ost::mol::mm Namespace Reference

Namespaces
	antechamber
	impl

Data Structures
class	HydrogenConstructor
class	TerminiConstructor
class	BlockModifier
class	BuildingBlock
class	DensityForce
class	DensityForceImpl
class	CalcDensityForceKernel
class	GromacsData
class	CHARMMData
class	MMPreprocessor
class	FFReader
struct	ResidueNames
class	Forcefield
class	GromacsPositionRuleEvaluator
class	GromacsHydrogenConstructor
class	GromacsBlockModifier
class	HeuristicHydrogenConstructor
class	HeuristicBlockModifier
class	Index
class	Index< 1 >
class	Index< 2 >
class	Index< 3 >
class	Index< 4 >
class	Index< 5 >
class	Index< 6 >
class	Index< 7 >
class	IndexIterator
class	Interaction
class	Modeller
class	Observer
class	TrajObserver
class	TrajWriter
class	ReferenceDensityKernelFactory
class	ReferenceCalcDensityForceKernel
class	TerminiExceptions
struct	Settings
class	Simulation
class	StateExtractor
class	Steep
class	SystemCreator
class	Topology
class	TopologyCreator

Typedefs
typedef boost::shared_ptr < HydrogenConstructor >	HydrogenConstructorPtr
typedef boost::shared_ptr < TerminiConstructor >	TerminiConstructorPtr
typedef boost::shared_ptr < BlockModifier >	BlockModifierPtr
typedef boost::shared_ptr < BuildingBlock >	BuildingBlockPtr
typedef boost::shared_ptr < GromacsData >	GromacsDataPtr
typedef boost::shared_ptr < FFReader >	FFReaderPtr
typedef boost::shared_ptr < CHARMMData >	CHARMMDataPtr
typedef boost::shared_ptr < ResidueNames >	ResidueNamesPtr
typedef boost::shared_ptr < ost::mol::mm::Forcefield >	ForcefieldPtr
typedef boost::shared_ptr < GromacsHydrogenConstructor >	GromacsHydrogenConstructorPtr
typedef boost::shared_ptr < GromacsTerminiConstructor >	GromacsTerminiConstructorPtr
typedef boost::shared_ptr < GromacsBlockModifier >	GromacsBlockModifierPtr
typedef boost::shared_ptr < HeuristicHydrogenConstructor >	HeuristicHydrogenConstructorPtr
typedef boost::shared_ptr < HeuristicTerminiConstructor >	HeuristicTerminiConstructorPtr
typedef boost::shared_ptr < HeuristicBlockModifier >	HeuristicBlockModifierPtr
typedef boost::shared_ptr < Interaction >	InteractionPtr
typedef boost::shared_ptr < Observer >	ObserverPtr
typedef boost::shared_ptr < TrajObserver >	TrajObserverPtr
typedef boost::shared_ptr < TrajWriter >	TrajWriterPtr
typedef boost::shared_ptr < Settings >	SettingsPtr
typedef boost::shared_ptr < TerminiExceptions >	TerminiExceptionsPtr
typedef std::map< String, String >	PropertyMap
typedef boost::shared_ptr < OpenMM::Integrator >	IntegratorPtr
typedef boost::shared_ptr < OpenMM::Context >	ContextPtr
typedef boost::shared_ptr < Simulation >	SimulationPtr
typedef boost::shared_ptr < OpenMM::System >	SystemPtr
typedef boost::shared_ptr < Topology >	TopologyPtr
typedef boost::shared_ptr < TopologyCreator >	TopologyCreatorPtr

Enumerations
enum	BlockModifierType { GromacsBlockModifiers, HeuristicBlockModifiers }
enum	FuncType {   Invalid, HarmonicBond, HarmonicAngle, UreyBradleyAngle,   PeriodicDihedral, PeriodicImproper, HarmonicImproper, CMap,   LJ, LJPair, GBSA, DistanceConstraint,   Exclusion, HarmonicPositionRestraint, HarmonicDistanceRestraint }
enum	Platform { Reference, OpenCL, CUDA, CPU }
enum	NonbondedMethod {   NoCutoff, CutoffNonPeriodic, CutoffPeriodic, Ewald,   PME }

Functions
def	LoadAMBERForcefield
def	LoadCHARMMForcefield

Typedef Documentation

typedef boost::shared_ptr<BlockModifier> BlockModifierPtr

Definition at line 38 of file block_modifiers.hh.

typedef boost::shared_ptr<BuildingBlock> BuildingBlockPtr

Definition at line 40 of file buildingblock.hh.

typedef boost::shared_ptr<CHARMMData> CHARMMDataPtr

Definition at line 44 of file ff_reader.hh.

typedef boost::shared_ptr<OpenMM::Context> ContextPtr

Definition at line 52 of file simulation.hh.

typedef boost::shared_ptr<FFReader> FFReaderPtr

Definition at line 43 of file ff_reader.hh.

typedef boost::shared_ptr<ost::mol::mm::Forcefield> ForcefieldPtr

Definition at line 42 of file forcefield.hh.

typedef boost::shared_ptr<GromacsBlockModifier> GromacsBlockModifierPtr

Definition at line 45 of file gromacs_block_modifiers.hh.

typedef boost::shared_ptr<GromacsData> GromacsDataPtr

Definition at line 41 of file ff_reader.hh.

typedef boost::shared_ptr<GromacsHydrogenConstructor> GromacsHydrogenConstructorPtr

Definition at line 41 of file gromacs_block_modifiers.hh.

typedef boost::shared_ptr<GromacsTerminiConstructor> GromacsTerminiConstructorPtr

Definition at line 44 of file gromacs_block_modifiers.hh.

typedef boost::shared_ptr<HeuristicBlockModifier> HeuristicBlockModifierPtr

Definition at line 45 of file heuristic_block_modifiers.hh.

typedef boost::shared_ptr<HeuristicHydrogenConstructor> HeuristicHydrogenConstructorPtr

Definition at line 41 of file heuristic_block_modifiers.hh.

typedef boost::shared_ptr<HeuristicTerminiConstructor> HeuristicTerminiConstructorPtr

Definition at line 44 of file heuristic_block_modifiers.hh.

typedef boost::shared_ptr<HydrogenConstructor> HydrogenConstructorPtr

Definition at line 34 of file block_modifiers.hh.

typedef boost::shared_ptr<OpenMM::Integrator> IntegratorPtr

Definition at line 49 of file simulation.hh.

typedef boost::shared_ptr<Interaction> InteractionPtr

Definition at line 39 of file interaction.hh.

typedef boost::shared_ptr<Observer> ObserverPtr

Definition at line 46 of file observer.hh.

typedef std::map<String,String> PropertyMap

Definition at line 93 of file settings.hh.

typedef boost::shared_ptr<ResidueNames> ResidueNamesPtr

Definition at line 39 of file forcefield.hh.

typedef boost::shared_ptr<Settings> SettingsPtr

Definition at line 46 of file settings.hh.

typedef boost::shared_ptr<Simulation> SimulationPtr

Definition at line 53 of file simulation.hh.

typedef boost::shared_ptr<OpenMM::System> SystemPtr

Definition at line 51 of file system_creator.hh.

typedef boost::shared_ptr<TerminiConstructor> TerminiConstructorPtr

Definition at line 37 of file block_modifiers.hh.

typedef boost::shared_ptr<TerminiExceptions> TerminiExceptionsPtr

Definition at line 48 of file settings.hh.

typedef boost::shared_ptr<TopologyCreator> TopologyCreatorPtr

Definition at line 44 of file topology_creator.hh.

typedef boost::shared_ptr<Topology> TopologyPtr

Definition at line 49 of file topology.hh.

typedef boost::shared_ptr<TrajObserver> TrajObserverPtr

Definition at line 48 of file observer.hh.

typedef boost::shared_ptr<TrajWriter> TrajWriterPtr

Definition at line 49 of file observer.hh.

Enumeration Type Documentation

enum BlockModifierType

Enumerator
GromacsBlockModifiers
HeuristicBlockModifiers

Definition at line 40 of file block_modifiers.hh.

enum FuncType

Enumerator
Invalid
HarmonicBond
HarmonicAngle
UreyBradleyAngle
PeriodicDihedral
PeriodicImproper
HarmonicImproper
CMap
LJ
LJPair
GBSA
DistanceConstraint
Exclusion
HarmonicPositionRestraint
HarmonicDistanceRestraint

Definition at line 42 of file interaction.hh.

enum NonbondedMethod

Enumerator
NoCutoff
CutoffNonPeriodic
CutoffPeriodic
Ewald
PME

Definition at line 57 of file settings.hh.

enum Platform

Enumerator
Reference
OpenCL
CUDA
CPU

Definition at line 50 of file settings.hh.

Function Documentation

def ost.mol.mm.LoadAMBERForcefield

(

)

Definition at line 25 of file __init__.py.

def ost.mol.mm.LoadCHARMMForcefield

(

)

Definition at line 28 of file __init__.py.