StructuralModel

This library defines structural models.

SAMSON API: The SBMStructuralModel Library

class samson.Modeling.StructuralModel.Atom(*args, **kwargs)

Bases: samson.Modeling.StructuralModel.NodeParticle

This class describes an atom in a structural model

SAMSON API: SBMStructuralModelNodeAtom

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Atom) -> None

Constructs an atom of a default type (default position = (0,0,0))

2. __init__(self: samson.Modeling.StructuralModel.Atom, element: samson.Modeling.Element.Element.ElementType) -> None

Constructs an atom of a given type (default position = (0,0,0))

3. __init__(self: samson.Modeling.StructuralModel.Atom, element: samson.Modeling.Element.Element.ElementType, x: samson.DataModel.Quantity.unitsSI, y: samson.DataModel.Quantity.unitsSI, z: samson.DataModel.Quantity.unitsSI) -> None

Constructs an atom of a given type at position = (x,y,z)

4. __init__(self: samson.Modeling.StructuralModel.Atom, element: samson.Modeling.Element.Element.ElementType, p: samson.DataModel.Type.vector3) -> None

Constructs an atom of a given type at position p

5. __init__(self: samson.Modeling.StructuralModel.Atom, element: samson.Modeling.Element.Element.ElementType, n: str, p: samson.DataModel.Type.vector3) -> None

Constructs an atom of a given type with name n at position p

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

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

clearAltLocation(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s alternate location

clearAnisotropicTFactors(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s AnisotropicTFactors

clearAromaticity(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s Aromaticity

clearChain(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s chain

clearChainID(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s ChainID

clearComment(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s Comment

clearCustomType(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s CustomType

clearFormalCharge(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s FormalCharge

clearHybridization(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s Hybridization

clearInsertionCode(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s insertion code

clearMoleculeName(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s MoleculeName

clearName(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s full name

clearOccupancy(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s occupancy

clearOxydationState(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s OxydationState

clearPartialCharge(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s PartialCharge

clearRecordType(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s RecordType

clearResidueName(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s ResidueName

clearResidueSequenceNumber(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s ResidueSequenceNumber

clearResonance(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s Resonance

clearSYBYLType(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s SYBYLType

clearSegment(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s Segment

clearSerialNumber(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s serial number

clearStatusBit(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s StatusBit

clearSubstructureName(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s SubstructureName

clearSubstructureSequenceNumber(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s SubstructureSequenceNumber

clearTemperatureFactor(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s TemperatureFactor

clearWaterFlag(self: samson.Modeling.StructuralModel.Atom) → None

Clears the atom’s WaterFlag

clone(self: samson.Modeling.StructuralModel.Atom) → samson.Modeling.StructuralModel.Atom

Returns a copy of the node and its descendants

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

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

Erases the node

getBondList(self: samson.Modeling.StructuralModel.Atom) → SBCReferencePointerList<SBMStructuralModelNodeBond, SBCReferenceToTarget>

Returns the bond list

getBondTo(self: samson.Modeling.StructuralModel.Atom, atom: samson.Modeling.StructuralModel.Atom) → SBMStructuralModelNodeBond

Returns the bond to an atom (0 if no bond)

getChain(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s chain

getComment(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s comment

getConnectedComponent(self: samson.Modeling.StructuralModel.Atom) → samson.DataModel.DataGraph.NodeIndexer

Gets all atoms in the connected component containing the atom

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

getMoleculeName(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s moleculeName

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the unique node corresponding to the node index nodeIndex

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

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

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

Returns the parent of the node

getPosition(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Type.vector3

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

getRecordType(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s recordType

getResidueName(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s residueName

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

Returns the root of the hierarchy the node belongs to

getSYBYLType(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s SYBYLType

getSegment(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s segment

getStatusBit(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s statusBit

getSubstructureName(self: samson.Modeling.StructuralModel.Atom) → str

Returns the atom’s substructureName

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

getX(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Quantity.unitsSI

getY(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Quantity.unitsSI

getZ(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Quantity.unitsSI

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

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

setChain(self: samson.Modeling.StructuralModel.Atom, chain: str, size: int) → None

Set the atom’s chain

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setComment(self: samson.Modeling.StructuralModel.Atom, comment: str, size: int) → None

Set the atom’s comment

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMoleculeName(self: samson.Modeling.StructuralModel.Atom, moleculeName: str, size: int) → None

Set the atom’s moleculeName

setPosition(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Type.vector3) → None

setRecordType(self: samson.Modeling.StructuralModel.Atom, recordType: str, size: int) → None

Set the atom’s RecordType

setResidueName(self: samson.Modeling.StructuralModel.Atom, residueName: str, size: int) → None

Set the atom’s residueName

setSYBYLType(self: samson.Modeling.StructuralModel.Atom, SYBYLType: str, size: int) → None

Set the atom’s SYBYLType

setSegment(self: samson.Modeling.StructuralModel.Atom, segment: str, size: int) → None

Set the atom’s segment

setStatusBit(self: samson.Modeling.StructuralModel.Atom, statusBit: str, size: int) → None

Set the atom’s statusBit

setSubstructureName(self: samson.Modeling.StructuralModel.Atom, substructureName: str, size: int) → None

Set the atom’s substructureName

setX(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Quantity.unitsSI) → None

setY(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Quantity.unitsSI) → None

setZ(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Quantity.unitsSI) → None

sprint(self: samson.Modeling.StructuralModel.NodeParticle, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Atom) → str

Converts to a string

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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

SYBYLTypeSize

atom’s SYBYLType size

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

alternateLocation

atom’s alternate location

anisotropicTFactors

atom’s AnisotropicTFactors

aromaticity

atom’s Aromaticity

atomicWeight

block

chainID

atom’s ChainID

chainSize

atom’s chain size

commentSize

atom’s comment size

covalentRadius

customType

atom’s CustomType

electronegativity

elementName

elementSymbol

elementType

formalCharge

atom’s FormalCharge

group

hasAltLocation

Returns true when the atom’s alternate location is set

hasAnisotropicTFactors

Returns true when the atom’s AnisotropicTFactors is set

hasAromaticity

Returns true when the atom’s Aromaticity is set

hasChain

Returns true when the atom’s chain is set

hasChainID

Returns true when the atom’s ChainID is set

hasComment

Returns true when the atom’s Comment is set

hasCustomType

Returns true when the atom’s CustomType is set

hasFormalCharge

Returns true when the atom’s FormalCharge is set

hasHybridization

Returns true when the atom’s Hybridization is set

hasInsertionCode

Returns true when the atom’s insertion code is set

hasMoleculeName

Returns true when the atom’s MoleculeName is set

hasName

Returns true when the atom’s name is set

hasOccupancy

Returns true when the atom’s occupancy is set

hasOxydationState

Returns true when the atom’s OxydationState is set

hasPartialCharge

Returns true when the atom’s PartialCharge is set

hasRecordType

Returns true when the atom’s RecordType is set

hasResidueName

Returns true when the atom’s ResidueName is set

hasResidueSequenceNumber

Returns true when the atom’s ResidueSequenceNumber is set

hasResonance

Returns true when the atom’s Resonance is set

hasSYBYLType

Returns true when the atom’s SYBYLType is set

hasSegment

Returns true when the atom’s Segment is set

hasSerialNumber

Returns true when the atom’s serial number is set

hasStatusBit

Returns true when the atom’s statusBit is set

hasSubstructureName

Returns true when the atom’s SubstructureName is set

hasSubstructureSequenceNumber

Returns true when the atom’s SubstructureSequenceNumber is set

hasTemperatureFactor

Returns true when the atom’s TemperatureFactor is set

hasWaterFlag

Returns true when the atom’s WaterFlag is set

highlightingFlag

hybridization

atom’s Hybridization

insertionCode

atom’s insertion code

isCreated

Returns true if and only if the node is created

isErased

Returns true if and only if the node is erased

isFromAminoAcidBackbone

Returns true when the atom is from an amino-acid backbone

isFromNucleicAcidBackbone

Returns true when the atom is from a nucleic acid backbone

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

mobilityFlag

moleculeNameSize

atom’s moleculeName size

name

atom’s full name

nodeIndex

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

occupancy

atom’s occupancy

oxydationState

atom’s OxydationState

partialCharge

atom’s PartialCharge

period

recordTypeSize

atom’s RecordType size

residueNameSize

atom’s residue name size

residueSequenceNumber

atom’s ResidueSequenceNumber

resonance

atom’s Resonance

segmentSize

atom’s segment size

selectionFlag

serialNumber

atom’s serial number

statusBitSize

atom’s statusBit size

substructureNameSize

atom’s substructureName size

substructureSequenceNumber

atom’s SubstructureSequenceNumber

temperatureFactor

atom’s TemperatureFactor

type

typeString

Returns a string describing the type of this data graph node

vanDerWaalsRadius

visibilityFlag

waterFlag

atom’s WaterFlag

class samson.Modeling.StructuralModel.Backbone(*args, **kwargs)

Bases: samson.Modeling.StructuralModel.Group

This class describes a residue backbone

SAMSON API: SBMStructuralModelNodeBackbone

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Backbone) -> None

Constructs a residue backbone

2. __init__(self: samson.Modeling.StructuralModel.Backbone, s: str) -> None

Constructs a residue backbone

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

canAddChild(self: samson.Modeling.StructuralModel.Group, 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.Modeling.StructuralModel.Backbone, nodeType: samson.DataModel.DataGraph.Node.NodeType) → 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

clearComment(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s Comment

clearStatusBit(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s status bit

clone(self: samson.Modeling.StructuralModel.Backbone) → samson.Modeling.StructuralModel.Backbone

Returns a copy of the node and its descendants

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

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

Erases the node

getAlphaCarbon(self: samson.Modeling.StructuralModel.Backbone) → samson.Modeling.StructuralModel.Atom

Returns the alpha carbon of an amino-acid backbone

getCarbon(self: samson.Modeling.StructuralModel.Backbone) → samson.Modeling.StructuralModel.Atom

Returns the carbon of an amino-acid backbone

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

getNitrogen(self: samson.Modeling.StructuralModel.Backbone) → samson.Modeling.StructuralModel.Atom

Returns the nitrogen of an amino-acid backbone

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

Returns the unique node corresponding to the node index nodeIndex

getNodes(self: samson.DataModel.DataGraph.Node, 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

getOxygen(self: samson.Modeling.StructuralModel.Backbone) → samson.Modeling.StructuralModel.Atom

Returns the oxygen of an amino-acid backbone

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

Returns the parent of the node

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the root of the hierarchy the node belongs to

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

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

Removes a child from the backbone

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

Removes material from the node

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

sprint(self: samson.Modeling.StructuralModel.Group, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Backbone) → str

Converts to a string

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

comment

group’s comment

hasComment

Returns true when the group’s Comment is set

hasStatusBit

Returns true when the group’s status bit is set

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

mobilityFlag

name

name of the model

nodeIndex

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

selectionFlag

statusBit

group’s status bit

type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.Bond(*args, **kwargs)

Bases: samson.Modeling.StructuralModel.Node

This class describes a bond in a structural model

SAMSON API: SBMStructuralModelNodeBond

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Bond) -> None

Constructs a bond

2. __init__(self: samson.Modeling.StructuralModel.Bond, leftAtom: samson.Modeling.StructuralModel.Atom, rightAtom: samson.Modeling.StructuralModel.Atom, order: samson.DataModel.Quantity.unitsSI=1.000000 (dimensionless)) -> None

Constructs a bond between atoms leftAtom and rightAtom and a specific bond order

class BondType(self: samson.Modeling.StructuralModel.Bond.BondType, arg0: int) → None

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.Modeling.StructuralModel.Bond.BondType, arg0: samson.Modeling.StructuralModel.Bond.BondType) -> bool
2. __eq__(self: samson.Modeling.StructuralModel.Bond.BondType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.Modeling.StructuralModel.Bond.BondType, arg0: samson.Modeling.StructuralModel.Bond.BondType) -> bool
2. __ne__(self: samson.Modeling.StructuralModel.Bond.BondType, arg0: int) -> bool

Amide = BondType.Amide

Aromatic = BondType.Aromatic

Double = BondType.Double

Dummy = BondType.Dummy

Single = BondType.Single

Triple = BondType.Triple

Undefined = BondType.Undefined

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

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

clearCustomType(self: samson.Modeling.StructuralModel.Bond) → None

Clears the bond’s custom type

clearStatusBit(self: samson.Modeling.StructuralModel.Bond) → None

Clears the bond’s status bit

clone(self: samson.Modeling.StructuralModel.Bond) → samson.Modeling.StructuralModel.Bond

Returns a copy of the node and its descendants

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

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

Erases the node

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the unique node corresponding to the node index nodeIndex

getNodes(self: samson.DataModel.DataGraph.Node, 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

getOppositeAtom(self: samson.Modeling.StructuralModel.Bond, atom: samson.Modeling.StructuralModel.Atom) → samson.Modeling.StructuralModel.Atom

Returns the pointer to the atom opposite atom, when atom is either the left atom or the right atom of the bond

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

Returns the parent of the node

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the root of the hierarchy the node belongs to

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

isLinking(self: samson.Modeling.StructuralModel.Bond, nodeIndexer: samson.DataModel.DataGraph.NodeIndexer) → bool

Returns true if and only if either atom is in nodeIndexer, or descends from a node of nodeIndexer

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

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

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

sprint(self: samson.Modeling.StructuralModel.Bond, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Bond) → str

Converts to a string

Amide = BondType.Amide

Aromatic = BondType.Aromatic

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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

Double = BondType.Double

Dummy = BondType.Dummy

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

Single = BondType.Single

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.Atom

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

Triple = BondType.Triple

Undefined = BondType.Undefined

VisualModel = NodeType.VisualModel

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

bondType

Bond type

bondTypeString

Returns the string corresponding to the bondType

customType

bond’s custom type

hasCustomType

Returns true when the bond’s custom type is set

hasStatusBit

Returns true when the bond’s status bit is set

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

leftAtom

Returns a pointer to the left atom

length

Compute the length of the bond

midPoint

Compute the mid point of the bond

mobilityFlag

nodeIndex

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

order

Bond order

rightAtom

Returns a pointer to the right atom

selectionFlag

statusBit

bond’s status bit

type

Returns the node type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.Chain(*args, **kwargs)

Bases: samson.Modeling.StructuralModel.Group

This class describes a chain in a structural model

SAMSON API: SBMStructuralModelNodeChain

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Chain) -> None

Constructs a chain

2. __init__(self: samson.Modeling.StructuralModel.Chain, arg0: str) -> None

Constructs a chain

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

canAddChild(self: samson.Modeling.StructuralModel.Group, 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.Modeling.StructuralModel.Chain, nodeType: samson.DataModel.DataGraph.Node.NodeType) → 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

clearComment(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s Comment

clearStatusBit(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s status bit

clone(self: samson.Modeling.StructuralModel.Chain) → samson.Modeling.StructuralModel.Chain

Returns a copy of the node and its descendants

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

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

Erases the node

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the unique node corresponding to the node index nodeIndex

getNodes(self: samson.DataModel.DataGraph.Node, 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

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

Returns the parent of the node

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the root of the hierarchy the node belongs to

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

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

Removes a child from the node

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

Removes material from the node

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

sprint(self: samson.Modeling.StructuralModel.Group, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Chain) → str

Converts to a string

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

comment

group’s comment

hasComment

Returns true when the group’s Comment is set

hasStatusBit

Returns true when the group’s status bit is set

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

mobilityFlag

name

name of the model

nodeIndex

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

selectionFlag

statusBit

group’s status bit

type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.Conformation(*args, **kwargs)

Bases: samson.DataModel.DataGraph.Node

This class describes a structural conformation.

SAMSON API: SBMStructuralModelConformation

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Conformation) -> None

Constructs a structural conformation

2. __init__(self: samson.Modeling.StructuralModel.Conformation, s: str, nodeIndexer: samson.DataModel.DataGraph.NodeIndexer) -> None

Constructs a structural conformation

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

addStructuralParticle(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle, structuralParticlePosition: samson.DataModel.Type.vector3) → bool

Adds a structuralParticle with position structuralParticlePosition

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.StructuralModel.Conformation) → samson.Modeling.StructuralModel.Conformation

Returns a copy of the node and its descendants

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

createStructuralModels(self: samson.Modeling.StructuralModel.Conformation) → samson.DataModel.DataGraph.NodeIndexer

Create structural models corresponding to all steps

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

Erases the node

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

Returns the document the node belongs to

getEnergy(self: samson.Modeling.StructuralModel.Conformation) → samson.DataModel.Quantity.unitsSI

Returns the energy data

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

Returns the flags

getForce(*args, **kwargs)

Overloaded function.

1. getForce(self: samson.Modeling.StructuralModel.Conformation, structuralParticleIndex: int) -> samson.DataModel.Type.vector3

Retrieves the force of structural particle structuralParticleIndex

2. getForce(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle) -> samson.DataModel.Type.vector3

Retrieves the force of structural particle structuralParticle

getForceData(self: samson.Modeling.StructuralModel.Conformation) → List[samson.DataModel.Type.vector3]

Returns the force data

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getNextConformation(self: samson.Modeling.StructuralModel.Conformation) → samson.Modeling.StructuralModel.Conformation

Returns the next conformation in the document

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.DataModel.DataGraph.Node, 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

getNumberOfStructuralParticles(self: samson.Modeling.StructuralModel.Conformation) → int

Returns the number of structural particles for which a position is saved

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

Returns the parent of the node

getPosition(*args, **kwargs)

Overloaded function.

1. getPosition(self: samson.Modeling.StructuralModel.Conformation, structuralParticleIndex: int) -> samson.DataModel.Type.vector3

Retrieves the position of structural particle structuralParticleIndex

2. getPosition(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle) -> samson.DataModel.Type.vector3

Retrieves the position of structural particle structuralParticle

getPositionData(self: samson.Modeling.StructuralModel.Conformation) → List[samson.DataModel.Type.vector3]

Returns the position data

getPreviousConformation(self: samson.Modeling.StructuralModel.Conformation) → samson.Modeling.StructuralModel.Conformation

Returns the previous conformation in the document

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.StructuralModel.Conformation) → SBCReferencePointerIndexer<SBMStructuralModelNodeParticle, SBCReferenceToTarget>

Returns the indexer of structural particles for which a position is saved

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

Returns the pointer to this node

getTime(self: samson.Modeling.StructuralModel.Conformation) → samson.DataModel.Quantity.unitsSI

Returns the time data

getTypeString(type: SBDDataGraphNode::Type) → str

Returns a string describing the type of the data graph node

getVelocity(*args, **kwargs)

Overloaded function.

1. getVelocity(self: samson.Modeling.StructuralModel.Conformation, structuralParticleIndex: int) -> samson.DataModel.Type.vector3

Retrieves the velocity of structural particle structuralParticleIndex

2. getVelocity(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle) -> samson.DataModel.Type.vector3

Retrieves the velocity of structural particle structuralParticle

getVelocityData(self: samson.Modeling.StructuralModel.Conformation) → List[samson.DataModel.Type.vector3]

Returns the velocity data

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

insertStructuralParticle(self: samson.Modeling.StructuralModel.Conformation, structuralParticleIndex: int, structuralParticle: SBMStructuralModelNodeParticle, structuralParticlePosition: samson.DataModel.Type.vector3) → bool

Inserts a structuralParticle with position structuralParticlePosition at index structuralParticleIndex

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

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

removeStructuralParticle(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle) → bool

Removes a structural particle from the conformation

restore(self: samson.Modeling.StructuralModel.Conformation) → None

Restores the conformation

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setEnergy(self: samson.Modeling.StructuralModel.Conformation, energy: samson.DataModel.Quantity.unitsSI) → None

Sets the energy data

setForce(*args, **kwargs)

Overloaded function.

1. setForce(self: samson.Modeling.StructuralModel.Conformation, structuralParticleIndex: int, structuralParticlePosition: samson.DataModel.Type.vector3) -> None

Sets the force of structural particle structuralParticleIndex

2. setForce(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle, structuralParticlePosition: samson.DataModel.Type.vector3) -> None

Sets the force of structural particle structuralParticle

setForceData(self: samson.Modeling.StructuralModel.Conformation, forceData: List[samson.DataModel.Type.vector3]) → None

Sets the force data; forceData is a vector of forces

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setPosition(*args, **kwargs)

Overloaded function.

1. setPosition(self: samson.Modeling.StructuralModel.Conformation, structuralParticleIndex: int, structuralParticlePosition: samson.DataModel.Type.vector3) -> None

Sets the position of structural particle structuralParticleIndex

2. setPosition(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle, structuralParticlePosition: samson.DataModel.Type.vector3) -> None

Sets the position of structural particle structuralParticle

setPositionData(self: samson.Modeling.StructuralModel.Conformation, positionData: List[samson.DataModel.Type.vector3]) → None

Sets the position data; positionData is a vector of positions

setTime(self: samson.Modeling.StructuralModel.Conformation, time: samson.DataModel.Quantity.unitsSI) → None

Sets the time data

setVelocity(*args, **kwargs)

Overloaded function.

1. setVelocity(self: samson.Modeling.StructuralModel.Conformation, structuralParticleIndex: int, structuralParticlePosition: samson.DataModel.Type.vector3) -> None

Sets the velocity of structural particle structuralParticleIndex

2. setVelocity(self: samson.Modeling.StructuralModel.Conformation, structuralParticle: SBMStructuralModelNodeParticle, structuralParticlePosition: samson.DataModel.Type.vector3) -> None

Sets the velocity of structural particle structuralParticle

setVelocityData(self: samson.Modeling.StructuralModel.Conformation, velocityData: List[samson.DataModel.Type.vector3]) → None

Sets the velocity data; velocityData is a vector of velocities

sprint(self: samson.DataModel.DataGraph.Node, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Conformation) → str

Converts to a string

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

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

name

name of the conformation

nodeIndex

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

selectionFlag

type

The data graph node type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.Grid(self: samson.Modeling.StructuralModel.Grid, arg0: samson.DataModel.DataGraph.NodeIndexer, arg1: samson.DataModel.Quantity.unitsSI) → None

Bases: samson.Core.Reference.SBCReferenceTarget

This class describes a grid-based neighbor search algorithm that can be applied to structural particles (atoms or pseudo-atoms).

SAMSON API: SBMStructuralModelGrid

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

Returns the memory footprint

getNeighborIndexer(*args, **kwargs)

Overloaded function.

1. getNeighborIndexer(self: samson.Modeling.StructuralModel.Grid, i: int) -> SBCContainerIndexer<SBMStructuralModelNodeParticle*, SBCContainerHashMap<SBMStructuralModelNodeParticle*, unsigned int, SBCContainerHashMapFunctor<SBMStructuralModelNodeParticle*>, SBCContainerHashMapKeyComparator<SBMStructuralModelNodeParticle*> >, SBCContainerVector<SBMStructuralModelNodeParticle*> >

Returns the neighbor indexer of structural particle i

2. getNeighborIndexer(self: samson.Modeling.StructuralModel.Grid, structuralParticle: SBMStructuralModelNodeParticle) -> SBCContainerIndexer<SBMStructuralModelNodeParticle*, SBCContainerHashMap<SBMStructuralModelNodeParticle*, unsigned int, SBCContainerHashMapFunctor<SBMStructuralModelNodeParticle*>, SBCContainerHashMapKeyComparator<SBMStructuralModelNodeParticle*> >, SBCContainerVector<SBMStructuralModelNodeParticle*> >

Returns the neighbor indexer of structural particle structuralParticle

sprint(self: samson.Modeling.StructuralModel.Grid, offset: int=0) → None

Prints some debugging information

update(self: samson.Modeling.StructuralModel.Grid) → None

Updates the grid and neighbor lists

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

class samson.Modeling.StructuralModel.Group(*args, **kwargs)

Bases: samson.Modeling.StructuralModel.Node

This class describes a structural group

SAMSON API: SBMStructuralModelNodeGroup

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Group) -> None

Constructs a structural group

2. __init__(self: samson.Modeling.StructuralModel.Group, arg0: str) -> None

Constructs a structural group

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

canAddChild(self: samson.Modeling.StructuralModel.Group, 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.Modeling.StructuralModel.Group, nodeType: samson.DataModel.DataGraph.Node.NodeType) → 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

clearComment(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s Comment

clearStatusBit(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s status bit

clone(self: samson.Modeling.StructuralModel.Group) → samson.Modeling.StructuralModel.Group

Returns a copy of the node and its descendants

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

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

Erases the node

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the unique node corresponding to the node index nodeIndex

getNodes(self: samson.DataModel.DataGraph.Node, 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

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

Returns the parent of the node

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the root of the hierarchy the node belongs to

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

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

Removes a child from the node

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

Removes material from the node

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

sprint(self: samson.Modeling.StructuralModel.Group, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Group) → str

Converts to a string

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

comment

group’s comment

hasComment

Returns true when the group’s Comment is set

hasStatusBit

Returns true when the group’s status bit is set

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

mobilityFlag

name

name of the model

nodeIndex

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

selectionFlag

statusBit

group’s status bit

type

Returns the node type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.Molecule(*args, **kwargs)

Bases: samson.Modeling.StructuralModel.Group

This class describes a molecule in a structural model

SAMSON API: SBMStructuralModelNodeMolecule

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Molecule) -> None

Constructs a molecule

2. __init__(self: samson.Modeling.StructuralModel.Molecule, arg0: str) -> None

Constructs a molecule

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

canAddChild(self: samson.Modeling.StructuralModel.Group, 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.Modeling.StructuralModel.Molecule, nodeType: samson.DataModel.DataGraph.Node.NodeType) → 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

clearComment(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s Comment

clearStatusBit(self: samson.Modeling.StructuralModel.Group) → None

Clears the group’s status bit

clone(self: samson.Modeling.StructuralModel.Molecule) → samson.Modeling.StructuralModel.Molecule

Returns a copy of the node and its descendants

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

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

Erases the node

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the unique node corresponding to the node index nodeIndex

getNodes(self: samson.DataModel.DataGraph.Node, 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

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

Returns the parent of the node

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the root of the hierarchy the node belongs to

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

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

Removes a child from the node

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

Removes material from the node

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

sprint(self: samson.Modeling.StructuralModel.Group, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Molecule) → str

Converts to a string

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

comment

group’s comment

hasComment

Returns true when the group’s Comment is set

hasStatusBit

Returns true when the group’s status bit is set

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

mobilityFlag

name

name of the model

nodeIndex

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

selectionFlag

statusBit

group’s status bit

type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.Node

Bases: samson.Modeling.Model.SBMModelNode

This class describes a structural model node

SAMSON API: SBMStructuralModelNode

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

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.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

Returns a copy of the node and its descendants

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

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

Erases the node

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the unique node corresponding to the node index nodeIndex

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

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

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

Returns the parent of the node

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the root of the hierarchy the node belongs to

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

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

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

sprint(self: samson.Modeling.StructuralModel.Node, offset: int=0) → None

Prints some debugging information

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

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

mobilityFlag

nodeIndex

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

selectionFlag

type

the data graph node type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.NodeParticle

Bases: samson.Modeling.StructuralModel.Node

This class describes a particle (atom or pseudo-atom) in a structural model

SAMSON API: SBMStructuralModelNodeParticle

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Adds a child to the node

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

Adds material to the node

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.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

Returns a copy of the node and its descendants

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

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

Erases the node

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

Returns the document the node belongs to

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

Returns the flags

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

getModel(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.StructuralModel

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

getNextStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the unique node corresponding to the node index nodeIndex

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

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

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

Returns the parent of the node

getPosition(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Type.vector3

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

getPreviousStructuralNode(self: samson.Modeling.StructuralModel.Node) → samson.Modeling.StructuralModel.Node

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

Returns the root of the hierarchy the node belongs to

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

getX(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Quantity.unitsSI

getY(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Quantity.unitsSI

getZ(self: samson.Modeling.StructuralModel.NodeParticle) → samson.DataModel.Quantity.unitsSI

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

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

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setPosition(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Type.vector3) → None

setX(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Quantity.unitsSI) → None

setY(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Quantity.unitsSI) → None

setZ(self: samson.Modeling.StructuralModel.NodeParticle, arg0: samson.DataModel.Quantity.unitsSI) → None

sprint(self: samson.Modeling.StructuralModel.NodeParticle, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.NodeParticle) → str

Converts to a string

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

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

mobilityFlag

nodeIndex

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

selectionFlag

type

Returns the node type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.Path(*args, **kwargs)

Bases: samson.DataModel.DataGraph.Node

This class describes a structural path

SAMSON API: SBMStructuralModelPath

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.Path) -> None

Constructs a structural model path

2. __init__(self: samson.Modeling.StructuralModel.Path, name: str, nodeIndexer: samson.DataModel.DataGraph.NodeIndexer) -> None

Constructs a structural model path with name from the nodes in nodeIndexer

class AnimationType(self: samson.Modeling.StructuralModel.Path.AnimationType, arg0: int) → None

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.Modeling.StructuralModel.Path.AnimationType, arg0: samson.Modeling.StructuralModel.Path.AnimationType) -> bool
2. __eq__(self: samson.Modeling.StructuralModel.Path.AnimationType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.Modeling.StructuralModel.Path.AnimationType, arg0: samson.Modeling.StructuralModel.Path.AnimationType) -> bool
2. __ne__(self: samson.Modeling.StructuralModel.Path.AnimationType, arg0: int) -> bool

Bounce = AnimationType.Bounce

Loop = AnimationType.Loop

Once = AnimationType.Once

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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.Atom

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

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

add(*args, **kwargs)

Overloaded function.

1. add(self: samson.Modeling.StructuralModel.Path, conformation: samson.Modeling.StructuralModel.Conformation) -> bool

Adds a frame to the path

2. add(self: samson.Modeling.StructuralModel.Path, path: samson.Modeling.StructuralModel.Path) -> bool

Adds frames to the path

3. add(self: samson.Modeling.StructuralModel.Path, positionData: List[samson.DataModel.Type.vector3], energy: samson.DataModel.Quantity.unitsSI=0.000000 (dimensionless), time: samson.DataModel.Quantity.unitsSI=0.000000 (dimensionless), velocityData: List[samson.DataModel.Type.vector3]=[], forceData: List[samson.DataModel.Type.vector3]=[]) -> bool

Adds a frame to the path

4. add(self: samson.Modeling.StructuralModel.Path, positionData: List[List[samson.DataModel.Type.vector3]], energyData: List[samson.DataModel.Quantity.unitsSI]=[], timeData: List[samson.DataModel.Quantity.unitsSI]=[], velocityData: List[List[samson.DataModel.Type.vector3]]=[], forceData: List[List[samson.DataModel.Type.vector3]]=[]) -> bool

Adds frames to the path

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

Adds a child to the node

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

Adds material to the node

addStructuralParticle(self: samson.Modeling.StructuralModel.Path, structuralParticle: samson.Modeling.StructuralModel.NodeParticle, structuralParticlePositionVector: List[samson.DataModel.Type.vector3]=[], structuralParticleVelocityVector: List[samson.DataModel.Type.vector3]=[], structuralParticleForceVector: List[samson.DataModel.Type.vector3]=[]) → bool

Adds a structuralParticle to the path

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.StructuralModel.Path) → samson.Modeling.StructuralModel.Path

Returns a copy of the node and its descendants

copy(self: samson.Modeling.StructuralModel.Path, firstStep: int, lastStep: int) → samson.Modeling.StructuralModel.Path

Copies frames from the path to create a new path

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

createConformation(self: samson.Modeling.StructuralModel.Path, step: int) → samson.DataModel.DataGraph.NodeIndexer

Create a conformation corresponding to a specific step

createConformations(self: samson.Modeling.StructuralModel.Path) → samson.DataModel.DataGraph.NodeIndexer

Create conformations corresponding to all steps

createStructuralModels(*args, **kwargs)

Overloaded function.

1. createStructuralModels(self: samson.Modeling.StructuralModel.Path, step: int) -> samson.DataModel.DataGraph.NodeIndexer

Create structural models corresponding to a specific step

2. createStructuralModels(self: samson.Modeling.StructuralModel.Path) -> samson.DataModel.DataGraph.NodeIndexer

Create structural models corresponding to all steps

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

Erases the node

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

Returns the document the node belongs to

getEnergy(self: samson.Modeling.StructuralModel.Path, step: int) → samson.DataModel.Quantity.unitsSI

Returnes the energy for a specific step

getEnergyData(self: samson.Modeling.StructuralModel.Path) → List[samson.DataModel.Quantity.unitsSI]

Returnes the energy data

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

Returns the flags

getForce(*args, **kwargs)

Overloaded function.

1. getForce(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticleIndex: int) -> samson.DataModel.Type.vector3

Returnes the force of structural particle structuralParticleIndex for a specific step

2. getForce(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticle: samson.Modeling.StructuralModel.NodeParticle) -> samson.DataModel.Type.vector3

Returnes the force of structural particle structuralParticle for a specific step

getForceData(self: samson.Modeling.StructuralModel.Path) → List[List[samson.DataModel.Type.vector3]]

Returns the force array: 2D array, (number of timesteps) x (number of structural nodes)

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

Returns the inherited flags

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.SBCReferenceTarget) → int

Returns the memory footprint

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

getNextPath(self: samson.Modeling.StructuralModel.Path) → samson.Modeling.StructuralModel.Path

Returns the next path in the document

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

Returns the unique node corresponding to the node index nodeIndex

getNodes(self: samson.Modeling.StructuralModel.Path, 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 the Node Specification Language (SAMSON API: Node Specification Language

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

Returns the parent of the node

getPosition(*args, **kwargs)

Overloaded function.

1. getPosition(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticleIndex: int) -> samson.DataModel.Type.vector3

Returnes the position of structural particle structuralParticleIndex for a specific step

2. getPosition(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticle: samson.Modeling.StructuralModel.NodeParticle) -> samson.DataModel.Type.vector3

Returnes the position of structural particle structuralParticle for a specific step

getPositionData(self: samson.Modeling.StructuralModel.Path) → List[List[samson.DataModel.Type.vector3]]

Returns the position array: 2D array, (number of timesteps) x (number of structural nodes)

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

getPreviousPath(self: samson.Modeling.StructuralModel.Path) → samson.Modeling.StructuralModel.Path

Returns the previous path in the document

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

Returns the root of the hierarchy the node belongs to

getStructuralParticleIndexer(self: samson.Modeling.StructuralModel.Path) → samson.DataModel.DataGraph.NodeIndexer

Returns the indexer of structural particles for which a position is saved

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

Returns the pointer to this node

getTime(self: samson.Modeling.StructuralModel.Path, step: int) → samson.DataModel.Quantity.unitsSI

Returnes the time for a specific step

getTimeData(self: samson.Modeling.StructuralModel.Path) → List[samson.DataModel.Quantity.unitsSI]

Returnes the time data

getTypeString(type: SBDDataGraphNode::Type) → str

Returns a string describing the type of the data graph node

getVelocity(*args, **kwargs)

Overloaded function.

1. getVelocity(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticleIndex: int) -> samson.DataModel.Type.vector3

Returnes the velocity of structural particle structuralParticleIndex for a specific step

2. getVelocity(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticle: samson.Modeling.StructuralModel.NodeParticle) -> samson.DataModel.Type.vector3

Returnes the velocity of structural particle structuralParticle for a specific step

getVelocityData(self: samson.Modeling.StructuralModel.Path) → List[List[samson.DataModel.Type.vector3]]

Returns the velocity array: 2D array, (number of timesteps) x (number of structural nodes)

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

insert(*args, **kwargs)

Overloaded function.

1. insert(self: samson.Modeling.StructuralModel.Path, step: int, conformation: samson.Modeling.StructuralModel.Conformation) -> bool

Inserts a frame to the path at the step

2. insert(self: samson.Modeling.StructuralModel.Path, step: int, path: samson.Modeling.StructuralModel.Path) -> bool

Inserts frames to the path starting from the step

3. insert(self: samson.Modeling.StructuralModel.Path, step: int, positionData: List[samson.DataModel.Type.vector3], energy: samson.DataModel.Quantity.unitsSI=0.000000 (dimensionless), time: samson.DataModel.Quantity.unitsSI=0.000000 (dimensionless), velocityData: List[samson.DataModel.Type.vector3]=[], forceData: List[samson.DataModel.Type.vector3]=[]) -> bool

Inserts a frame in the path at position step

4. insert(self: samson.Modeling.StructuralModel.Path, step: int, positionData: List[List[samson.DataModel.Type.vector3]], energyData: List[samson.DataModel.Quantity.unitsSI]=[], timeData: List[samson.DataModel.Quantity.unitsSI]=[], velocityData: List[List[samson.DataModel.Type.vector3]]=[], forceData: List[List[samson.DataModel.Type.vector3]]=[]) -> bool

Inserts frames in the path at position step

insertStructuralParticle(self: samson.Modeling.StructuralModel.Path, structuralParticleIndex: int, structuralParticle: samson.Modeling.StructuralModel.NodeParticle, structuralParticlePositionVector: List[samson.DataModel.Type.vector3]=[], structuralParticleVelocityVector: List[samson.DataModel.Type.vector3]=[], structuralParticleForceVector: List[samson.DataModel.Type.vector3]=[]) → bool

Inserts a structuralParticle at index structuralParticleIndex to the path

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

remove(*args, **kwargs)

Overloaded function.

1. remove(self: samson.Modeling.StructuralModel.Path, step: int) -> samson.Modeling.StructuralModel.Conformation

Remove a frame from the path to create a conformation

2. remove(self: samson.Modeling.StructuralModel.Path, firstStep: int, lastStep: int) -> samson.Modeling.StructuralModel.Path

Removes frames from the path to create a new path

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

removeStructuralParticle(self: samson.Modeling.StructuralModel.Path, structuralParticle: samson.Modeling.StructuralModel.NodeParticle) → bool

Removes a structural particle from the path

setColor(self: samson.DataModel.DataGraph.Node, color: SBDColor, applyToChildren: bool=False) → None

Sets the color for the node (removes an existing material from the node and adds a given material based on a given color)

Args:

color (Color): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setEnergy(self: samson.Modeling.StructuralModel.Path, step: int, energy: samson.DataModel.Quantity.unitsSI) → None

Sets the energy for a specific step

setEnergyData(self: samson.Modeling.StructuralModel.Path, energyData: List[samson.DataModel.Quantity.unitsSI]) → None

Sets the energy data

setForce(*args, **kwargs)

Overloaded function.

1. setForce(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticleIndex: int, force: samson.DataModel.Type.vector3) -> None

Sets the force of structural particle structuralParticleIndex to position for a specific step

2. setForce(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticle: samson.Modeling.StructuralModel.NodeParticle, force: samson.DataModel.Type.vector3) -> None

Sets the force of structural particle structuralParticle to position for a specific step

setForceData(self: samson.Modeling.StructuralModel.Path, forceData: List[List[samson.DataModel.Type.vector3]]) → None

Sets the force array: 2D array, (number of timesteps) x (number of structural nodes)

setMaterial(self: samson.DataModel.DataGraph.Node, material: SBDDataGraphNodeMaterial, applyToChildren: bool=False) → None

Sets the material for the node (removes an existing material from the node and adds a given material)

Args:

material (Material): material to set

applyToChildren (boolean): if set to True goes through child nodes (default value: False)

setPosition(*args, **kwargs)

Overloaded function.

1. setPosition(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticleIndex: int, position: samson.DataModel.Type.vector3) -> None

Sets the position of structural particle structuralParticleIndex to position for a specific step

2. setPosition(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticle: samson.Modeling.StructuralModel.NodeParticle, position: samson.DataModel.Type.vector3) -> None

Sets the position of structural particle structuralParticle to position for a specific step

setPositionData(self: samson.Modeling.StructuralModel.Path, positionData: List[List[samson.DataModel.Type.vector3]]) → None

Sets the position array: 2D array, (number of timesteps) x (number of structural nodes)

setTime(self: samson.Modeling.StructuralModel.Path, step: int, time: samson.DataModel.Quantity.unitsSI) → None

Sets the time for a specific step

setTimeData(self: samson.Modeling.StructuralModel.Path, timeData: List[samson.DataModel.Quantity.unitsSI]) → None

Sets the time data

setVelocity(*args, **kwargs)

Overloaded function.

1. setVelocity(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticleIndex: int, velocity: samson.DataModel.Type.vector3) -> None

Sets the velocity of structural particle structuralParticleIndex to position for a specific step

2. setVelocity(self: samson.Modeling.StructuralModel.Path, step: int, structuralParticle: samson.Modeling.StructuralModel.NodeParticle, velocity: samson.DataModel.Type.vector3) -> None

Sets the velocity of structural particle structuralParticle to position for a specific step

setVelocityData(self: samson.Modeling.StructuralModel.Path, velocityData: List[List[samson.DataModel.Type.vector3]]) → None

Sets the velocity array: 2D array, (number of timesteps) x (number of structural nodes)

sprint(self: samson.DataModel.DataGraph.Node, offset: int=0) → None

Prints some debugging information

toString(self: samson.Modeling.StructuralModel.Path) → str

Converts to a string

updateState(self: samson.Modeling.StructuralModel.Path) → None

Updates the state along the path according to the animation parameters

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

Backbone = NodeType.StructuralModelNodeBackbone

Bond = NodeType.StructuralModelNodeBond

Bounce = AnimationType.Bounce

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

Loop = AnimationType.Loop

Molecule = NodeType.StructuralModelNodeMolecule

NodeGroup = NodeType.DataGraphNodeGroup

Once = AnimationType.Once

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.Atom

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

__eq__

Return self==value.

__ge__

Return self>=value.

__gt__

Return self>value.

__le__

Return self<=value.

__lt__

Return self<value.

__ne__

Return self!=value.

animationFlag

The animation flag

animationType

The animation type

currentEnergy

The current energy

currentStep

The current step along the path

currentTime

The current time

forwardFlag

The forward flag, which indicates when the animation is moving forward

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

name

the name of the path

nodeIndex

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

numberOfSteps

The number of steps in the path

numberOfStructuralParticles

The number of structural particles for which a position is saved

selectionFlag

smoothingWindowSize

The size of the smoothing window

stepDuration

The step duration

stride

The animation stride

type

the data graph node type

typeString

Returns a string describing the type of this data graph node

visibilityFlag

class samson.Modeling.StructuralModel.PseudoAtom(*args, **kwargs)

Bases: samson.Modeling.StructuralModel.NodeParticle

This class describes a pseudo-atom in a structural model

SAMSON API: SBMStructuralModelNodePseudoAtom

Overloaded function.

1. __init__(self: samson.Modeling.StructuralModel.PseudoAtom) -> None

Builds a pseudo-atom (default position = (0,0,0))

2. __init__(self: samson.Modeling.StructuralModel.PseudoAtom, x: samson.DataModel.Quantity.unitsSI, y: samson.DataModel.Quantity.unitsSI, z: samson.DataModel.Quantity.unitsSI) -> None

Builds a pseudo-atom at position = (x,y,z)

3. __init__(self: samson.Modeling.StructuralModel.PseudoAtom, p: samson.DataModel.Type.vector3) -> None

Builds a pseudo-atom at position p

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

Bases: pybind11_builtins.pybind11_object

__eq__(*args, **kwargs)

Overloaded function.

1. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __eq__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

__ne__(*args, **kwargs)

Overloaded function.

1. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: samson.DataModel.DataGraph.Node.NodeType) -> bool
2. __ne__(self: samson.DataModel.DataGraph.Node.NodeType, arg0: int) -> bool

ArticulatedBody = NodeType.DynamicalModelNodeArticulatedBody

ArticulatedBodySystem = NodeType.DynamicalModelArticulatedBodySystem

Atom = NodeType.Atom

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