CPLMD::opes::ECVmultiThermalBaric	Provides the keyword ECV_MULTITHERMAL_MULTIBARIC
CPLMD::opes::ECVumbrellasFile	Provides the keyword ECV_UMBRELLAS_FILE
CPLMD::opes::ECVumbrellasLine	Provides the keyword ECV_UMBRELLAS_LINE
CPLMD::valtools::Concatenate	Provides the keyword CONCATENATE
CPLMD::valtools::Flatten	Provides the keyword FLATTEN
CPLMD::valtools::SelectWithMask	Provides the keyword SELECT_WITH_MASK
CPLMD::valtools::VStack	Provides the keyword VSTACK
CPLMD::vatom::ArgsToVatom	Provides the keyword ARGS2VATOM
CPLMD::wham::Wham	Provides the keyword WHAM
►CPLMD::ActionWithValue	Used to create a PLMD::Action that has some scalar or vectorial output that may or may not have some derivatives
CPLMD::function::FunctionWithSingleArgument< Highest >
CPLMD::function::FunctionWithSingleArgument< Moments >
►CPLMD::ActionForInterface
►CPLMD::ActionToPutData	Provides the keyword PUT
CPLMD::PbcAction	Provides the keyword PBC
CPLMD::colvar::Energy	Provides the keyword ENERGY
CPLMD::DomainDecomposition
CPLMD::ActionWithVector
CPLMD::ActionWithVirtualAtom	Inherit from here if you are calculating the position of a virtual atom (eg a center of mass)
CPLMD::Colvar	This is the abstract base class to use for implementing new collective variables, within it there is information as to how to go about implementing a new CV
CPLMD::bias::Bias	This is the abstract base class to use for implementing new simulation biases, within it there is information as to how to go about implementing a new bias
CPLMD::bias::ReweightBase
CPLMD::clusters::ClusterDistribution	Provides the keyword CLUSTER_DISTRIBUTION_CALC
CPLMD::clusters::ClusterWeights	Provides the keyword CLUSTER_WEIGHTS
CPLMD::colvar::SelectMassCharge	Provides the keyword MASS
CPLMD::contour::DistanceFromContourBase
CPLMD::dimred::ArrangePoints	Provides the keyword ARRANGE_POINTS
CPLMD::function::Function	This is the abstract base class to use for implementing new CV function, within it there is information as to how to go about implementing a new function
CPLMD::function::FunctionWithSingleArgument< T >
CPLMD::function::SortWithSingleArgument	Provides the keyword SORT_ONEARG
CPLMD::function::Sum	Provides the keyword SUM
CPLMD::generic::Accumulate	Provides the keyword ACCUMULATE
CPLMD::generic::Collect	Provides the keyword COLLECT
CPLMD::generic::Constant	Provides the keyword CONSTANT
CPLMD::generic::CreateMask	Provides the keyword CREATE_MASK
CPLMD::generic::FitToTemplate	Provides the keyword FIT_TO_TEMPLATE
CPLMD::generic::GatherReplicas	Provides the keyword GATHER_REPLICAS
CPLMD::generic::Plumed	Provides the keyword PLUMED
CPLMD::generic::Read	Provides the keyword READ
CPLMD::generic::Time	Provides the keyword TIME
CPLMD::gridtools::FindGridOptimum	Provides the keyword FIND_GRID_MAXIMUM
CPLMD::gridtools::GetGridVolumeElement	Provides the keyword GET_VOLUME_ELEMENT
CPLMD::isdb::EMMI	Provides the keyword EMMI
CPLMD::isdb::MetainferenceBase	This is the abstract base class to use for implementing new ISDB Metainference actions, within it there is information as to how to go about implementing a new Metainference action
CPLMD::mapping::PathDisplacements	Provides the keyword AVERAGE_PATH_DISPLACEMENT
CPLMD::matrixtools::MatrixOperationBase
CPLMD::metatomic::MetatomicPlumedAction	Provides the keyword <a href="../../user-doc/html/_"_m_e_t_a_t_o_m_i_c.html"> "METATOMIC
CPLMD::opes::ExpansionCVs
CPLMD::valtools::Concatenate	Provides the keyword CONCATENATE
CPLMD::valtools::Flatten	Provides the keyword FLATTEN
CPLMD::valtools::SelectWithMask	Provides the keyword SELECT_WITH_MASK
CPLMD::valtools::VStack	Provides the keyword VSTACK
CPLMD::vatom::ArgsToVatom	Provides the keyword ARGS2VATOM
CPLMD::ves::Optimizer
CPLMD::wham::Wham	Provides the keyword WHAM
CPLMD::generic::EndPlumed	Provides the keyword ENDPLUMED
CPLMD::generic::RandomExchanges	Provides the keyword RANDOM_EXCHANGES
CPLMD::isdb::Selector	Provides the keyword SELECTOR
►CPLMD::ves::BasisFunctions
CPLMD::ves::BF_Chebyshev	Provides the keyword BF_CHEBYSHEV
CPLMD::ves::BF_Combined	Provides the keyword BF_COMBINED
CPLMD::ves::BF_Cosine	Provides the keyword BF_COSINE
CPLMD::ves::BF_CubicBsplines	Provides the keyword BF_CUBIC_B_SPLINES
CPLMD::ves::BF_Custom	Provides the keyword BF_CUSTOM
CPLMD::ves::BF_Fourier	Provides the keyword BF_FOURIER
CPLMD::ves::BF_Gaussians	Provides the keyword BF_GAUSSIANS
CPLMD::ves::BF_Legendre	Provides the keyword BF_LEGENDRE
CPLMD::ves::BF_Powers	Provides the keyword BF_POWERS
CPLMD::ves::BF_Sine	Provides the keyword BF_SINE
CPLMD::ves::BF_Wavelets	Provides the keyword BF_WAVELETS
CPLMD::ves::OutputBasisFunctions	Provides the keyword VES_OUTPUT_BASISFUNCTIONS
CPLMD::ves::OutputFesBias	Provides the keyword VES_OUTPUT_FES
CPLMD::ves::OutputTargetDistribution	Provides the keyword VES_OUTPUT_TARGET_DISTRIBUTION
►CPLMD::ves::TargetDistribution
CPLMD::ves::TD_Chi	Provides the keyword TD_CHI
CPLMD::ves::TD_ChiSquared	Provides the keyword TD_CHISQUARED
CPLMD::ves::TD_Custom	Provides the keyword TD_CUSTOM
CPLMD::ves::TD_Exponential	Provides the keyword TD_EXPONENTIAL
CPLMD::ves::TD_ExponentiallyModifiedGaussian	Provides the keyword TD_EXPONENTIALLY_MODIFIED_GAUSSIAN
CPLMD::ves::TD_Gaussian	Provides the keyword TD_GAUSSIAN
CPLMD::ves::TD_GeneralizedExtremeValue	Provides the keyword TD_GENERALIZED_EXTREME_VALUE
CPLMD::ves::TD_GeneralizedNormal	Provides the keyword TD_GENERALIZED_NORMAL
CPLMD::ves::TD_Grid	Provides the keyword TD_GRID
CPLMD::ves::TD_LinearCombination	Provides the keyword TD_LINEAR_COMBINATION
CPLMD::ves::TD_Multicanonical	Provides the keyword TD_MULTICANONICAL
CPLMD::ves::TD_MultithermalMultibaric	Provides the keyword TD_MULTITHERMAL_MULTIBARIC
CPLMD::ves::TD_ProductCombination	Provides the keyword TD_PRODUCT_COMBINATION
CPLMD::ves::TD_ProductDistribution	Provides the keyword TD_PRODUCT_DISTRIBUTION
CPLMD::ves::TD_Uniform	Provides the keyword TD_UNIFORM
CPLMD::ves::TD_VonMises	Provides the keyword TD_VONMISES
CPLMD::ves::TD_WellTempered	Provides the keyword TD_WELLTEMPERED
CPLMD::ActionOptions	This class is used to bring the relevant information to the Action constructor
CPLMD::ActionRegisterPointers
CPLMD::ActionRegistration< ActionClass >	Each instance of this specialized class represents an action that can be called with the specified directive
CPLMD::adjmat::AdjacencyMatrixData< T >
CPLMD::adjmat::AdjacencyMatrixInput
►CAllocator
CPLMD::gch::detail::allocator_inliner< Allocator, true >
►CPLMD::gch::detail::allocator_inliner< Allocator, AvailableForEBO >
►CPLMD::gch::detail::allocator_interface< Allocator >
►CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >
CPLMD::gch::small_vector< value_type, 0, allocator_type >
CPLMD::gch::small_vector< PLMD::VectorTyped< double, n >, maxshiftsize >
CPLMD::gch::small_vector< T, InlineCapacity, Allocator >
CPLMD::gch::detail::allocator_inliner< Allocator, false >
CPLMD::Angle	Class to compute angles
CAngleMulti	Provides the keyword ANGLE_VECTOR
CAngleShortcut	Provides the keyword ANGLE
CANN	Provides the keyword ANN
CPLMD::ArgumentBookeepingHolder
CPLMD::ArgumentsBookkeeping
►Cstd::array< T >	STL class
CPLMD::metatomic::vesin::CellShift	A cell shift represents the displacement along cell axis between the actual position of an atom and a periodic image of this atom
CPLMD::metatomic::vesin::Matrix
CPLMD::metatomic::vesin::Vector
CPLMD::lepton::AsmJitRuntimePtr
CPLMD::Exception::Assertion	Auxiliary containing the failed assertion
►CPLMD::AtomDistribution	Tested in regtest/tools/rt-make-AtomicDistribution Acts as a template for any distribution
CPLMD::fileTraj	Atomic distribution from a trajectory file
CPLMD::repliedTrajectory	Decorator for replicate the atomic distribution
CPLMD::theLine	A wiggly line of atoms
CPLMD::tiledSimpleCubic
CPLMD::twoGlobs	Atom randomly distribuited between two not overlapping a spheres
CPLMD::uniformCube
CPLMD::uniformSphere	Atom randomly distribuited in a sphere
CPLMD::AtomNumber	Simple class to store the index of an atom
CPLMD::switchContainers::baseSwitch< switching >	Container for the actual switching function used by PLMD::SwitchingFunction
►CPLMD::switchContainers::baseSwitch< cosinusSwitch >
CPLMD::switchContainers::cosinusSwitch
►CPLMD::switchContainers::baseSwitch< cubicSwitch >
CPLMD::switchContainers::cubicSwitch
►CPLMD::switchContainers::baseSwitch< exponentialSwitch >
CPLMD::switchContainers::exponentialSwitch
►CPLMD::switchContainers::baseSwitch< fastgaussianSwitch >
CPLMD::switchContainers::fastgaussianSwitch
►CPLMD::switchContainers::baseSwitch< fixedRational< N > >
CPLMD::switchContainers::fixedRational< N,, >
►CPLMD::switchContainers::baseSwitch< gaussianSwitch >
CPLMD::switchContainers::gaussianSwitch
►CPLMD::switchContainers::baseSwitch< nativeqSwitch >
CPLMD::switchContainers::nativeqSwitch
►CPLMD::switchContainers::baseSwitch< rational< isFast, nis2m > >
CPLMD::switchContainers::rational< isFast, nis2m >
►CPLMD::switchContainers::baseSwitch< smapSwitch >
CPLMD::switchContainers::smapSwitch
►CPLMD::switchContainers::baseSwitch< tanhSwitch >
CPLMD::switchContainers::tanhSwitch
Cbeadkde	Provides the keyword KDE_BEADS
CPLMD::function::Bessel
CBesselShortcut	Provides the keyword BESSEL
CPLMD::function::Between
CBetweenShortcut	Provides the keyword BETWEEN
CPLMD::BiasRepresentation	This class implements a general purpose class that aims to provide a Grid/list transparently add gaussians to a bias
CPLMD::enum_traits::BitmaskEnum< enum_type >	Struct for setting up bitmask operations on enum types
CPLMD::enum_traits::BitmaskEnum< Keywords::argType >
CPLMD::enum_traits::BitmaskEnum< Keywords::componentType >
Cbmap	Provides the keyword BRIDGE_MATRIX
►Cbool_constant
CPLMD::gch::detail::allocator_interface< Allocator >::is_memcpyable_iterator< std::move_iterator< InputIt > >
►CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable_iterator< U, V >
CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable_iterator< std::move_iterator< U >, V >
CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable_iterator< std::move_iterator< U >, V >
CPLMD::gch::detail::allocator_interface< Allocator >::is_contiguous_iterator< InputIt >
CPLMD::gch::detail::allocator_interface< Allocator >::is_convertible_pointer< From, To >
►CPLMD::gch::detail::allocator_interface< Allocator >::is_memcpyable_iterator< InputIt >
CPLMD::gch::detail::allocator_interface< Allocator >::is_memcpyable_iterator< std::move_iterator< InputIt > >
CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable_iterator< InputIt, V >
CPLMD::gch::detail::allocator_interface< Allocator >::must_use_alloc_construct< A, V, Args >
CPLMD::gch::detail::allocator_interface< Allocator >::must_use_alloc_destroy< A, V >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::allocations_are_movable< A >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::allocations_are_swappable< A >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::relocate_with_move< V >
CPLMD::metatomic::vesin::BoundingBox
CPLMD::Brent1DRootSearch< FCLASS >	A class for doing parabolic interpolation and minimisation of 1D functions using Brent's method
CPLMD::adjmat::BridgeMatrix
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::bypass_tag
CPLMD::LinkCells::CellCollection	This struct contains the configuration of cells
CPLMD::metatomic::vesin::cpu::CellList	The cell list is used to sort atoms inside bins/cells
CPLMD::CheckInRange
CPLMD::isdb::CS2Backbone::ChemicalShift
CPLMD::Citations	Class taking care of bibliography
►CPLMD::CLTool	This is the abstract base class to use for implementing new command line tool, within it there is information as to how to go about implemneting a new tool
CPLMD::cltools::Driver< double >
CPLMD::cltools::Driver< float >
CPLMD::cltools::CLToolSumHills
CPLMD::cltools::Completion
CPLMD::cltools::Driver< real >
CPLMD::cltools::GenExample
CPLMD::cltools::GenJson
CPLMD::cltools::GenTemplate
CPLMD::cltools::Info
CPLMD::cltools::Manual
CPLMD::cltools::PdbRenumber
CPLMD::cltools::PesMD
CPLMD::cltools::ShowGraph
CPLMD::cltools::SimpleMD
CPLMD::cltools::SwitchingPlotter
CPLMD::cltools::kt
CPLMD::mapping::PathTools
CPLMD::ves::MD_LinearExpansionPES
►CPLMD::cltools::CLTool	This is the abstract base class to use for implementing new command line tool, within it there is information as to how to go about implemneting a new tool
CPLMD::cltools::Driver< double >
CPLMD::cltools::Driver< float >
CPLMD::cltools::CLToolSumHills
CPLMD::cltools::Completion
CPLMD::cltools::Driver< real >
CPLMD::cltools::GenExample
CPLMD::cltools::GenJson
CPLMD::cltools::GenTemplate
CPLMD::cltools::Info
CPLMD::cltools::Manual
CPLMD::cltools::PdbRenumber
CPLMD::cltools::PesMD
CPLMD::cltools::ShowGraph
CPLMD::cltools::SimpleMD
CPLMD::cltools::SwitchingPlotter
CPLMD::cltools::kt
CPLMD::mapping::PathTools
CPLMD::ves::MD_LinearExpansionPES
CPLMD::CLToolOptions
CPLMD::CLToolRegisterPointers
Ccmap	Provides the keyword CONTACT_MATRIX_PROPER
►CPLMD::ves::CoeffsBase
CPLMD::ves::CoeffsMatrix
CPLMD::ves::CoeffsVector
Ccolv	Provides the keyword SECONDARY_STRUCTURE_DRMSD
CPLMD::colvar::ColvarInput
CPLMD::ColvarOutput
CPLMD::function::Combine
CCombineShortcut	Provides the keyword COMBINE
►CPLMD::Communicator	Class containing wrappers to MPI
CPLMD::DomainDecomposition::DomainComms
CPLMD::lepton::CompiledExpression	A CompiledExpression is a highly optimized representation of an expression for cases when you want to evaluate it many times as quickly as possible
CPLMD::function::Combine::component
CPLMD::Keywords::component
CPLMD::MatrixSquareBracketsAccess< T, C, I, J >::Const_row	Small utility class which just contains a pointer to the T and the row number
CPLMD::Communicator::ConstData	Const version of Communicator::Data See Communicator::Data documentation
CPLMD::adjmat::ContactMatrix
CPLMD::RegisterBase< Content >::ContentAndFullPath	Auxiliary class
CPLMD::contour::ContourFindingObject< T >
CPLMD::opes::convergence
CPLMD::Tools::CriticalSectionWithKey< Key >	Utility to create named critical sections Key should be usable in a std::map
CPLMD::isdb::CS2BackboneDB
CPLMD::function::Custom
►CPLMD::lepton::CustomFunction	This class is the interface for defining your own function that may be included in expressions
CPLMD::lepton::PlaceholderFunction	This class is an implementation of CustomFunction that does no computation
CCustomShortcut	Provides the keyword CUSTOM
CCyHarmShortcut	Provides the keyword CYLINDRICAL_HARMONIC
CPLMD::symfunc::CylindricalHarmonic
CPLMD::Communicator::Data	Structure defining a buffer for MPI
CPLMD::switchContainers::Data
►CPLMD::DataPassingObject
CPLMD::DataPassingObjectTyped< T >
►CPLMD::DataPassingTools
CPLMD::DataPassingToolsTyped< T >
CPLMD::gch::default_buffer_size< Allocator >
CPLMD::maze::tls::delete_ptr
CPLMD::PlumedMain::DeprecatedAtoms
CPLMD::ColvarOutput::DerivHelper
CPLMD::gridtools::DiagonalKernelParams
CPLMD::refdist::Difference
CDifferenceShortcut	Provides the keyword DIFFERENCE
CDihedralCorrelationMulti	Provides the keyword DIHEDRAL_CORRELATION_VECTOR
CDihedralCorrelationShortcut	Provides the keyword DIHEDRAL_CORRELATION
CDipoleMulti	Provides the keyword DIPOLE_VECTOR
CDipoleShortcut	Provides the keyword DIPOLE
CPLMD::Tools::DirectoryChanger	Tiny class that changes directory and comes back when going out of scope
Cdiscretekde	Provides the keyword KDE_DISCRETE
CPLMD::gridtools::DiscreteKernel
CPLMD::matrixtools::Dissimilarities
Cdissims	Provides the keyword DISSIMILARITIES
CDistance	Provides the keyword DISTANCE2
CPLMD::adjmat::DistanceMatrix
CDistanceMulti	Provides the keyword DISTANCE_VECTOR
CDistanceShortcut	Provides the keyword DISTANCE
CPLMD::DLLoader	Class taking care of dynamic loading
Cdmap	Provides the keyword DISTANCE_MATRIX
CDomainDecomposition	Provides the keyword DOMAIN_DECOMPOSITION
CDynamicReferenceRestraining	Provides the keyword <a href="../../user-doc/html/_"_d_r_r.html"> "DRR
CEMMIVOX	Provides the keyword EMMIVOX
CPLMD::DLLoader::EnsureGlobalDLOpen	RAII helper for promoting RTLD_LOCAL loaded objects to RTLD_GLOBAL
CPLMD::ERMSD	A class that implements ERMSD calculations
CPLMD::gridtools::EvaluateGridFunction
►Cstd::exception	STL class
CPLMD::Exception	Class to deal with Plumed runtime errors
►CPLMD::lepton::Exception	This class is used for all exceptions thrown by lepton
CPLMD::ExceptionDebug	Class representing a debug error (can only be thrown when using debug options)
CPLMD::ExceptionError	Class representing a generic error
CPLMD::ExceptionRegisterError	Class representing an error in a register
CPLMD::ExceptionTypeError	Class representing a type error in the PLMD::Plumed interface
CPLMD::ExchangePatterns
CPLMD::opes::exploration
CPLMD::lepton::ExpressionProgram	An ExpressionProgram is a linear sequence of Operations for evaluating an expression
CPLMD::lepton::ExpressionTreeNode	This class represents a node in the abstract syntax tree representation of an expression
CPLMD::F1dim< FCLASS >
►Cstd::false_type
CPLMD::gch::default_buffer_size< Allocator >::is_complete< U, decltype(static_cast< void >(sizeof(U)))>
►CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_check< void, A, V, Args... >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_impl< typename std::enable_if< is_complete< V >::value >::type, A, V, Args... >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_check< void_t< decltype(std::declval< A & >().construct(std::declval< V * >(), std::declval< Args >()...))>, A, V, Args... >
►CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_impl< void, A, V, Args... >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct< A, V, Args >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_impl< typename std::enable_if< is_complete< V >::value >::type, A, V, Args... >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_destroy< A, V, typename std::enable_if< is_complete< V >::value >::type >
►CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_destroy_impl< void, A, V >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_destroy< A, V, typename std::enable_if< is_complete< V >::value >::type >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_destroy_impl< void_t< decltype(std::declval< A & >().destroy(std::declval< V * >()))>, A, V >
CPLMD::gch::detail::allocator_interface< Allocator >::has_ptr_traits_to_address< P, void_t< decltype(std::pointer_traits< P >::to_address(std::declval< P >()))> >
CPLMD::gch::detail::allocator_interface< Allocator >::is_complete< U, decltype(static_cast< void >(sizeof(U)))>
CPLMD::gch::detail::allocator_interface< Allocator >::is_memcpyable< QualifiedFrom, QualifiedTo, typename std::enable_if< is_complete< QualifiedFrom >::value >::type >
CPLMD::gch::detail::allocator_interface< Allocator >::is_memcpyable_integral< From, To, typename std::enable_if< is_complete< From >::value >::type >
CPLMD::gch::detail::allocator_interface< Allocator >::is_small_vector_iterator< small_vector_iterator< Ts... > >
►CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_constructible_impl< void, V, Args... >
CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_constructible< V, Args >
CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_constructible_impl< typename std::enable_if< is_complete< V >::value >::type, V, Args... >
CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_destructible< V, typename std::enable_if< is_complete< V >::value >::type >
CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable< To, From >
CPLMD::gch::detail::small_vector_adl::is_nothrow_swappable< T, decltype(swap(std::declval< T & >(), std::declval< T & >()))>
►CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_emplace_constructible_impl< void, alloc_interface, value_ty, Args... >
►CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_emplace_constructible< value_ty && >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_explicitly_move_insertable< V >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_emplace_constructible< Args >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_emplace_constructible_impl< void_t< typename std::enable_if< is_complete< V >::value >::type, decltype(std::declval< AI & >().construct(std::declval< V * >(), std::declval< Args >()...))>, AI, V, Args... >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_eraseable< AI, void_t< decltype(std::declval< AI & >().destroy(std::declval< value_ty * >()))> >
CPLMD::mergeVectorTools::has_size_and_data< T, std::void_t< decltype(std::declval< T >().size()), decltype(std::declval< T >().data())> >
CPLMD::gch::default_buffer_size< Allocator >::is_complete< typename, Enable >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_check< Void, A, V, Args >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_impl< Void, A, V, Args >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_destroy< A, V, Enable >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_destroy_impl< Void, A, V >
CPLMD::gch::detail::allocator_interface< Allocator >::has_ptr_traits_to_address< typename, typename >
CPLMD::gch::detail::allocator_interface< Allocator >::is_complete< typename, typename >
CPLMD::gch::detail::allocator_interface< Allocator >::is_memcpyable< QualifiedFrom, QualifiedTo, Enable >
CPLMD::gch::detail::allocator_interface< Allocator >::is_memcpyable_integral< typename, typename, typename >
CPLMD::gch::detail::allocator_interface< Allocator >::is_small_vector_iterator< Iterator >
CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_constructible_impl< Void, T, Args >
CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_destructible< V, Enable >
CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable< To, Args >
CPLMD::gch::detail::small_vector_adl::is_nothrow_swappable< T, Enable >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_emplace_constructible_impl< Void, AI, V, Args >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_eraseable< AI, Enable >
CPLMD::mergeVectorTools::has_size_and_data< T, typename >
CPLMD::Tools::FastStringUnorderedMap< T >	Tiny class implementing faster std::string_view access to an unordered_map It exposes a limited number of methods of std::unordered_map
CPLMD::symfunc::Fccubic
CFccubicShortcut	Provides the keyword FCCUBIC_FUNC
CPLMD::ves::FermiSwitchingFunction	Small class to compute fermi switching function
►CPLMD::FileBase::FieldBase	Internal tool
CPLMD::IFile::Field
CPLMD::OFile::Field	Class identifying a single field for fielded output
►CPLMD::FileBase	Base class for dealing with files
CPLMD::IFile	Class for input files
►CPLMD::OFile	Class for output files
CPLMD::Log	Class containing the log stream
CPLMD::fileDeleter
CPLMD::fileParser
CPLMD::function::FilesHandler
CPLMD::contour::FindContourSurfaceObject
CPLMD::contour::FindSphericalContourObject
CPLMD::molfile::fio_iovec
Cflatfkde	Provides the keyword KDE_FULLCOVAR
Cflatkde	Provides the keyword KDE_KERNELS
CPLMD::FlexibleBin
CPLMD::secondarystructure::flexibleMemory< T >	This is a sort of compact std::vector<std::vector<T>>
CPLMD::ForceIndexHolder
CPLMD::ForceInput
CPLMD::ForceOutput
CPLMD::OpenACC::fromToDataHelper< accData >	This little tool is a RAII helper to put and remove data on the device
CPLMD::switchContainers::leptonSwitch::funcAndDeriv	Lepton expression
CPLMD::function::FunctionData< T >
CPLMD::function::FunctionOptions
CPLMD::function::FunctionOutput
CPLMD::bias::MetaD::Gaussian
CPLMD::bias::PBMetaD::Gaussian
►CPLMD::GridBase
CPLMD::Grid
CPLMD::SparseGrid
CPLMD::gridtools::GridCoordinatesObject
CGridCustom	Provides the keyword CUSTOM_GRID
CPLMD::ves::GridIntegrationWeights
CPLMD::ves::GridLinearInterpolation
CPLMD::gridtools::GridSearch< FCLASS >
CPLMD::metatomic::vesin::cpu::GrowableNeighborList	Wrapper around VesinNeighborList that behaves like a std::vector, automatically growing memory allocations
CPLMD::Stopwatch::Handler	Auxiliary class for handling exception-safe start/pause and start/stop
CPLMD::Subprocess::Handler	Class used to cont/stop a Subprocess in an exception safe manner
CPLMD::Tools::CriticalSectionWithKey< Key >::Handler
CPLMD::adjmat::HbondMatrix
CPLMD::pamm::HBPammMatrix
Chbpmap	Provides the keyword HBPAMM_MATRIX
CPLMD::function::Highest
CHighestShortcut	Provides the keyword HIGHEST
CPLMD::HistogramBead	A class for calculating whether or not values are within a given range using : \( \sum_i \int_a^b G( s_i, \sigma*(b-a) ) \)
CPLMD::gridtools::HistogramBeadKernel
Chmap	Provides the keyword HBOND_MATRIX
CPLMD::RegisterBase< Content >::ID
CPLMD::colvar::PathMSDBase::ImagePath	This class is a general container for path stuff
CPLMD::colvar::PathMSDBase::imgOrderByDist
CPLMD::colvar::PathMSDBase::imgOrderBySimilarity
►CPLMD::gch::detail::inline_storage< T, InlineCapacity >
CPLMD::gch::detail::small_vector_data< Pointer, SizeT, T, 0 >
CPLMD::matrixtools::InputVectors
►Cstd::integral_constant
CPLMD::gch::detail::small_vector_adl::is_nothrow_swappable< T, decltype(swap(std::declval< T & >(), std::declval< T & >()))>
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_explicitly_copy_insertable< V >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_explicitly_nothrow_copy_insertable< V >
CPLMD::gridtools::Interpolator
►Cstd::is_trivially_constructible
CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_constructible_impl< typename std::enable_if< is_complete< V >::value >::type, V, Args... >
►Cstd::is_trivially_destructible
CPLMD::gch::detail::allocator_interface< Allocator >::is_trivially_destructible< V, typename std::enable_if< is_complete< V >::value >::type >
CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable_impl< QualifiedFrom, QualifiedTo >
►CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable_impl< From, To >
CPLMD::gch::detail::allocator_interface< Allocator >::is_uninitialized_memcpyable< To, From >
CPLMD::gridtools::KDEGridTools< K, P >
CPLMD::gridtools::KDEHelper< K, P, G >
CPLMD::opes::OPESmetad< mode >::kernel
CPLMD::KernelFunctions
CPLMD::Keywords::keyInfo
CPLMD::Keywords::KeyType	This class lets me pass keyword types easily
CPLMD::Keywords	This class holds the keywords and their documentation
CPLMD::LatticeReduction	Class implementing algorithms for lattice reduction
CPLMD::LeptonCall
CPLMD::switchContainers::leptonSwitch
CPLMD::function::LessThan
CLessThanShortcut	Provides the keyword LESS_THAN
CPLMD::ves::LinearBasisSetExpansion
CPLMD::LinkCells	A class for doing link cells
CPLMD::Exception::Location	Auxiliary containing the location of the exception in the file
CPLMD::LoopUnroller< n >	Utiliy class for loop unrolling
CPLMD::gridtools::MarginalInput
CMatrixBetween	Provides the keyword BETWEEN_MATRIX
CMatrixCombine	Provides the keyword COMBINE_MATRIX
CMatrixCustom	Provides the keyword CUSTOM_MATRIX
CMatrixCyHarm	Provides the keyword CYLINDRICAL_HARMONIC_MATRIX
CPLMD::MatrixElementOutput
CMatrixFccubic	Provides the keyword FCCUBIC_FUNC_MATRIX
CPLMD::matrixtools::MatrixForceIndexInput
CMatrixLessThan	Provides the keyword LESS_THAN_MATRIX
CMatrixMoreThan	Provides the keyword MORE_THAN_MATRIX
CPLMD::adjmat::MatrixOutput
CPLMD::matrixtools::MatrixProduct
CPLMD::refdist::MatrixProductDiagonalInput
CMatrixSpHarm	Provides the keyword SPHERICAL_HARMONIC_MATRIX
►CPLMD::MatrixSquareBracketsAccess< T, C, I, J >	Utility class to add [][] access
CPLMD::TensorTyped< double, n, m >
CPLMD::TensorTyped< float, 1, 1 >
CPLMD::TensorTyped< float, 2, 2 >
CPLMD::TensorTyped< float, 3, 3 >
CPLMD::TensorTyped< float, 4, 4 >
CPLMD::TensorTyped< float, 5, 5 >
►CPLMD::MatrixSquareBracketsAccess< Matrix< double >, double >
CPLMD::Matrix< double >
►CPLMD::MatrixSquareBracketsAccess< Matrix< std::size_t >, std::size_t >
CPLMD::Matrix< std::size_t >
►CPLMD::MatrixSquareBracketsAccess< Matrix< std::vector< PLMD::VectorTyped< double, n > > >, std::vector< PLMD::VectorTyped< double, n > > >
CPLMD::Matrix< std::vector< PLMD::VectorTyped< double, n > > >
►CPLMD::MatrixSquareBracketsAccess< Matrix< T >, T >
CPLMD::Matrix< T >	This class stores a full matrix and allows one to do some simple matrix operations
►CPLMD::MatrixSquareBracketsAccess< Matrix< unsigned >, unsigned >
CPLMD::Matrix< unsigned >
►CPLMD::MatrixSquareBracketsAccess< TensorTyped< T, n, m >, T >
CPLMD::TensorTyped< T, 3, 3 >
CPLMD::TensorTyped< T, n, m >	Class implementing fixed size matrices of doubles
CPLMD::matrixtools::MatrixTimesMatrixInput< T >
CPLMD::matrixtools::MatrixTimesVectorData
CPLMD::matrixtools::MatrixTimesVectorInput
CPLMD::matrixtools::MatrixTimesVectorOutput
CPLMD::matrixtools::MatrixTimesVectorProper
CPLMD::matrixtools::MatrixTimesVectorRowSums
CPLMD::molfile::md_atom
CPLMD::molfile::md_box
CPLMD::molfile::md_file
CPLMD::molfile::md_header
CPLMD::molfile::md_ts
CPLMD::maze::Member	Defines the encoding for a ligand conformation
CPLMD::Minimise1DBrent< FCLASS >	A class for doing parabolic interpolation and minimisation of 1D functions using Brent's method
►CPLMD::MinimiseBase< FCLASS >
CPLMD::ConjugateGradient< FCLASS >
►CPLMD::MinimiseBase< PLMD::dimred::ProjectPoints >
CPLMD::ConjugateGradient< PLMD::dimred::ProjectPoints >
CPLMD::MolDataClass	This class provides information on various kinds of molecules for instance the kinds of residues that are in a protein the atoms involved in the backbone of a particular residue etc
CPLMD::molfile::molfile_atom_t	Per-atom attributes and information
CPLMD::molfile::molfile_graphics_t	Individual graphics object/element data
CPLMD::molfile::molfile_metadata_t	File level comments, origin information, and annotations
CPLMD::molfile::molfile_plugin_t	Main file reader API
CPLMD::molfile::molfile_qm_basis_t	Data for QM basis set
CPLMD::molfile::molfile_qm_hessian_t	Data from QM Hessian/normal mode runs
CPLMD::molfile::molfile_qm_metadata_t	Sizes of various QM-related, timestep independent data arrays which must be allocated by the caller (VMD) so that the plugin can fill in the arrays with data
CPLMD::molfile::molfile_qm_sysinfo_t	QM run info
CPLMD::molfile::molfile_qm_t	QM related information that is timestep independent
CPLMD::molfile::molfile_qm_timestep_metadata	Sizes of various QM-related, per-timestep data arrays which must be allocated by the caller (VMD) so that the plugin can fill in the arrays with data
CPLMD::molfile::molfile_qm_timestep_t	QM per trajectory timestep info Note that each timestep can contain multiple wavefunctions
CPLMD::molfile::molfile_qm_wavefunction_t	QM wavefunction
CPLMD::molfile::molfile_timestep_metadata
CPLMD::molfile::molfile_timestep_t	Per-timestep atom coordinates, velocities, time, energies and periodic cell info
CPLMD::molfile::molfile_volumetric_t	Metadata for volumetric datasets, read initially and used for subsequent memory allocations and file loading
CMolInfo	Provides the keyword MOLINFO
CPLMD::function::Moments
CMomentsShortcut	Provides the keyword MOMENTS
CPLMD::function::MoreThan
CMoreThanShortcut	Provides the keyword MORE_THAN
CPLMD::MPI_Comm	Surrogate of MPI_Comm when MPI library is not available
CPLMD::MPI_Datatype	Surrogate of MPI_Datatype when MPI library is not available
CPLMD::MPI_Request	Surrogate of MPI_Request when MPI library is not available
CPLMD::MPI_Status	Surrogate of MPI_Status when MPI library is not available
Cmtimes	Provides the keyword MATRIX_PRODUCT
CPLMD::colvar::MultiColvarInput
CPLMD::multicolvar::MultiColvarShortcuts
Cmycp	Provides the keyword MATRIX_VECTOR_PRODUCT_PROPER
Cmycr	Provides the keyword MATRIX_VECTOR_PRODUCT_ROWSUMS
CPLMD::drr::UIestimator::n_matrix
CPLMD::drr::UIestimator::n_vector< T >
CPLMD::adjmat::NeighborCalcInput
CPLMD::NeighborList	A class that implements neighbor lists from two lists or a single list of atoms
CPLMD::adjmat::NHighInput
Cnhinp	Provides the keyword NEIGHBORS_NHIGH
Cnlinp	Provides the keyword NEIGHBORS_NLOW
CPLMD::adjmat::NLowInput
CPLMD::gridtools::NonDiagonalKernelParams
►Cis_emplace_constructible_impl::nothrow
►CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_nothrow_emplace_constructible< value_ty && >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_explicitly_nothrow_move_insertable< V >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_nothrow_emplace_constructible< Args >
Cohinp	Provides the keyword NEIGHBORS_1HIGH
Colinp	Provides the keyword NEIGHBORS_1LOW
COneargHighest	Provides the keyword HIGHEST_ONEARG
CPLMD::adjmat::OneHighInput
CPLMD::adjmat::OneLowInput
CPLMD::Matrix< T >::openAccVectorHelper< Y >
CPLMD::OpenMP::OpenMPVars	Singleton struct to treat the openMP setting as a global variables, but with a layer of encapsulation
►CPLMD::lepton::Operation	An Operation represents a single step in the evaluation of an expression, such as a function, an operator, or a constant value
CPLMD::lepton::Operation::Abs
CPLMD::lepton::Operation::Acos
CPLMD::lepton::Operation::Add
CPLMD::lepton::Operation::AddConstant
CPLMD::lepton::Operation::Asin
CPLMD::lepton::Operation::Atan
CPLMD::lepton::Operation::Atan2
CPLMD::lepton::Operation::Ceil
CPLMD::lepton::Operation::Constant
CPLMD::lepton::Operation::Cos
CPLMD::lepton::Operation::Cosh
CPLMD::lepton::Operation::Cot
CPLMD::lepton::Operation::Csc
CPLMD::lepton::Operation::Cube
CPLMD::lepton::Operation::Custom
CPLMD::lepton::Operation::Delta
CPLMD::lepton::Operation::Divide
CPLMD::lepton::Operation::Erf
CPLMD::lepton::Operation::Erfc
CPLMD::lepton::Operation::Exp
CPLMD::lepton::Operation::Floor
CPLMD::lepton::Operation::Log
CPLMD::lepton::Operation::Max
CPLMD::lepton::Operation::Min
CPLMD::lepton::Operation::Multiply
CPLMD::lepton::Operation::MultiplyConstant
CPLMD::lepton::Operation::Nandelta
CPLMD::lepton::Operation::Negate
CPLMD::lepton::Operation::Power
CPLMD::lepton::Operation::PowerConstant
CPLMD::lepton::Operation::Reciprocal
CPLMD::lepton::Operation::Sec
CPLMD::lepton::Operation::Select
CPLMD::lepton::Operation::Sin
CPLMD::lepton::Operation::Sinh
CPLMD::lepton::Operation::Sqrt
CPLMD::lepton::Operation::Square
CPLMD::lepton::Operation::Step
CPLMD::lepton::Operation::Subtract
CPLMD::lepton::Operation::Tan
CPLMD::lepton::Operation::Tanh
CPLMD::lepton::Operation::Variable
COPESmetad_c	Provides the keyword OPES_METAD
COPESmetad_e	Provides the keyword OPES_METAD_EXPLORE
Copfunc	Provides the keyword OUTER_PRODUCT_FUNC
Copmax	Provides the keyword OUTER_PRODUCT_MAX
Copmin	Provides the keyword OUTER_PRODUCT_MIN
CPLMD::function::FuncPathMSD::ordering
CPLMD::matrixtools::OuterProductInput< T >
CPLMD::matrixtools::OutputProductFunc
CPLMD::matrixtools::OutputProductMax
CPLMD::matrixtools::OutputProductMin
CPLMD::secondarystructure::SecondaryStructureDRMSDInput::pairDistance
CPLMD::function::FuncPathGeneral::pairordering
CPLMD::function::FuncPathMSD::pairordering
CPLMD::ParallelActionsInput
CPLMD::ParallelActionsOutput
CPLMD::ParallelTaskManager< T >
CPLMD::lepton::ParsedExpression	This class represents the result of parsing an expression
CPLMD::lepton::Parser	This class provides the main interface for parsing expressions
CPLMD::lepton::ParseToken
CPLMD::mapping::PathProjectionCalculator
CPLMD::Pbc
CPLMD::PDB	Minimalistic pdb parser
CPLMD::function::Piecewise
CPiecewiseShortcut	Provides the keyword PIECEWISE
CPlaneMulti	Provides the keyword PLANE_VECTOR
CPlaneShortcut	Provides the keyword PLANE
Cplumed	Main plumed object
Cplumed_error	Small structure that is only defined locally to retrieve errors
Cplumed_error_filesystem_path
CPLMD::PlumedMain::plumed_error_handler	Error handler
Cplumed_function_holder
Cplumed_nothrow_handler
Cplumed_nothrow_handler_x
Cplumed_plumedmain_function_holder_x	Container for plumedmain function pointers (create, cmd and finalize)
Cplumed_safeptr	Structure holding a typesafe pointer
Cplumed_safeptr_x
Cplumed_symbol_table_type_x	Container for symbol table
CPLMD::metatomic::vesin::cpu::CellList::Point	Cells themselves are a list of points & corresponding shift to place the point inside the cell
CPositionMulti	Provides the keyword POSITION_VECTOR
CPositionShortcut	Provides the keyword POSITION
CPLMD::TokenizedLine::presentAndFound
CPLMD::dimred::ProjectPointsInput
CPytorchModel	Provides the keyword PYTORCH_MODEL
Cqpop	Provides the keyword QUATERNION_PRODUCT_MATRIX
CPLMD::crystdistrib::QuatBondProdMatInput
CQuaternionMulti	Provides the keyword QUATERNION_VECTOR
CPLMD::crystdistrib::QuaternionProductMatrix
CQuaternionShortcut	Provides the keyword QUATERNION
CPLMD::Random
CPLMD::volumes::VolumeOutput::RefderHelper
►CPLMD::Register	Base class, with type independent information
►CPLMD::RegisterBase< ActionRegisterPointers >
CPLMD::ActionRegister	Register holding all the allowed keywords
►CPLMD::RegisterBase< CLToolRegisterPointers >
CPLMD::CLToolRegister	Same as ActionRegister, but for CLTools
CPLMD::RegisterBase< Content >	General register
CPLMD::Register::RegistrationLock	Small class to manage registration lock This is used during dlopen, to avoid data races in registrations
CPLMD::gridtools::RegularKernel< K >
CPLMD::Communicator::Request	Wrapper class for MPI_Request
CPLMD::RequiredMatrixElements
CPLMD::RequiredMatrixElementsUpdater
CPLMD::isdb::CS2Backbone::RingInfo
CPLMD::RMSD	A class that implements RMSD calculations This is a class that implements the various infrastructure to calculate the RMSD or MSD respect a given frame
CPLMD::RMSDCoreData	This is a class which is needed to share information across the various non-threadsafe routines so that the public function of rmsd are threadsafe while the inner core can safely share information
CPLMD::colvar::RMSDVectorData
CPLMD::maze::rnd	Mersenne Twister sampler for random variables
CPLMD::RootFindingBase< FCLASS >
CPLMD::MatrixSquareBracketsAccess< T, C, I, J >::Row	Small utility class which just contains a pointer to the T and the row number
CScalarBessel	Provides the keyword BESSEL_SCALAR
CScalarBetween	Provides the keyword BETWEEN_SCALAR
CScalarCombine	Provides the keyword COMBINE_SCALAR
CScalarCustom	Provides the keyword CUSTOM_SCALAR
CScalarDifference	Provides the keyword DIFFERENCE_SCALAR
CScalarEvalGrid	Provides the keyword EVALUATE_FUNCTION_FROM_GRID_SCALAR
CScalarHighest	Provides the keyword HIGHEST_SCALAR
CScalarLessThan	Provides the keyword LESS_THAN_SCALAR
CScalarMoments	Provides the keyword MOMENTS_SCALAR
CScalarMoreThan	Provides the keyword MORE_THAN_SCALAR
CScalarPiecewise	Provides the keyword PIECEWISE_SCALAR
CScalarSort	Provides the keyword SORT_SCALAR
CPLMD::secondarystructure::SecondaryStructureDRMSDInput
CPLMD::secondarystructure::SecondaryStructureRMSDInput
CPLMD::piv::PIV::SharedData	Local structure, used to store data that should be shared across multiple PIV instances
CSingleargMoments	Provides the keyword MOMENTS_ONEARG
CPLMD::TypesafePtr::SizeLike	Small structure used to pass elements of a shape initializer_list
CPLMD::WithCmd::SizeLike	Small structure used to pass elements of a shape initializer_list
CPLMD::dimred::SMACOF
►CPLMD::gch::detail::small_vector_data_base< Pointer, SizeT >
CPLMD::gch::detail::small_vector_data< Pointer, SizeT, T, 0 >
CPLMD::gch::detail::small_vector_data< Pointer, SizeT, T, InlineCapacity >
CPLMD::gch::detail::small_vector_data< Pointer, SizeT, T, 0 >
►CPLMD::gch::detail::small_vector_data_base< ptr, size_type >
CPLMD::gch::detail::small_vector_data< ptr, size_type, value_ty, InlineCapacity >
CPLMD::gch::small_vector_iterator< Pointer, DifferenceType >
CPLMD::function::Sort
CSortShortcut	Provides the keyword SORT
CSpHarmShortcut	Provides the keyword SPHERICAL_HARMONIC
CPLMD::symfunc::SphericalHarmonic
Csphericalkde	Provides the keyword SPHERICAL_KDE
CPLMD::gridtools::SphericalKDEGridTools
CPLMD::isdb::SAXS::SplineCoeffs
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::stack_temporary
CPLMD::Communicator::Status	Wrapper class for MPI_Status
CPLMD::Stopwatch
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::strong_exception_policy
CPLMD::Subprocess	Class managing a subprocess
CPLMD::SubprocessPid	Small utility class, used to avoid inclusion of unistd.h> in a header file
CPLMD::gridtools::SumOfKernels< K, P >
►CPLMD::switchContainers::Switch
CPLMD::switchContainers::SwitchInterface< SF >
CPLMD::switchContainers::SwitchInterface_lepton
CPLMD::SwitchingFunction	Small class to compute switching functions
CPLMD::SwitchingFunctionAccelerable	Small class to compute switching functions
CPLMD::xdrfile::t_trnheader
CPLMD::TargetDist
►CPLMD::ves::TargetDistModifer
CPLMD::ves::WellTemperedModifer
CPLMD::bias::MetaD::TemperingSpecs
CPLMD::TensorGenericAux	Small class to contain local utilities
CPLMD::symfunc::ThreeBodyGFunctionsInput
CPLMD::Exception::Throw	Auxiliary class used to throw exceptions
CPLMD::maze::tls	Helper functions
Ctmap	Provides the keyword TOPOLOGY_MATRIX
CPLMD::TokenizedLine	This class abstracts the input line in tokens
CPLMD::Tools	Empty class which just contains several (static) tools
CPLMD::adjmat::TopologyMatrix
CPLMD::Torsion	Class to compute torsional angles
CTorsionMulti	Provides the keyword TORSION_VECTOR
CTorsionShortcut	Provides the keyword TORSION
CPLMD::adjmat::TorsionsMatrixInput
CPLMD::TrajectoryParser
CPLMD::Tree
►Cstd::true_type
CPLMD::gch::default_buffer_size< Allocator >::is_complete< U, decltype(static_cast< void >(sizeof(U)))>
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_construct_check< void_t< decltype(std::declval< A & >().construct(std::declval< V * >(), std::declval< Args >()...))>, A, V, Args... >
CPLMD::gch::detail::allocator_interface< Allocator >::has_alloc_destroy_impl< void_t< decltype(std::declval< A & >().destroy(std::declval< V * >()))>, A, V >
CPLMD::gch::detail::allocator_interface< Allocator >::has_ptr_traits_to_address< P, void_t< decltype(std::pointer_traits< P >::to_address(std::declval< P >()))> >
CPLMD::gch::detail::allocator_interface< Allocator >::is_complete< U, decltype(static_cast< void >(sizeof(U)))>
CPLMD::gch::detail::allocator_interface< Allocator >::is_small_vector_iterator< small_vector_iterator< Ts... > >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_emplace_constructible_impl< void_t< typename std::enable_if< is_complete< V >::value >::type, decltype(std::declval< AI & >().construct(std::declval< V * >(), std::declval< Args >()...))>, AI, V, Args... >
CPLMD::gch::detail::small_vector_base< Allocator, InlineCapacity >::is_eraseable< AI, void_t< decltype(std::declval< AI & >().destroy(std::declval< value_ty * >()))> >
CPLMD::mergeVectorTools::has_size_and_data< T, std::void_t< decltype(std::declval< T >().size()), decltype(std::declval< T >().data())> >
CPLMD::molfile::trx_hdr
CPLMD::TypesafePtr	Class to deal with propoagation of typesafe pointers
CPLMD::drr::UIestimator::UIestimator
CPLMD::gch::detail::allocator_interface< Allocator >::underlying_if_enum< T, Enable >
►Cstd::underlying_type
CPLMD::gch::detail::allocator_interface< Allocator >::underlying_if_enum< T, typename std::enable_if< std::is_enum< T >::value >::type >
CPLMD::UniformSphericalVector
►Cstd::unique_ptr< T >	STL class
CPLMD::ForwardDecl< PLMD::Pbc >
CPLMD::ForwardDecl< PLMD::Communicator >
CPLMD::ForwardDecl< PLMD::Random >
CPLMD::ForwardDecl< PLMD::PDB >
CPLMD::ForwardDecl< PLMD::PlumedMain::DeprecatedAtoms >
CPLMD::ForwardDecl< PLMD::DLLoader >
CPLMD::ForwardDecl< PLMD::Log >
CPLMD::ForwardDecl< PLMD::Stopwatch >
CPLMD::ForwardDecl< PLMD::Citations >
CPLMD::ForwardDecl< PLMD::ActionSet >
CPLMD::ForwardDecl< PLMD::ExchangePatterns >
CPLMD::ForwardDecl< PLMD::TypesafePtr >
CPLMD::ForwardDecl< T >	Utility class for forward declaration of references
CPLMD::Units	Small utility class that contains information about units
CPLMD::gridtools::UniversalVonMisses
CPLMD::Value	A class for holding the value of a function together with its derivatives
►Cstd::vector< T >	STL class
CPLMD::ActionSet	Std::vector containing the sequence of Action to be done
CPLMD::metatomic::vesin::cpu::CellList::Cell
CVectorBessel	Provides the keyword BESSEL_VECTOR
CVectorBetween	Provides the keyword BETWEEN_VECTOR
CVectorCombine	Provides the keyword COMBINE_VECTOR
CVectorCustom	Provides the keyword CUSTOM_VECTOR
CVectorDifference	Provides the keyword DIFFERENCE_VECTOR
CVectorEvalGrid	Provides the keyword EVALUATE_FUNCTION_FROM_GRID_VECTOR
CVectorHighest	Provides the keyword HIGHEST_VECTOR
CVectorLessThan	Provides the keyword LESS_THAN_VECTOR
CVectorMoments	Provides the keyword MOMENTS_VECTOR
CVectorMoreThan	Provides the keyword MORE_THAN_VECTOR
CVectorSort	Provides the keyword SORT_VECTOR
CPLMD::VectorTyped< T, n >	Class implementing fixed size vectors of doubles
CPLMD::metatomic::vesin::VesinNeighborList	The actual neighbor list
CPLMD::metatomic::vesin::VesinOptions	Options for a neighbor list calculation
CPLMD::ves::VesTools
CPLMD::View< T, N >	A not-owning view for generic data
CPLMD::View2D< T, N, M >	A not-owning view for accessing array witha 2D interface
CPLMD::ColvarOutput::VirialHelper
CPLMD::molfile::vmdplugin_t	Typedef for generic plugin header, individual plugins can make their own structures as long as the header info remains the same as the generic plugin header, most easily done by using the vmdplugin_HEAD macro
CVola	Provides the keyword AROUND_CALC
CVolc	Provides the keyword INCYLINDER_CALC
CVolCav	Provides the keyword CAVITY_CALC
Cvolenv	Provides the keyword INENVELOPE_CALC
CVols	Provides the keyword INSPHERE_CALC
CVolTet	Provides the keyword TETRAHEDRALPORE_CALC
CPLMD::volumes::VolumeAround
CVolumeAroundShortcut	Provides the keyword AROUND
CPLMD::volumes::VolumeCavity
CVolumeCavityShortcut	Provides the keyword CAVITY
CPLMD::volumes::VolumeData< T >
CPLMD::volumes::VolumeInCylinder
CVolumeInCylinderShortcut	Provides the keyword INCYLINDER
CPLMD::volumes::VolumeInEnvelope
CVolumeInEnvelopeShortcut	Provides the keyword INENVELOPE
CPLMD::volumes::VolumeInput
CPLMD::volumes::VolumeInSphere
CVolumeInSphereShortcut	Provides the keyword INSPHERE
CPLMD::volumes::VolumeOutput
CPLMD::volumes::VolumeTetrapore
CVolumeTetraporeShortcut	Provides the keyword TETRAHEDRALPORE
CPLMD::gridtools::VonMissesKernelParams
CPLMD::Stopwatch::Watch	Class to store a single stopwatch
CPLMD::ves::WaveletGrid
►CPLMD::WeightBase
CPLMD::BiasWeight
CPLMD::ProbWeight
CPLMD::ves::FesWeight
CPLMD::ves::MarginalWeight
►CPLMD::WithCmd	Base for classes with cmd() method
CPLMD::CLToolMain	Class providing cmd() access to command line tools
CPLMD::GREX
CPLMD::PlumedHandle	Tiny local class to load a PLUMED kernel
CPLMD::PlumedMain	Main plumed object
CPLMD::xdrfile::XDR
CPLMD::xdrfile::XDR::xdr_ops
CPLMD::xdrfile::XDRFILE	Contents of the abstract XDRFILE data structure