IMP logo
IMP Reference Guide  develop.b708a66810,2021/08/02
The Integrative Modeling Platform
core Directory Reference
+ Directory dependency graph for core:

Files

file  AngleRestraint.h [code]
 Angle restraint between three particles.
 
file  AngleTripletScore.h [code]
 A Score on the angle between three particles.
 
file  core/BallMover.h [code]
 A modifier which variables within a ball.
 
file  blame.h [code]
 Various important functionality for implementing decorators.
 
file  BoundingBox3DSingletonScore.h [code]
 Score particles based on a bounding box.
 
file  BoundingSphere3DSingletonScore.h [code]
 Score particles based on a bounding sphere - score would typically increase as particles are exiting the sphere boundaries, and must be zero within the sphere and positive outside of it.
 
file  BoxSweepClosePairsFinder.h [code]
 Test all pairs of particles to find close pairs.
 
file  CentroidOfRefined.h [code]
 Set the coordinates of the particle to be the centroid of the refined particles.
 
file  ChecksScoreState.h [code]
 Turn checks on and off.
 
file  ChildrenRefiner.h [code]
 Return the hierarchy children of a particle.
 
file  ClosedCubicSpline.h [code]
 Closed cubic spline function.
 
file  ClosePairsFinder.h [code]
 A base class for algorithms to detect proximities.
 
file  ClosePairsPairScore.h [code]
 Apply a PairScore to close pairs.
 
file  core/ConjugateGradients.h [code]
 Simple conjugate gradients optimizer.
 
file  ConnectivityRestraint.h [code]
 Connectivity restraint.
 
file  ConstantRestraint.h [code]
 Constant restraint.
 
file  core_config.h [code]
 
file  Cosine.h [code]
 Cosine function.
 
file  CoverRefined.h [code]
 Set the position and radius of a particle to enclose the refined.
 
file  DataObject.h [code]
 A modifier which variables within a ball.
 
file  DerivativesFromRefined.h [code]
 Accumulate the derivatives of the refined particles.
 
file  DerivativesToRefined.h [code]
 Accumulate the derivatives of the refined particles.
 
file  DiameterRestraint.h [code]
 A restraint to maintain the diameter of a set of points.
 
file  DihedralRestraint.h [code]
 Dihedral restraint between four particles.
 
file  direction.h [code]
 Decorators for directions and the angle between them.
 
file  DirectionMover.h [code]
 A mover that transforms a Direction.
 
file  core/DistancePairScore.h [code]
 A Score on the distance between a pair of particles.
 
file  DistanceRestraint.h [code]
 Distance restraint between two particles.
 
file  DistanceToSingletonScore.h [code]
 A Score on the distance to a fixed point.
 
file  ExcludedVolumeRestraint.h [code]
 Prevent spheres from inter-penetrating.
 
file  FixedRefiner.h [code]
 A particle refiner which returns a fixed set of particles.
 
file  core/Gaussian.h [code]
 Decorator to hold Gaussian3D.
 
file  core/generic.h [code]
 Various important functionality for implementing decorators.
 
file  GenericAttributeSingletonScore.h [code]
 A score based on the unmodified value of an attribute.
 
file  GridClosePairsFinder.h [code]
 Use a hierarchy of grids to find close pairs.
 
file  core/Harmonic.h [code]
 Harmonic function.
 
file  core/HarmonicLowerBound.h [code]
 Harmonic lower bound function.
 
file  core/HarmonicUpperBound.h [code]
 Harmonic upper bound function.
 
file  HarmonicWell.h [code]
 Harmonic function.
 
file  core/Hierarchy.h [code]
 Decorator for helping deal with a hierarchy.
 
file  IncrementalScoringFunction.h [code]
 Score model efficiently when a small number of particles are changed.
 
file  LeavesRefiner.h [code]
 Return the hierarchy leaves under a particle.
 
file  Linear.h [code]
 A linear function.
 
file  LogNormalMover.h [code]
 A modifier that perturbs a point with a log-normal distribution.
 
file  MCCGSampler.h [code]
 A Monte Carlo/Conjugate Gradients based sampler.
 
file  MinimumRestraint.h [code]
 Score based on the k minimum restraints.
 
file  model_statistics.h [code]
 Write the scores of the passed restraints to a file.
 
file  MonteCarlo.h [code]
 Simple Monte Carlo optimizer.
 
file  MonteCarloMover.h [code]
 The base class for movers for Monte Carlo optimization.
 
file  MoveStatisticsScoreState.h [code]
 Write geometry to a file during optimization.
 
file  MSConnectivityRestraint.h [code]
 Mass Spec Connectivity restraint.
 
file  MultipleBinormalRestraint.h [code]
 Modeller-style multiple binormal (phi/psi) restraint.
 
file  NearestNeighborsClosePairsFinder.h [code]
 Test all pairs of particles to find close pairs.
 
file  NeighborsTable.h [code]
 Copyright 2007-2021 IMP Inventors. All rights reserved.
 
file  NormalMover.h [code]
 A modifier which perturbs a point with a normal distribution.
 
file  core/OpenCubicSpline.h [code]
 Open cubic spline function.
 
file  pair_predicates.h [code]
 Define some predicates.
 
file  PairConstraint.h [code]
 Use a PairModifier applied to a ParticlePairsTemp to maintain an invariant.
 
file  PairRestraint.h [code]
 Apply a PairScore to a Pair.
 
file  PeriodicOptimizerState.h [code]
 Angle restraint between three particles.
 
file  predicates.h [code]
 Score particles based on a bounding box.
 
file  provenance.h [code]
 Classes to track how the model was created.
 
file  core/python_only.h [code]
 Functionality only available in Python.
 
file  quad_predicates.h [code]
 Define some predicates.
 
file  QuadConstraint.h [code]
 Use a QuadModifier applied to a ParticleQuadsTemp to maintain an invariant.
 
file  QuadraticClosePairsFinder.h [code]
 Test all pairs of particles to find close pairs.
 
file  QuadRestraint.h [code]
 Apply a QuadScore to a Quad.
 
file  RefinedPairsPairScore.h [code]
 Generate pairs by applying a Refiner to the particles.
 
file  RestraintsScoringFunction.h [code]
 A scoring function on a list of restraints.
 
file  rigid_bodies.h [code]
 functionality for defining rigid bodies
 
file  rigid_body_geometries.h [code]
 functionality for defining rigid bodies
 
file  RigidBodyAnglePairScore.h [code]
 A Score on the crossing angle between two rigid bodies.
 
file  RigidBodyDistancePairScore.h [code]
 Act on the distance between two rigid bodies.
 
file  core/RigidBodyMover.h [code]
 A mover that transforms a rigid body.
 
file  RigidBodyTunneler.h [code]
 A mover that transform a rigid body.
 
file  RigidBodyUmbrella.h [code]
 Distance restraint between two particles.
 
file  RigidClosePairsFinder.h [code]
 Handle rigid bodies by looking at their members.
 
file  SerialMover.h [code]
 A mover that applies other movers one at a time.
 
file  singleton_predicates.h [code]
 Define some predicates.
 
file  SingletonConstraint.h [code]
 Use a SingletonModifier applied to a ParticlesTemp to maintain an invariant.
 
file  SingletonRestraint.h [code]
 Apply a SingletonScore to a Singleton.
 
file  SphereDistancePairScore.h [code]
 A score on the distance between the surfaces of two spheres.
 
file  StatisticalPairScore.h [code]
 Functions to read mol2s.
 
file  SteepestDescent.h [code]
 Simple steepest descent optimizer.
 
file  SubsetMover.h [code]
 A mover that applies a random subset of movers.
 
file  Surface.h [code]
 Simple surface decorator.
 
file  core/SurfaceDistancePairScore.h [code]
 A score on the distance between a surface and a sphere.
 
file  SurfaceMover.h [code]
 A mover that transforms a Surface.
 
file  SurfaceSymmetryConstraint.h [code]
 Constrain orientation of surfaces with respect to rigid bodies.
 
file  SurfaceTetheredChain.h [code]
 Score on surface-to-end distance of chain tethered to impenetrable surface.
 
file  core/symmetry.h [code]
 Implement various types of symmetry.
 
file  TableRefiner.h [code]
 A lookup based particle refiner.
 
file  Transform.h [code]
 Transform a particle.
 
file  TransformedDistancePairScore.h [code]
 A score on the distance between a pair of particles after transforming one.
 
file  triplet_predicates.h [code]
 Define some predicates.
 
file  TripletConstraint.h [code]
 Use a TripletModifier applied to a ParticleTripletsTemp to maintain an invariant.
 
file  TripletRestraint.h [code]
 Apply a TripletScore to a Triplet.
 
file  TruncatedHarmonic.h [code]
 Truncated harmonic.
 
file  Typed.h [code]
 A particle with a user-defined type.
 
file  TypedPairScore.h [code]
 Delegate to another PairScore depending on particle types.
 
file  core/utility.h [code]
 Various important functionality for implementing decorators.
 
file  VolumeRestraint.h [code]
 A restraint that prevents spheres from inter-penetrating.
 
file  WeightedDerivativesToRefined.h [code]
 Copies derivatives from coarse grained particle to its refined set of particles using weights indicated by a weight key.
 
file  WeightedSum.h [code]
 Weighted sum of unary functions.
 
file  WeightedSumOfExponential.h [code]
 Negative logarithm of weighted sum of negative exponential of unary functions.
 
file  XYZ.h [code]
 Simple XYZ decorator.
 
file  XYZR.h [code]
 Decorator for a sphere-like particle.