ParticleSystem

This class describes a particle system in SAMSON, i.e. a dynamical system composed of particles. A particle system has two buffers - a position buffer and a momentum buffer - which may be used to write adaptive simulation algorithms.

You can get a number of changed momenums and a momentum of a particle in the particle system:

particleSystem.numberOfChangedMomentums
particleSystem.getMomentum(i)

# the same can be done for positions
particleSystem.numberOfChangedPositions
particleSystem.getPosition(i)

You can get the index of i-th changed momentum. Assume for example that particle 17, 32, and 529 have had their momentum changed since the last flush of the momentum buffer. Then the following code:

for i in range(particleSystem.numberOfChangedMomentums):
        # changedMomentumIndex is the index of the i-th changed momentum
        changedMomentumIndex = particleSystem.getChangedMomentumIndex(i)
        print(changedMomentumIndex)

This will result in the following output:

17
32
529

You can use these indeces in adaptive simulation algorithms for example together with samson.Modeling.InteractionModel.ParticleSystem.

See also

SAMSON API: SBMDynamicalModelParticleSystem

class samson.Modeling.DynamicalModel.ParticleSystem(*args, **kwargs)

Bases: samson.Modeling.DynamicalModel.DynamicalModel

This class describes a dynamical particle system.

Overloaded function.

1. __init__(self: samson.Modeling.DynamicalModel.ParticleSystem) -> None

Constructs a dynamical particle system

2. __init__(self: samson.Modeling.DynamicalModel.ParticleSystem, nodeIndexer: samson.DataModel.DataGraph.NodeIndexer) -> None

Constructs a dynamical particle system based in nodeIndexer

class NodeType(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) → None

Bases: pybind11_builtins.pybind11_object

Members:

Undefined

StructuralModel

StructuralModelNode

StructuralModelConformation

Conformation

StructuralModelPath

Path

StructuralModelNodeGroup

StructuralGroup

StructuralModelNodeRoot

Root

StructuralModelNodeParticle

StructuralParticle

StructuralModelNodeAtom

Atom

StructuralModelNodePseudoAtom

PseudoAtom

StructuralModelNodeBond

Bond

StructuralModelNodeResidue

Residue

StructuralModelNodeSegment

Segment

StructuralModelNodeProtein

Protein

StructuralModelNodeChain

Chain

StructuralModelNodeMolecule

Molecule

StructuralModelNodeBackbone

Backbone

StructuralModelNodeSideChain

SideChain

VisualModel

DynamicalModel

DynamicalModelParticleSystem

ParticleSystem

DynamicalModelRigidBodySystem

RigidBodySystem

DynamicalModelArticulatedBodySystem

ArticulatedBodySystem

DynamicalModelNode

DynamicalNode

DynamicalModelNodeGroup

DynamicalGroup

DynamicalModelNodeRoot

DynamicalRoot

DynamicalModelNodeParticle

DynamicalParticle

DynamicalModelNodeRigidBody

RigidBody

DynamicalModelNodeArticulatedBody

ArticulatedBody

InteractionModel

InteractionModelParticleSystem

InteractionModelRigidBodySystem

InteractionModelArticulatedBodySystem

PropertyModel

PropertyModelFunction

Simulator

SimulatorParticleSystem

SimulatorRigidBodySystem

SimulatorArticulatedBodySystem

StateUpdater

StateUpdaterParticleSystem

StateUpdaterRigidBodySystem

StateUpdaterArticulatedBodySystem

DocumentManager

Document

Folder

Camera

Label

DataGraphNodeGroup

NodeGroup

Controller

ControllerNode

Asset

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Asset = NodeType.Asset

Atom = NodeType.StructuralModelNodeAtom

Backbone = NodeType.StructuralModelNodeBackbone

Bond = NodeType.StructuralModelNodeBond

Camera = NodeType.Camera

Chain = NodeType.StructuralModelNodeChain

Conformation = NodeType.StructuralModelConformation

Controller = NodeType.Controller

ControllerNode = NodeType.ControllerNode

DataGraphNodeGroup = NodeType.DataGraphNodeGroup

Document = NodeType.Document

DocumentManager = NodeType.DocumentManager

DynamicalGroup = NodeType.DynamicalModelNodeGroup

DynamicalModel = NodeType.DynamicalModel

DynamicalModelArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

DynamicalModelNode = NodeType.DynamicalModelNode

DynamicalModelNodeArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

DynamicalModelNodeGroup = NodeType.DynamicalModelNodeGroup

DynamicalModelNodeParticle = NodeType.DynamicalModelNodeParticle

DynamicalModelNodeRigidBody = NodeType.DynamicalModelNodeRigidBody

DynamicalModelNodeRoot = NodeType.DynamicalModelNodeRoot

DynamicalModelParticleSystem = NodeType.DynamicalModelParticleSystem

DynamicalModelRigidBodySystem = NodeType.DynamicalModelRigidBodySystem

DynamicalNode = NodeType.DynamicalModelNode

DynamicalParticle = NodeType.DynamicalModelNodeParticle

DynamicalRoot = NodeType.DynamicalModelNodeRoot

Folder = NodeType.Folder

InteractionModel = NodeType.InteractionModel

InteractionModelArticulatedBodySystem = NodeType.InteractionModelArticulatedBodySystem

InteractionModelParticleSystem = NodeType.InteractionModelParticleSystem

InteractionModelRigidBodySystem = NodeType.InteractionModelRigidBodySystem

Label = NodeType.Label

Molecule = NodeType.StructuralModelNodeMolecule

NodeGroup = NodeType.DataGraphNodeGroup

ParticleSystem = NodeType.DynamicalModelParticleSystem

Path = NodeType.StructuralModelPath

PropertyModel = NodeType.PropertyModel

PropertyModelFunction = NodeType.PropertyModelFunction

Protein = NodeType.StructuralModelNodeProtein

PseudoAtom = NodeType.StructuralModelNodePseudoAtom

Residue = NodeType.StructuralModelNodeResidue

RigidBody = NodeType.DynamicalModelNodeRigidBody

RigidBodySystem = NodeType.DynamicalModelRigidBodySystem

Root = NodeType.StructuralModelNodeRoot

Segment = NodeType.StructuralModelNodeSegment

SideChain = NodeType.StructuralModelNodeSideChain

Simulator = NodeType.Simulator

SimulatorArticulatedBodySystem = NodeType.SimulatorArticulatedBodySystem

SimulatorParticleSystem = NodeType.SimulatorParticleSystem

SimulatorRigidBodySystem = NodeType.SimulatorRigidBodySystem

StateUpdater = NodeType.StateUpdater

StateUpdaterArticulatedBodySystem = NodeType.StateUpdaterArticulatedBodySystem

StateUpdaterParticleSystem = NodeType.StateUpdaterParticleSystem

StateUpdaterRigidBodySystem = NodeType.StateUpdaterRigidBodySystem

StructuralGroup = NodeType.StructuralModelNodeGroup

StructuralModel = NodeType.StructuralModel

StructuralModelConformation = NodeType.StructuralModelConformation

StructuralModelNode = NodeType.StructuralModelNode

StructuralModelNodeAtom = NodeType.StructuralModelNodeAtom

StructuralModelNodeBackbone = NodeType.StructuralModelNodeBackbone

StructuralModelNodeBond = NodeType.StructuralModelNodeBond

StructuralModelNodeChain = NodeType.StructuralModelNodeChain

StructuralModelNodeGroup = NodeType.StructuralModelNodeGroup

StructuralModelNodeMolecule = NodeType.StructuralModelNodeMolecule

StructuralModelNodeParticle = NodeType.StructuralModelNodeParticle

StructuralModelNodeProtein = NodeType.StructuralModelNodeProtein

StructuralModelNodePseudoAtom = NodeType.StructuralModelNodePseudoAtom

StructuralModelNodeResidue = NodeType.StructuralModelNodeResidue

StructuralModelNodeRoot = NodeType.StructuralModelNodeRoot

StructuralModelNodeSegment = NodeType.StructuralModelNodeSegment

StructuralModelNodeSideChain = NodeType.StructuralModelNodeSideChain

StructuralModelPath = NodeType.StructuralModelPath

StructuralParticle = NodeType.StructuralModelNodeParticle

Undefined = NodeType.Undefined

VisualModel = NodeType.VisualModel

name

(self – handle) -> str

addChild(self: samson.DataModel.DataGraph.Node, node: samson.DataModel.DataGraph.Node, nextNode: samson.DataModel.DataGraph.Node = None) → bool

Adds a child to the node

addParticle(self: samson.Modeling.DynamicalModel.ParticleSystem, particle: samson.Modeling.StructuralModel.Particle) → int

Adds a particle to the particle system

canAddChild(self: samson.DataModel.DataGraph.Node, node: samson.DataModel.DataGraph.Node, nextNode: samson.DataModel.DataGraph.Node = None) → bool

Returns whether this node can add node as a child

canAddChildType(self: samson.DataModel.DataGraph.Node, nodeType: SBDDataGraphNode::Type) → bool

Returns whether this node can add a node with type nodeType as a child

castToInteractionModelParticleSystem(self: samson.DataModel.DataGraph.Node) → SBMInteractionModelParticleSystem

Casts (if possible) from SBDDataGraphNode to SBMInteractionModelParticleSystem

castToLabel(self: samson.DataModel.DataGraph.Node) → SBDDocumentLabel

Casts (if possible) from SBDDataGraphNode to SBDDocumentLabel

castToVisualModel(self: samson.DataModel.DataGraph.Node) → SBMVisualModel

Casts (if possible) from SBDDataGraphNode to SBMVisualModel

clone(self: samson.Modeling.DynamicalModel.DynamicalModel) → samson.Modeling.DynamicalModel.DynamicalModel

Returns a copy of the node and its descendants

correctDistanceWithPBC(self: samson.Modeling.DynamicalModel.ParticleSystem, distance: samson.DataModel.Type.vector3) → None

countNodes(self: samson.DataModel.DataGraph.Node, selectionString: str = '*', visitString: str = '*', includeDependencies: bool = False) → int

Count nodes into nodeIndexer, based on a selectionPredicate and a visitPredicate, with our without dependencies).

For selectionString and visitString use Node Specification Language (SAMSON API: Node Specification Language

create(self: samson.DataModel.DataGraph.Node) → None

Creates the node

enforcePeriodicBoundaryConditions(self: samson.Modeling.DynamicalModel.ParticleSystem) → bool

Enforces the periodic boundary conditions

erase(self: samson.DataModel.DataGraph.Node) → None

Erases the node

flushMomentumBuffer(self: samson.Modeling.DynamicalModel.ParticleSystem) → None

Flushes the momentum buffer

flushPositionBuffer(self: samson.Modeling.DynamicalModel.ParticleSystem) → None

Flushes the position buffer

getActivityFlag(*args, **kwargs)

Overloaded function.

1. getActivityFlag(self: samson.Modeling.DynamicalModel.ParticleSystem, particle: samson.Modeling.StructuralModel.Particle) -> bool

returns activity flag of a particle

2. getActivityFlag(self: samson.Modeling.DynamicalModel.ParticleSystem, particleIndex: int) -> bool

returns activity flag of a particle

getChangedMomentumIndex(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int) → int

Returns the index of a changed momentum

getChangedPositionIndex(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int) → int

Returns the index of a changed position

getDocument(self: samson.DataModel.DataGraph.Node) → SBDDocument

Returns the document the node belongs to

getDynamicalRoot(self: samson.Modeling.DynamicalModel.DynamicalModel) → SBMDynamicalModelNodeRoot

Returns the root of the dynamical model

getFlags(self: samson.DataModel.DataGraph.Node) → int

Returns the flags

getInheritedFlags(self: samson.DataModel.DataGraph.Node) → int

Returns the inherited flags

getInverseMass(*args, **kwargs)

Overloaded function.

1. getInverseMass(self: samson.Modeling.DynamicalModel.ParticleSystem, particle: samson.Modeling.StructuralModel.Particle) -> samson.DataModel.Quantity.unitsSI

returns inverse mass of a particle

2. getInverseMass(self: samson.Modeling.DynamicalModel.ParticleSystem, particleIndex: int) -> samson.DataModel.Quantity.unitsSI

returns inverse mass of a particle

getMass(*args, **kwargs)

Overloaded function.

1. getMass(self: samson.Modeling.DynamicalModel.ParticleSystem, particle: samson.Modeling.StructuralModel.Particle) -> samson.DataModel.Quantity.unitsSI

returns mass of a particle

2. getMass(self: samson.Modeling.DynamicalModel.ParticleSystem, particleIndex: int) -> samson.DataModel.Quantity.unitsSI

returns mass of a particle

getMaterial(self: samson.DataModel.DataGraph.Node) → SBDDataGraphNodeMaterial

Returns the material of the node

getMaterialOwner(self: samson.DataModel.DataGraph.Node) → samson.DataModel.DataGraph.Node

Returns the node whose material is inherited

getMemoryFootprint(self: samson.Core.Reference.ReferenceTarget) → int

Returns the memory footprint

getMomentum(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int) → samson.DataModel.Type.vector3

Returns the momentum of a particle

getNextModel(self: samson.Modeling.Model.Model) → samson.Modeling.Model.Model

Returns the next model in the parent

getNextNode(*args, **kwargs)

Overloaded function.

1. getNextNode(self: samson.DataModel.DataGraph.Node) -> samson.DataModel.DataGraph.Node

Returns the pointer to the next node in the children of the node’s parent

2. getNextNode(self: samson.DataModel.DataGraph.Node, nodeType: SBDDataGraphNode::Type) -> samson.DataModel.DataGraph.Node

Returns the pointer to the next node with type nodeType in the children of the node’s parent

getNode(self: int) → samson.DataModel.DataGraph.Node

Returns the unique node corresponding to the node index nodeIndex

getNodes(self: samson.Modeling.DynamicalModel.DynamicalModel, selectionString: str = '*', visitString: str = '*', includeDependencies: bool = False) → samson.DataModel.DataGraph.NodeIndexer

Returns nodes (in a node indexer), based on a selectionString and a visitString, with our without dependencies).

For selectionString and visitString use Node Specification Language (SAMSON API: Node Specification Language

getNumberOfChangedPositions(self: samson.Modeling.DynamicalModel.DynamicalModel) → int

Returns the number of changed positions

getParent(self: samson.DataModel.DataGraph.Node) → samson.DataModel.DataGraph.Node

Returns the parent of the node

getPeriodicBoundaryConditions(self: samson.Modeling.DynamicalModel.DynamicalModel) → samson.DataModel.Type.intervalVector3

Returns the periodic boundary conditions

getPosition(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int) → samson.DataModel.Type.vector3

Returns the position of a particle

getPositionChanged(*args, **kwargs)

Overloaded function.

1. getPositionChanged(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int) -> bool

Returns whether position i has been changed since the last flush

2. getPositionChanged(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int) -> bool

Returns whether momentum i has been changed since the last flush

getPreviousModel(self: samson.Modeling.Model.Model) → samson.Modeling.Model.Model

Returns the previous model in the parent

getPreviousNode(*args, **kwargs)

Overloaded function.

1. getPreviousNode(self: samson.DataModel.DataGraph.Node) -> samson.DataModel.DataGraph.Node

Returns the pointer to the previous node in the children of the node’s parent

2. getPreviousNode(self: samson.DataModel.DataGraph.Node, nodeType: SBDDataGraphNode::Type) -> samson.DataModel.DataGraph.Node

Returns the pointer to the previous node with type nodeType in the children of the node’s parent

getRoot(self: samson.DataModel.DataGraph.Node) → samson.DataModel.DataGraph.Node

Returns the root of the hierarchy the node belongs to

getStructuralParticleIndexer(self: samson.Modeling.DynamicalModel.ParticleSystem) → samson.DataModel.DataGraph.NodeIndexer

Returns the particle index of the particle system

getThisNode(self: samson.DataModel.DataGraph.Node) → samson.DataModel.DataGraph.Node

Returns the pointer to this node

getTypeString(type: SBDDataGraphNode::Type) → str

Returns a string describing the type of the data graph node

hasOneOf(self: samson.DataModel.DataGraph.Node, nodeIndexer: SBDDataGraphNodeIndexer) → bool

Returns true if and only if this node is one of the nodes of the nodeIndexer, or is the ancestor of one of them

isDynamicalModel(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a dynamical model

isIn(*args, **kwargs)

Overloaded function.

1. isIn(self: samson.DataModel.DataGraph.Node, node: samson.DataModel.DataGraph.Node) -> bool

Returns true if and only if this node is node, or descends from it

2. isIn(self: samson.DataModel.DataGraph.Node, nodeIndexer: SBDDataGraphNodeIndexer) -> bool

Returns true if and only if this node is one of the nodes of the nodeIndexer, or descends from one of them

isInteractionModel(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a interaction model

isModel(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a model

isOneOf(self: samson.DataModel.DataGraph.Node, nodeIndexer: SBDDataGraphNodeIndexer) → bool

Returns true if and only if this node is one of the nodes of the nodeIndexer

isPropertyModel(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a property model

isSimulator(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a simulator

isStructuralModel(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a structural model

isStructuralParticle(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a structural particle (an atom or a pseudo-atom)

isType(self: samson.DataModel.DataGraph.Node, type: SBDDataGraphNode::Type) → bool

Returns true when the type of the node corresponds to type

isVisualModel(self: samson.DataModel.DataGraph.Node) → bool

Returns true when the node is a visual model

printDebugInfo(self: samson.Modeling.DynamicalModel.ParticleSystem, offset: int = 0) → None

Prints some debugging information in stdout

removeChild(self: samson.DataModel.DataGraph.Node, node: samson.DataModel.DataGraph.Node) → bool

Removes a child from the node

removeMaterial(self: samson.DataModel.DataGraph.Node) → bool

Removes material from the node

removeParticle(*args, **kwargs)

Overloaded function.

1. removeParticle(self: samson.Modeling.DynamicalModel.ParticleSystem, particle: samson.Modeling.StructuralModel.Particle) -> None

Removes a particle from the particle system

2. removeParticle(self: samson.Modeling.DynamicalModel.ParticleSystem, particleIndex: int) -> None

Removes a particle from the particle system

removeParticles(self: samson.Modeling.DynamicalModel.ParticleSystem, nodeIndexer: samson.DataModel.DataGraph.NodeIndexer) → None

Removes particles from a node indexer

roundForPBC(self: samson.Modeling.DynamicalModel.ParticleSystem, position: samson.DataModel.Quantity.unitsSI) → int

setActivityFlag(*args, **kwargs)

Overloaded function.

1. setActivityFlag(self: samson.Modeling.DynamicalModel.ParticleSystem, particle: samson.Modeling.StructuralModel.Particle, flag: bool) -> None

sets activity flag of a particle

2. setActivityFlag(self: samson.Modeling.DynamicalModel.ParticleSystem, particleIndex: int, flag: bool) -> None

sets activity flag of a particle

setColor(self: samson.DataModel.DataGraph.Node, color: SBDTypeColor) → bool

Sets the color for the node (modifies an existing material of the node or adds a material with a given color)

Args:

color (Color): color to set

setColorScheme(self: samson.DataModel.DataGraph.Node, colorScheme: SBDDataGraphNodeColorScheme) → bool

Sets the color scheme for the node (modifies an existing material of the node or adds a material with a given color scheme)

Args:

colorScheme (ColorScheme): color scheme to set

setMass(*args, **kwargs)

Overloaded function.

1. setMass(self: samson.Modeling.DynamicalModel.ParticleSystem, particle: samson.Modeling.StructuralModel.Particle, flag: samson.DataModel.Quantity.unitsSI) -> None

sets mass of a particle

2. setMass(self: samson.Modeling.DynamicalModel.ParticleSystem, particleIndex: int, flag: samson.DataModel.Quantity.unitsSI) -> None

sets mass of a particle

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial) → bool

Sets the material for the node.

Args:

material (Material): material to set

setMomentum(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int, newMomentum: samson.DataModel.Type.vector3) → None

Updates the momentum of a particle

setPeriodicBoundaryConditions(self: samson.Modeling.DynamicalModel.DynamicalModel, v: samson.DataModel.Type.intervalVector3) → None

Sets the periodic boundary conditions

setPosition(self: samson.Modeling.DynamicalModel.ParticleSystem, i: int, newPosition: samson.DataModel.Type.vector3) → None

Updates the position of a particle

toString(self: samson.Modeling.DynamicalModel.ParticleSystem) → str

A string representation

updateStructuralNodes(self: samson.Modeling.DynamicalModel.ParticleSystem) → None

Updates the structural nodes based on the state of the particle system

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Asset = NodeType.Asset

Atom = NodeType.StructuralModelNodeAtom

Backbone = NodeType.StructuralModelNodeBackbone

Bond = NodeType.StructuralModelNodeBond

Camera = NodeType.Camera

Chain = NodeType.StructuralModelNodeChain

Conformation = NodeType.StructuralModelConformation

Controller = NodeType.Controller

ControllerNode = NodeType.ControllerNode

DataGraphNodeGroup = NodeType.DataGraphNodeGroup

Document = NodeType.Document

DocumentManager = NodeType.DocumentManager

DynamicalGroup = NodeType.DynamicalModelNodeGroup

DynamicalModel = NodeType.DynamicalModel

DynamicalModelArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

DynamicalModelNode = NodeType.DynamicalModelNode

DynamicalModelNodeArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

DynamicalModelNodeGroup = NodeType.DynamicalModelNodeGroup

DynamicalModelNodeParticle = NodeType.DynamicalModelNodeParticle

DynamicalModelNodeRigidBody = NodeType.DynamicalModelNodeRigidBody

DynamicalModelNodeRoot = NodeType.DynamicalModelNodeRoot

DynamicalModelParticleSystem = NodeType.DynamicalModelParticleSystem

DynamicalModelRigidBodySystem = NodeType.DynamicalModelRigidBodySystem

DynamicalNode = NodeType.DynamicalModelNode

DynamicalParticle = NodeType.DynamicalModelNodeParticle

DynamicalRoot = NodeType.DynamicalModelNodeRoot

Folder = NodeType.Folder

InteractionModel = NodeType.InteractionModel

InteractionModelArticulatedBodySystem = NodeType.InteractionModelArticulatedBodySystem

InteractionModelParticleSystem = NodeType.InteractionModelParticleSystem

InteractionModelRigidBodySystem = NodeType.InteractionModelRigidBodySystem

Label = NodeType.Label

Molecule = NodeType.StructuralModelNodeMolecule

NodeGroup = NodeType.DataGraphNodeGroup

ParticleSystem = NodeType.DynamicalModelParticleSystem

Path = NodeType.StructuralModelPath

PropertyModel = NodeType.PropertyModel

PropertyModelFunction = NodeType.PropertyModelFunction

Protein = NodeType.StructuralModelNodeProtein

PseudoAtom = NodeType.StructuralModelNodePseudoAtom

Residue = NodeType.StructuralModelNodeResidue

RigidBody = NodeType.DynamicalModelNodeRigidBody

RigidBodySystem = NodeType.DynamicalModelRigidBodySystem

Root = NodeType.StructuralModelNodeRoot

Segment = NodeType.StructuralModelNodeSegment

SideChain = NodeType.StructuralModelNodeSideChain

Simulator = NodeType.Simulator

SimulatorArticulatedBodySystem = NodeType.SimulatorArticulatedBodySystem

SimulatorParticleSystem = NodeType.SimulatorParticleSystem

SimulatorRigidBodySystem = NodeType.SimulatorRigidBodySystem

StateUpdater = NodeType.StateUpdater

StateUpdaterArticulatedBodySystem = NodeType.StateUpdaterArticulatedBodySystem

StateUpdaterParticleSystem = NodeType.StateUpdaterParticleSystem

StateUpdaterRigidBodySystem = NodeType.StateUpdaterRigidBodySystem

StructuralGroup = NodeType.StructuralModelNodeGroup

StructuralModel = NodeType.StructuralModel

StructuralModelConformation = NodeType.StructuralModelConformation

StructuralModelNode = NodeType.StructuralModelNode

StructuralModelNodeAtom = NodeType.StructuralModelNodeAtom

StructuralModelNodeBackbone = NodeType.StructuralModelNodeBackbone

StructuralModelNodeBond = NodeType.StructuralModelNodeBond

StructuralModelNodeChain = NodeType.StructuralModelNodeChain

StructuralModelNodeGroup = NodeType.StructuralModelNodeGroup

StructuralModelNodeMolecule = NodeType.StructuralModelNodeMolecule

StructuralModelNodeParticle = NodeType.StructuralModelNodeParticle

StructuralModelNodeProtein = NodeType.StructuralModelNodeProtein

StructuralModelNodePseudoAtom = NodeType.StructuralModelNodePseudoAtom

StructuralModelNodeResidue = NodeType.StructuralModelNodeResidue

StructuralModelNodeRoot = NodeType.StructuralModelNodeRoot

StructuralModelNodeSegment = NodeType.StructuralModelNodeSegment

StructuralModelNodeSideChain = NodeType.StructuralModelNodeSideChain

StructuralModelPath = NodeType.StructuralModelPath

StructuralParticle = NodeType.StructuralModelNodeParticle

Undefined = NodeType.Undefined

VisualModel = NodeType.VisualModel

dynamicalModelType

The dynamical model type

highlightingFlag

isCreated

Returns true if and only if the node is created

isErased

Returns true if and only if the node is erased

isHighlighted

Returns whether the node is highlighted

isSelected

Returns whether the node is selected

isSerializable

Returns true when the class is serializable

isVisible

Returns whether the node is visible

modelType

The model type

name

The name of the model

nodeIndex

Returns the node index (unique in the whole data graph, but non-persistent)

numberOfChangedMomentums

Returns the number of changed momentum

numberOfChangedPositions

Returns the number of changed positions

periodicBoundaryConditionsFlag

periodic boundary conditions flag

selectionFlag

type

The type of the data graph node

typeString

Returns a string describing the type of this data graph node

visibilityFlag