Class Index

A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X

A	DensityFillingRestraint (IMP::em)	InBoundingBox3DSingletonPredicate (IMP::core)	ParticleIndexesAdaptor (IMP::kernel)	SGEPESlaveArray (IMP.parallel)
	DensityHeader (IMP::em)	InContainerPairFilter (IMP::container)	ParticleIndexPairsAdaptor (IMP::kernel)	SGEQsubSlaveArray (IMP.parallel)
AddBoolFlag (IMP::base)	DensityMap (IMP::em)	InContainerQuadFilter (IMP::container)	ParticleInputs (IMP::kernel)	Shift (IMP::score_functor)
AddFloatFlag (IMP::base)	DependencyScoreState (IMP::domino)	InContainerSingletonFilter (IMP::container)	ParticleOutputs (IMP::kernel)	Showable (IMP::base)
AddIntFlag (IMP::base)	DerivativeAccumulator (IMP::kernel)	InContainerTripletFilter (IMP::container)	ParticlesAdaptor (IMP::domino)	SimpleAssignmentsTable (IMP::domino)
AddScores (IMP::score_functor)	DerivativeCalculator (IMP::saxs)	IncrementalScoringFunction (IMP::core)	ParticlesDummyRestraint (IMP::em2d)	SimpleConnectivity (IMP::restrainer)
AddStringFlag (IMP::base)	DerivativesFromRefined (IMP::core)	Index (IMP::base)	ParticleStates (IMP::domino)	SimpleDiameter (IMP::restrainer)
AlignmentClustering (IMP.multifit.cluster)	DerivativesToRefined (IMP::core)	IndexException (IMP::base)	ParticleStatesTable (IMP::domino)	SimpleDistance (IMP::restrainer)
AlignSymmetric (IMP::cnmultifit)	DiameterRestraint (IMP::core)	IndexStates (IMP::domino)	PartitionalClustering (IMP::statistics)	SimpleEMFit (IMP::restrainer)
AllBipartitePairContainer (IMP::container)	Diffusion (IMP::atom)	IndexVector (IMP::base)	PartitionalClusteringWithCenter (IMP::statistics)	SimpleExcludedVolume (IMP::restrainer)
AllMol2Selector (IMP::atom)	Dihedral (IMP::atom)	InitialDockingFromXlinks (IMP.em2d.buildxlinks)	PathLocalPlanner (IMP::kinematics)	SimpleLoadLink (IMP::rmf)
AllPairContainer (IMP::container)	DihedralAngleRevoluteJoint (IMP::kinematics)	InputAdaptor (IMP::base)	PCAAligner (IMP::em)	SimpleSaveLink (IMP::rmf)
AllPDBSelector (IMP::atom)	DihedralRestraint (IMP::core)	InternalException (IMP::base)	PCAFitRestraint (IMP::em)	Simplex (IMP::gsl)
AllSamePairPredicate (IMP::core)	DihedralSingletonScore (IMP::atom)	IOException (IMP::base)	PDBSelector (IMP::atom)	Simulator (IMP::atom)
AllSameQuadPredicate (IMP::core)	DirectorObjectChecker (IMP.test)	IsCollisionPairPredicate (IMP::core)	PermutationStates (IMP::domino)	SingletonConstraint (IMP::core)
AllSameSingletonPredicate (IMP::core)	DiscreteSampler (IMP::domino)	IsosurfaceGeometry (IMP::display)	piecewise_linear_distribution (IMP::base)	SingletonContainer (IMP::kernel)
AllSameTripletPredicate (IMP::core)	DisjointSetsSubsetFilterTable (IMP::domino)	J	Pipe (IMP.isd.utils)	SingletonContainerAdaptor (IMP::kernel)
AmbiguousNOERestraint (IMP::isd)	Display (IMP.restrainer)		PivyWriter (IMP::display)	SingletonContainerSet (IMP::container)
AmbiguousRestraint (IMP::isd)	DistanceFilter (IMP::em2d)	JeffreysRestraint (IMP::isd)	Plane3D (IMP::algebra)	SingletonContainerStatistics (IMP::container)
Analysis (IMP.isd.Analysis)	DistanceFilterTable (IMP::em2d)	Joint (IMP::kinematics)	PlaneGeometry (IMP::display)	SingletonGeometry (IMP::display)
AnchorsData (IMP::multifit)	DistanceMask (IMP::em)	JPGImageReaderWriter (IMP::em2d)	Pointer (IMP::base)	SingletonModifier (IMP::kernel)
AndPDBSelector (IMP::atom)	DistancePairScore (IMP::score_functor)	K	PointerMember (IMP::base)	SingletonPredicate (IMP::kernel)
Angle (IMP::atom)	DistancePairScore (IMP::core)		PointGeometry (IMP::display)	SingletonRestraint (IMP::core)
AngleRestraint (IMP::core)	DistanceRestraint (IMP::core)	KClosePairsPairScore (IMP::core)	PolarResamplingParameters (IMP::em2d)	SingletonsConstraint (IMP::container)
AngleSingletonScore (IMP::atom)	DistributePairsScoreState (IMP::container)	KernelParameters (IMP::em)	PolygonGeometry (IMP::display)	SingletonScore (IMP::kernel)
AngleTripletScore (IMP::core)	DistributeQuadsScoreState (IMP::container)	Key (IMP::kernel)	PPDBSelector (IMP::atom)	SingletonsGeometry (IMP::display)
ApplicationTestCase (IMP.test)	DistributeSingletonsScoreState (IMP::container)	KinematicForest (IMP::kinematics)	PredicatePairsRestraint (IMP::container)	SingletonsOptimizerState (IMP::container)
Array (IMP::base)	DistributeTripletsScoreState (IMP::container)	KinematicForestScoreState (IMP::kinematics)	PredicateQuadsRestraint (IMP::container)	SingletonsRestraint (IMP::container)
AssemblyHeader (IMP::multifit)	Distribution (IMP::saxs)	KinematicNode (IMP::kinematics)	PredicateSingletonScore (IMP::core)	SingletonStatistical (IMP::score_functor)
Assignment (IMP::domino)	DockOrder (IMP.em2d.buildxlinks)	KMeans (IMP::kmeans)	PredicateSingletonsRestraint (IMP::container)	SkinSurfaceGeometry (IMP::display)
AssignmentContainer (IMP::domino)	DOF (IMP::kinematics)	L	PredicateTripletsRestraint (IMP::container)	Slave (IMP.parallel)
AssignmentsTable (IMP::domino)	DOFsSampler (IMP::kinematics)		PrincipalComponentAnalysisD (IMP::algebra)	SlaveArray (IMP.parallel)
Atom (IMP::atom)	Domain (IMP::atom)	LabelGeometry (IMP::display)	PrismaticJoint (IMP::kinematics)	Slice (IMP::domino)
ATOMPDBSelector (IMP::atom)	DominoModel (IMP.em2d.DominoModel)	LangevinThermostatOptimizerState (IMP::atom)	ProbabilisticAnchorGraph (IMP::multifit)	SmoothingFunction (IMP::atom)
AtomType (IMP::atom)	DominoSampler (IMP::domino)	LeavesRefiner (IMP::core)	ProbabilisticSubsetFilterTable (IMP::domino)	Soap (IMP::score_functor)
AttributeOptimizer (IMP::kernel)	Dope (IMP::score_functor)	LennardJones (IMP::atom)	Profile (IMP::saxs)	SoftCylinderPairScore (IMP::misc)
AttributeSingletonPredicate (IMP::core)	DopePairScore (IMP::atom)	LennardJonesPairScore (IMP::atom)	ProfileFitter (IMP::saxs)	SoftSpherePairScore (IMP::core)
B	DummyRestraint (IMP::multifit)	LessPairBySecond (IMP::em2d)	Profiler (IMP::benchmark)	SolventAccessibleSurface (IMP::saxs)
	DummyRestraint (IMP::em2d)	Linear (IMP::core)	ProjectingOptions (IMP::em2d)	SparseGrid3D (IMP::algebra)
BackbonePDBSelector (IMP::atom)	DynamicListPairContainer (IMP::container)	Linear1DFunction (IMP::isd)	ProjectingParameters (IMP::em2d)	SparseGridStorageD (IMP::algebra)
BallMover (IMP::symmetry)	DynamicListQuadContainer (IMP::container)	LinearFit2D (IMP::algebra)	ProjectionFinder (IMP::em2d)	SparseSymmetricPairMemoizer (IMP::base)
BallMover (IMP::core)	DynamicListSingletonContainer (IMP::container)	LinearLowerBound (IMP::score_functor)	ProjectionMask (IMP::em2d)	SparseUnboundedGrid3D (IMP::algebra)
BerendsenThermostatOptimizerState (IMP::atom)	DynamicListTripletContainer (IMP::container)	ListAssignmentContainer (IMP::domino)	ProjectionParameters (IMP::em2d)	SparseUnboundedGridD (IMP::algebra)
BildWriter (IMP::display)	DynamicNearestNeighbor3D (IMP::algebra)	ListAssignmentsTable (IMP::domino)	ProjectionParametersScoreState (IMP::em2d)	SphereD (IMP::algebra)
BinormalTerm (IMP::modeller)	E	ListPairContainer (IMP::container)	ProjectionStates (IMP::em2d)	SphereDistance (IMP::score_functor)
BivariateFunction (IMP::isd)		ListQuadContainer (IMP::container)	ProteinKinematics (IMP::kinematics)	SphereDistancePairScore (IMP::core)
ForceFieldParameters::Bond (IMP::atom)	EdgePairGeometry (IMP::core)	ListSingletonContainer (IMP::container)	ProteinLigandAtomPairScore (IMP::atom)	SphereDistanceToSingletonScore (IMP::core)
Bond (IMP::atom)	EdgePairsGeometry (IMP::core)	ListSubsetFilterTable (IMP::domino)	ProteinLigandRestraint (IMP::atom)	SphereGeometry (IMP::display)
BondAngleRevoluteJoint (IMP::kinematics)	ElementTable (IMP::atom)	ListTripletContainer (IMP::container)	ProteinsAnchorsSamplingSpace (IMP::multifit)	SpherePatch3D (IMP::algebra)
Bonded (IMP::atom)	Ellipsoid3D (IMP::algebra)	LoadLink (IMP::rmf)	ProteomicsData (IMP::multifit)	SphericalVector3D (IMP::algebra)
BondedPairFilter (IMP::atom)	EllipsoidGeometry (IMP::display)	LocalPlanner (IMP::kinematics)	ProteomicsEMAlignmentAtomic (IMP::multifit)	SpiderHeader (IMP::em)
BondEndpointsRefiner (IMP::atom)	Em2DRestraint (IMP::em2d)	LocalSlave (IMP.parallel)	PymolWriter (IMP::display)	SpiderImageReaderWriter (IMP::em2d)
BondGeometry (IMP::atom)	EM2DScore (IMP::em2d)	LogEmbeddingD (IMP::algebra)	PythonDirectedGraph (IMP::kernel)	SpiderMapReaderWriter (IMP::em)
BondGraph (IMP::atom)	Embedding (IMP::statistics)	LognormalRestraint (IMP::isd)	Q	StateAdaptor (IMP::misc)
BondPairContainer (IMP::atom)	EMReaderWriter (IMP::em)	LogPairScore (IMP::misc)		Statistical (IMP::score_functor)
BondsGeometry (IMP::atom)	Ensemble (IMP::multifit)	LowestRefinedPairScore (IMP::misc)	QuadConstraint (IMP::core)	StatisticalPairScore (IMP::core)
BondSingletonScore (IMP::atom)	EnvelopeFitRestraint (IMP::em)	LRUCache (IMP::base)	QuadContainer (IMP::kernel)	Statistics (IMP.isd.Statistics)
BoundedGridRangeD (IMP::algebra)	EnvelopePenetrationRestraint (IMP::em)	M	QuadContainerAdaptor (IMP::kernel)	SteepestDescent (IMP::core)
BoundingBoxD (IMP::algebra)	EnvelopeScore (IMP::em)		QuadContainerSet (IMP::container)	StereochemistryPairFilter (IMP::atom)
BoundingBoxGeometry (IMP::display)	EqualitySubsetFilterTable (IMP::domino)	Manager (IMP.parallel)	QuadContainerStatistics (IMP::container)	Subset (IMP::domino)
BoxSweepClosePairsFinder (IMP::core)	EquivalenceAndExclusionSubsetFilterTable (IMP::domino)	map (IMP::base)	QuadModifier (IMP::kernel)	SubsetFilter (IMP::domino)
BranchAndBoundAssignmentsTable (IMP::domino)	EquivalenceSubsetFilterTable (IMP::domino)	MapDistanceTransform (IMP::em)	QuadPredicate (IMP::kernel)	SubsetFilterTable (IMP::domino)
BranchAndBoundSampler (IMP::domino)	Error (IMP.parallel)	MapReaderWriter (IMP::em)	QuadraticClosePairsFinder (IMP::core)	SurfaceMeshGeometry (IMP::display)
BrownianDynamics (IMP::atom)	EuclideanMetric (IMP::statistics)	MarginalHBondRestraint (IMP::isd)	QuadRestraint (IMP::core)	SurfaceShellDensityMap (IMP::em)
C	EuclideanVectorKDMetric (IMP::algebra)	MarginalNOERestraint (IMP::isd)	QuadsConstraint (IMP::container)	Switching (IMP::isd)
	EvaluationState (IMP::kernel)	MasksManager (IMP::em2d)	QuadScore (IMP::kernel)	T
CAlphaPDBSelector (IMP::atom)	EventException (IMP::base)	Mass (IMP::atom)	QuadsOptimizerState (IMP::container)
CappedAssignmentContainer (IMP::domino)	EventPairsOptimizerState (IMP::container)	MasterCommunicator (IMP.parallel.master_communicator)	QuadsRestraint (IMP::container)	TableRefiner (IMP::core)
CBetaPDBSelector (IMP::atom)	EventQuadsOptimizerState (IMP::container)	MatchTemplateResult (IMP::em2d)	QuasiNewton (IMP::gsl)	TALOSReader (IMP.isd.TALOSReader)
CenteredMat (IMP::em2d)	EventSingletonsOptimizerState (IMP::container)	MaxVectorKDMetric (IMP::algebra)	R	TALOSRestraint (IMP::isd)
Centroid (IMP::core)	EventTripletsOptimizerState (IMP::container)	MCCGSampler (IMP::core)		TestCase (IMP.test)
CentroidOfRefined (IMP::core)	ExampleComplexRestraint (IMP::example)	MeanAbsoluteDifference (IMP::em2d)	RadialDistributionFunction (IMP::saxs)	TextInput (IMP::base)
Chain (IMP::atom)	ExampleConstraint (IMP::example)	Memoizer (IMP::base)	RadiusDependentDistanceMask (IMP::em)	TextOutput (IMP::base)
ChainPDBSelector (IMP::atom)	ExampleDecorator (IMP::example)	MergeTreeBuilder (IMP::multifit)	RadiusDependentKernelParameters (IMP::em)	TextWriter (IMP::display)
Charged (IMP::atom)	ExampleObject (IMP::example)	Metric (IMP::statistics)	RadiusOfGyrationRestraint (IMP::saxs)	TIFFImageReaderWriter (IMP::em2d)
CHARMMAtom (IMP::atom)	ExamplePairScore (IMP::example)	MetricClosePairsFinder (IMP::misc)	RadiusOfGyrationRestraint (IMP::multifit)	Timer (IMP::base)
CHARMMAtomTopology (IMP::atom)	ExampleRestraint (IMP::example)	MinimumPairRestraint (IMP::container)	RAII (IMP::base)	Transform (IMP::core)
CHARMMBondEndpoint (IMP::atom)	ExampleSingletonModifier (IMP::example)	MinimumPairScore (IMP::container)	RangeViewAssignmentContainer (IMP::domino)	Transformation2D (IMP::algebra)
CHARMMBondParameters (IMP::atom)	ExampleSubsetFilterTable (IMP::example)	MinimumQuadRestraint (IMP::container)	ReadAssignmentContainer (IMP::domino)	Transformation3D (IMP::algebra)
CHARMMConnection (IMP::atom)	ExampleTemplateClassD (IMP::example)	MinimumQuadScore (IMP::container)	ReadHDF5AssignmentContainer (IMP::domino)	TransformationAndReflectionSymmetry (IMP::core)
CHARMMDihedralParameters (IMP::atom)	ExampleUnaryFunction (IMP::example)	MinimumRestraint (IMP::core)	RecursiveAssignmentsTable (IMP::domino)	TransformationJoint (IMP::kinematics)
CHARMMIdealResidueTopology (IMP::atom)	Exception (IMP::base)	MinimumRestraintScoreSubsetFilterTable (IMP::domino)	RecursivePartitionalClusteringEmbedding (IMP::statistics)	TransformationSymmetry (IMP::core)
CHARMMInternalCoordinate (IMP::atom)	ExcludedVolumeRestraint (IMP::core)	MinimumSingletonRestraint (IMP::container)	RecursivePartitionalClusteringMetric (IMP::statistics)	TransformedDistancePairScore (IMP::core)
CHARMMParameters (IMP::atom)	ExclusionSubsetFilterTable (IMP::domino)	MinimumSingletonScore (IMP::container)	RecursiveStates (IMP::domino)	Triangle3D (IMP::algebra)
CHARMMPatch (IMP::atom)	ExclusiveConsecutivePairContainer (IMP::container)	MinimumTripletRestraint (IMP::container)	RefCountChecker (IMP.test)	TriangleGeometry (IMP::display)
CHARMMResidueTopology (IMP::atom)	ExclusiveConsecutivePairFilter (IMP::container)	MinimumTripletScore (IMP::container)	Reference (IMP::core)	TripletConstraint (IMP::core)
CHARMMResidueTopologyBase (IMP::atom)	ExtendedGridIndexD (IMP::algebra)	Model (IMP::kernel)	ReferenceFrame3D (IMP::algebra)	TripletContainer (IMP::kernel)
CHARMMSegmentTopology (IMP::atom)	EzRestraint (IMP::atom)	ModelException (IMP::base)	ReferenceFrameGeometry (IMP::display)	TripletContainerAdaptor (IMP::kernel)
CHARMMStereochemistryRestraint (IMP::atom)	F	ModellerRestraints (IMP.modeller)	RefinedPairsPairScore (IMP::core)	TripletContainerSet (IMP::container)
CHARMMTopology (IMP::atom)		ModelLoader (IMP.modeller)	Refiner (IMP::kernel)	TripletContainerStatistics (IMP::container)
ChecksScoreState (IMP::core)	FFTFitting (IMP::multifit)	ModelObject (IMP::kernel)	Reflection3D (IMP::algebra)	TripletModifier (IMP::kernel)
ChiFreeScore (IMP::saxs)	FFTFittingOutput (IMP::multifit)	ModifierVisitor (IMP::core)	RegistrationResult (IMP::em2d)	TripletPredicate (IMP::kernel)
ChildrenRefiner (IMP::core)	FilterGeometry (IMP::display)	Mol2Selector (IMP::atom)	RelativePositionMover (IMP::em2d)	TripletRestraint (IMP::core)
ChimeraWriter (IMP::display)	Fine2DRegistrationRestraint (IMP::em2d)	MolCnSymmAxisDetector (IMP::cnmultifit)	RemoteError (IMP.parallel)	TripletsConstraint (IMP::container)
ChiScore (IMP::saxs)	FitRestraint (IMP::em)	MolecularDynamics (IMP::atom)	RemoveRigidMotionOptimizerState (IMP::atom)	TripletScore (IMP::kernel)
ChiScoreLog (IMP::saxs)	FittingSolutionRecord (IMP::multifit)	MolecularDynamics (IMP::isd)	RemoveTranslationOptimizerState (IMP::atom)	TripletsOptimizerState (IMP::container)
ChiSquaredScore (IMP::em2d)	FittingSolutions (IMP::em)	MolecularDynamicsMover (IMP::isd)	ReplicaExchange (IMP::mpi)	TripletsRestraint (IMP::container)
ChiSquareMetric (IMP::statistics)	FittingStates (IMP::multifit)	Molecule (IMP::atom)	Representation (IMP.restrainer)	TruncatedHarmonic (IMP::core)
CloseBipartitePairContainer (IMP::container)	FixedRefiner (IMP::core)	MonteCarlo (IMP::core)	RepulsiveDistancePairScore (IMP::isd)	Typed (IMP::core)
ClosedCubicSpline (IMP::core)	FixedXYZ (IMP::algebra)	MonteCarloMover (IMP::core)	Residue (IMP::atom)	TypedPairScore (IMP::core)
ClosePairContainer (IMP::container)	FloatIndex (IMP::kernel)	MonteCarloMoverResult (IMP::core)	ResidueRotamer (IMP::rotamer)	U
ClosePairsFinder (IMP::core)	FNormal (IMP::isd)	MonteCarloRelativeMoves (IMP.em2d.MonteCarloRelativeMoves)	ResidueType (IMP::atom)
ClosePairsPairScore (IMP::core)	ForceFieldParameters (IMP::atom)	MonteCarloWithBasinHopping (IMP::core)	Restraint (IMP::kernel)	UnaryFunction (IMP::kernel)
ClusterRecord (IMP.em2d.solutions_io)	ForceSwitch (IMP::atom)	MonteCarloWithLocalOptimization (IMP::core)	Restraint (IMP.restrainer)	UnaryFunctionEvaluate (IMP::score_functor)
CMMWriter (IMP::display)	FormFactorTable (IMP::saxs)	Mover (IMP::core)	Restraint (IMP::saxs)	UnboundedGridRangeD (IMP::algebra)
CnSymmAxisDetector (IMP::cnmultifit)	Fragment (IMP::atom)	MoverBase (IMP::core)	RestraintCache (IMP::domino)	UncheckedWeakPointer (IMP::base)
CoarseCC (IMP::em)	FretData (IMP::isd)	MoveStatisticsScoreState (IMP::core)	RestraintGeometry (IMP::display)	Undecorator (IMP::kernel)
CoarseCCatIntervals (IMP::em)	FretRestraint (IMP::isd)	MRCReaderWriter (IMP::em)	RestraintsAdaptor (IMP::kernel)	UniformBackboneSampler (IMP::kinematics)
CoarseConvolution (IMP::em)	G	MSConnectivityRestraint (IMP::core)	RestraintScoreSubsetFilterTable (IMP::domino)	UnivariateFunction (IMP::isd)
CoinFlipPairPredicate (IMP::core)		MultipleBinormalRestraint (IMP::modeller)	RestraintSet (IMP::kernel)	UnorderedTypePairPredicate (IMP::core)
CoinFlipQuadPredicate (IMP::core)	GaussianProcessInterpolation (IMP::isd)	MultivariateFNormalSufficient (IMP::isd)	RestraintSetGeometry (IMP::display)	UnorderedTypeQuadPredicate (IMP::core)
CoinFlipSingletonPredicate (IMP::core)	GaussianProcessInterpolationRestraint (IMP::isd)	MyMetric (write_a_metric)	RestraintsScoringFunction (IMP::core)	UnorderedTypeSingletonPredicate (IMP::core)
CoinFlipTripletPredicate (IMP::core)	GaussianRestraint (IMP::isd)	N	ResultsDB (IMP.em2d.solutions_io)	UnorderedTypeTripletPredicate (IMP::core)
CollisionCrossSection (IMP::em2d)	GeneralizedGuinierPorodFunction (IMP::isd)		RevoluteJoint (IMP::kinematics)	UsageException (IMP::base)
Color (IMP::display)	GenericAttributeSingletonScore (IMP::core)	NearestNeighborD (IMP::algebra)	RigidBodiesImageFitRestraint (IMP::em2d)	V
Colored (IMP::display)	GenericBoundingBox3DSingletonScore (IMP::core)	NearestNeighborsClosePairsFinder (IMP::core)	RigidBody (IMP::core)
CommandDispatcher (IMP.kernel)	GenericDistanceToSingletonScore (IMP::core)	NeighborsTable (IMP::core)	RigidBodyDerivativeGeometry (IMP::core)	Value (IMP::base)
CommonEndpointPairFilter (IMP::misc)	GenericScopedRemoveRestraint (IMP::kernel)	NestedRigidBodyStates (IMP::domino)	RigidBodyDerivativesGeometry (IMP::core)	ValueException (IMP::base)
ComplementarityRestraint (IMP::multifit)	GenericScopedRemoveScoreState (IMP::kernel)	NetworkError (IMP.parallel)	RigidBodyDiffusion (IMP::atom)	Vector (IMP::base)
ComponentHeader (IMP::multifit)	GenericScopedRestraint (IMP::kernel)	NOERestraint (IMP::isd)	RigidBodyDistancePairScore (IMP::core)	VectorD (IMP::algebra)
CompositeJoint (IMP::kinematics)	GenericScopedScoreState (IMP::kernel)	NoMoreSlavesError (IMP.parallel)	RigidBodyFrameGeometry (IMP::core)	VectorDEmbedding (IMP::statistics)
CompoundStates (IMP::domino)	GeometricHash (IMP::multifit)	NonAlternativePDBSelector (IMP::atom)	RigidBodyFramesGeometry (IMP::core)	VectorInputD (IMP::algebra)
Cone3D (IMP::algebra)	GeometricPrimitiveD (IMP::algebra)	NonCopyable (IMP::base)	RigidBodyHierarchyGeometry (IMP::core)	VectorInputD< 1 > (IMP::algebra)
Configuration (IMP::kernel)	Geometry (IMP::display)	NonHydrogenMol2Selector (IMP::atom)	RigidBodyMember (IMP::core)	VectorKDMetric (IMP::algebra)
ConfigurationSet (IMP::kernel)	GeometryProcessor (IMP::display)	NonRigidMember (IMP::core)	RigidBodyMover (IMP::core)	VelocityScalingOptimizerState (IMP::atom)
ConfigurationSetRMSDMetric (IMP::statistics)	GeometrySet (IMP::display)	NonWaterNonHydrogenPDBSelector (IMP::atom)	RigidBodyMover (IMP::symmetry)	VersionInfo (IMP::base)
ConfigurationSetXYZEmbedding (IMP::statistics)	GridClosePairsFinder (IMP::core)	NonWaterPDBSelector (IMP::atom)	RigidBodyStates (IMP::domino)	VolumeRestraint (IMP::core)
ConjugateGradients (IMP::core)	GridD (IMP::algebra)	NormalizedSphereDistancePairScore (IMP::core)	RigidBodyTorque (IMP::core)	vonMises (IMP::isd)
ConjugateGradients (IMP::gsl)	GridIndexD (IMP::algebra)	NormalMover (IMP::core)	RigidClosePairsFinder (IMP::core)	vonMisesKappaConjugateRestraint (IMP::isd)
ConnectingPairContainer (IMP::container)	GridStates (IMP::em2d)	NotPDBSelector (IMP::atom)	RigidMember (IMP::core)	vonMisesKappaJeffreysRestraint (IMP::isd)
ConnectivityRestraint (IMP::core)	GSLOptimizer (IMP::gsl)	NPDBSelector (IMP::atom)	RotamerAngleTuple (IMP::rotamer)	vonMisesSufficient (IMP::isd)
ConsecutivePairContainer (IMP::container)	H	Nuisance (IMP::isd)	RotamerCalculator (IMP::rotamer)	Voxel (IMP::em)
ConsecutivePairFilter (IMP::container)		O	RotamerLibrary (IMP::rotamer)	W
ConstantPairPredicate (IMP::core)	Harmonic (IMP::score_functor)		Rotation2D (IMP::algebra)
ConstantQuadPredicate (IMP::core)	Harmonic (IMP::core)	Object (IMP::base)	Rotation3D (IMP::algebra)	WarningContext (IMP::base)
ConstantRestraint (IMP::core)	HarmonicDistancePairScore (IMP::core)	OpenCubicSpline (IMP::score_functor)	RRT (IMP::kinematics)	WaterPDBSelector (IMP::atom)
ConstantSingletonPredicate (IMP::core)	HarmonicLowerBound (IMP::score_functor)	OpenCubicSpline (IMP::core)	RunInTempDir (IMP.test)	WeakPointer (IMP::base)
ConstantTripletPredicate (IMP::core)	HarmonicLowerBound (IMP::core)	Optimizer (IMP::kernel)	S	Weight (IMP::isd)
Constraint (IMP::kernel)	HarmonicSphereDistancePairScore (IMP::core)	OptimizerState (IMP::kernel)		WeightedExcludedVolumeRestraint (IMP::multifit)
ConstVector (IMP::base)	HarmonicUpperBound (IMP::score_functor)	OptionParser (IMP.kernel)	SameResiduePairFilter (IMP::atom)	WeightedProfileFitter (IMP::saxs)
Container (IMP::kernel)	HarmonicUpperBound (IMP::core)	Order (IMP::domino)	SampleAssignmentContainer (IMP::domino)	WeightedSphereDistancePairScore (IMP::core)
Context (IMP.parallel)	HarmonicUpperBoundSphereDiameterPairScore (IMP::core)	OrderedTypePairPredicate (IMP::core)	SampledDensityMap (IMP::em)	WeightMover (IMP::isd)
Copy (IMP::atom)	HarmonicUpperBoundSphereDistancePairScore (IMP::core)	OrderedTypeQuadPredicate (IMP::core)	Sampler (IMP::kernel)	WeightRestraint (IMP::isd)
Cosine (IMP::core)	HarmonicWell (IMP::core)	OrderedTypeSingletonPredicate (IMP::core)	SaveLink (IMP::rmf)	WeightScore (IMP::score_functor)
CoulombPairScore (IMP::atom)	HasHigherCCC (IMP::em2d)	OrderedTypeTripletPredicate (IMP::core)	SaveOptimizerState (IMP::rmf)	WormLikeChain (IMP::misc)
Covariance1DFunction (IMP::isd)	HasLowerScore (IMP::em2d)	OrPDBSelector (IMP::atom)	SaveToConfigurationSetOptimizerState (IMP::kernel)	WriteAssignmentContainer (IMP::domino)
Cover (IMP::core)	HeapAssignmentContainer (IMP::domino)	OwnerPointer (IMP::base)	Scale (IMP::isd)	WriteHDF5AssignmentContainer (IMP::domino)
CoverBond (IMP::atom)	HeapRecord (IMP.em2d.solutions_io)	P	ScopedAddCacheAttribute (IMP::kernel)	WriteOptimizerState (IMP::display)
CoverRefined (IMP::core)	HierarchiesGeometry (IMP::atom)		ScopedSetAttribute (IMP::kernel)	WritePDBOptimizerState (IMP::atom)
CPDBSelector (IMP::atom)	Hierarchy (IMP::atom)	PackedAssignmentContainer (IMP::domino)	Score (IMP::score_functor)	Writer (IMP::display)
CreateLogContext (IMP::base)	Hierarchy (IMP::core)	PairConstraint (IMP::core)	ScoreAccumulator (IMP::kernel)	WriterAdaptor (IMP::display)
CrossLinkData (IMP::isd)	HierarchyCounter (IMP::core)	PairContainer (IMP::kernel)	ScoreFunction (IMP::em2d)	WriteRestraintScoresOptimizerState (IMP::core)
CustomXYZR (IMP::misc)	HierarchyGeometry (IMP::atom)	PairContainerAdaptor (IMP::kernel)	ScoreState (IMP::kernel)	X
CvEstimator (IMP.isd.TuneRex)	HierarchyLoadLink (IMP::rmf)	PairContainerSet (IMP::container)	ScoreUnaryFunction (IMP::score_functor)
Cylinder3D (IMP::algebra)	HierarchySaveLink (IMP::rmf)	PairContainerStatistics (IMP::container)	ScoringFunction (IMP::kernel)	Xlink (IMP.em2d.buildxlinks)
CylinderGeometry (IMP::display)	HierarchyTraits (IMP::core)	PairGeometry (IMP::display)	ScoringFunctionAdaptor (IMP::kernel)	XlinksDict (IMP.em2d.buildxlinks)
CysteineCrossLinkData (IMP::isd)	HierarchyVisitor (IMP::core)	PairListSubsetFilterTable (IMP::domino)	SecondaryStructureResidue (IMP::atom)	XMLDisplay (IMP.restrainer)
CysteineCrossLinkRestraint (IMP::isd)	HighDensityEmbedding (IMP::em)	PairModifier (IMP::kernel)	Segment3D (IMP::algebra)	XMLRepresentation (IMP.restrainer)
D	Histogram (IMP::statistics)	PairPredicate (IMP::kernel)	SegmentationParameters (IMP::em2d)	XMLRestraint (IMP.restrainer)
	HistogramD (IMP::statistics)	PairRestraint (IMP::core)	SegmentGeometry (IMP::display)	XplorReaderWriter (IMP::em)
Database2 (IMP.em2d.Database)	History (IMP.isd.History)	PairsConstraint (IMP::container)	Selection (IMP::atom)	XYZ (IMP::core)
DataObject (IMP::core)	HybridMonteCarlo (IMP::isd)	PairScore (IMP::kernel)	SelectionGeometry (IMP::atom)	XYZDerivativeGeometry (IMP::core)
DataPointsAssignment (IMP::multifit)	HydrogenPDBSelector (IMP::atom)	PairsGeometry (IMP::display)	SerialMover (IMP::core)	XYZDerivativesGeometry (IMP::core)
DecayPairContainerOptimizerState (IMP::misc)	I	PairsOptimizerState (IMP::container)	set (IMP::base)	XYZR (IMP::core)
Decorator (IMP::kernel)		PairsRestraint (IMP::container)	SetCheckState (IMP::base)	XYZRGeometry (IMP::core)
DefaultEmbeddingD (IMP::algebra)	Image (IMP::em2d)	ParabolicFit2D (IMP::algebra)	SetLogState (IMP::base)	XYZRsGeometry (IMP::core)
DeltaDistributionFunction (IMP::saxs)	ImageHeader (IMP::em)	Particle (IMP::kernel)	SetLogTarget (IMP::base)	XYZStates (IMP::domino)
DenseGrid3D (IMP::algebra)	ImageReaderWriter (IMP::em2d)	ParticleAdaptor (IMP::kernel)	SetNumberOfThreads (IMP::base)
DenseGridStorageD (IMP::algebra)	IMPRestraints (IMP.modeller)	ParticleEmbedding (IMP::statistics)	SettingsData (IMP::multifit)
DensityDataPoints (IMP::multifit)	ImproperSingletonScore (IMP::atom)	ParticleIndexAdaptor (IMP::kernel)	sfo_common (IMP.isd.shared_functions)

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