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IMP Reference Guide  develop.62cd6b8d93,2024/10/30
The Integrative Modeling Platform
npctransport Directory Reference
+ Directory dependency graph for npctransport:

Files

file  AnchorToCylindricalPorePairScore.h [code]
 A chore for anchoring a bead to a pore.
 
file  automatic_parameters.h [code]
 description
 
file  avro.h [code]
 
file  Avro2PBReader.h [code]
 an iterator that reads npctransport protobuf output files one by one from a list of avro files (used mainly as a wrapper for python usage)
 
file  AvroDataFileData.h [code]
 
file  BipartitePairsStatisticsOptimizerState.h [code]
 description
 
file  BodyStatisticsOptimizerState.h [code]
 Track the rotational correlation time of a rigid body particle.
 
file  BrownianDynamicsTAMDWithSlabSupport.h [code]
 Simple molecular dynamics optimizer.
 
file  ChainStatisticsOptimizerState.h [code]
 description
 
file  npctransport/enums.h [code]
 useful enums and constants
 
file  ExcludeZRangeSingletonScore.h [code]
 XXXXXXXXXXXXXX.
 
file  FGChain.h [code]
 creating TAMD chains
 
file  functor_linear_distance_pair_scores.h [code]
 A Score on the distance between a pair of particles.
 
file  functor_linear_distance_pair_scores_typedefs.h [code]
 Typedefs for the functor scores on the distance between a pair of particles.
 
file  GlobalStatisticsOptimizerState.h [code]
 description
 
file  harmonic_distance_pair_scores.h [code]
 Harmonic scores on the distance between a pair of particles.
 
file  HarmonicSpringSingletonScore.h [code]
 Harmonic scores on the spring between a pair of particles. The spring resting length is dynamic Copyright 2007-2022 IMP Inventors. All rights reserved.
 
file  initialize_positions.h [code]
 description
 
file  npctransport/io.h [code]
 description
 
file  linear_distance_pair_scores.h [code]
 A Score on the distance between a pair of particles.
 
file  main.h [code]
 Helper functions for executable .cpp files.
 
file  npctransport_config.h [code]
 
file  npctransport_proto.fwd.h [code]
 forward declaration of incomplete protobuf files for the main data structures used
 
file  Parameter.h [code]
 description
 
file  ParticleFactory.h [code]
 description
 
file  ParticleTransportStatisticsOptimizerState.h [code]
 description
 
file  PoreRadiusSingletonScore.h [code]
 
  • a score on the pore radius equilibrium value of a slab particle

 
file  protobuf.h [code]
 A Score on the distance between a pair of particles.
 
file  randomize_particles.h [code]
 Randomizing particles in a bounding volume.
 
file  RelaxingSpring.h [code]
 a spring between two diffusing particles whose resting length is relaxing towards some equilibrium value
 
 
file  Scoring.h [code]
 scoring associated with a SimulationData object
 
file  SimulationData.h [code]
 description
 
file  SitesGeometry.h [code]
 Geometry of sites on particle surfaces.
 
file  SitesPairScore.h [code]
 A Score on the distance between a pair of particles.
 
file  SitesPairScoreParameters.h [code]
 A summary of useful information about rigid bodies and their transformation for eg, caching purposes for SitesPairScore.
 
file  SlabWithCylindricalPore.h [code]
 A decorator for a particle that's a slab with a cylindrical pore.
 
file  SlabWithCylindricalPoreGeometry.h [code]
 XXXXXXXXXXXXXX.
 
file  SlabWithCylindricalPorePairScore.h [code]
 XXXXXXXXXXXXXX.
 
file  ransport/SlabWithPore.h [code]
 A decorator for a particle that's a slab with a cylindrical pore.
 
file  ransport/SlabWithToroidalPore.h [code]
 A decorator for a particle that's a slab with a toroidal pore.
 
file  ransport/SlabWithToroidalPoreGeometry.h [code]
 
file  SlabWithToroidalPorePairScore.h [code]
 a score for a slab with a toroidal pore
 
file  npctransport/Statistics.h [code]
 statistics and order parameters about the simulations that is associated with a SimulationData object
 
file  Transporting.h [code]
 A decorator for a transporting particle, so as to keep track of its directionality.
 
file  typedefs.h [code]
 description
 
file  util.h [code]
 utility methods for npctransport
 
file  ZBiasSingletonScore.h [code]
 score that biases particles to go down the Z axis