This class describes a bond in a structural model.

Public Member Functions
	SB_NODE_GETTER_0 (, SBQuantity::dimensionless, GetOrder)

	SB_NODE_GETTER_0 (, SBMStructuralModelNodeBond::BondType, GetBondType)

	SB_NODE_GETTER_0 (, SBMStructuralModelNodeAtom *, GetLeftAtom)

	SB_NODE_GETTER_0 (, SBMStructuralModelNodeAtom *, GetRightAtom)

	SB_NODE_GETTER_0 (, SBQuantity::length, GetLength)

	SB_NODE_GETTER_0 (, SBPosition3, GetMidPoint)

	SB_NODE_GETTER_0 (, std::string, GetStatusBit)

	SB_NODE_GETTER_0 (, int, GetCustomType)

	SB_NODE_PREDICATE_0 (, HasStatusBit)

	SB_NODE_PREDICATE_0 (, HasCustomType)

	SB_DECLARE_DATA (SBMStructuralModelNodeBond)

Public Member Functions inherited from SBMStructuralModelNode
	SB_NODE_GETTER_0 (, bool, GetMobilityFlag)

	SB_DECLARE_DATA (SBMStructuralModelNode)

virtual	~SBMStructuralModelNode ()

virtual SBPointerList< SBMStructuralModelNode > const *	getChildren () const

SBMStructuralModelNode *	getNextStructuralNode () const

SBMStructuralModelNode *	getPreviousStructuralNode () const

virtual bool	isLocked () const
	Returns whether the node is locked (because of the model)

virtual bool	getLockedFlag () const
	Returns the locked flag of the model.

SBMStructuralModel *	getModel () const

bool	getMobilityFlag () const
	Returns the mobility flag.

void	setMobilityFlag (bool flag)
	Sets the mobility flag to `flag`.

virtual unsigned int	getOpacity () const
	Returns the opacity.

virtual unsigned int	getMinimumOpacity () const
	Returns the minimum opacity.

virtual unsigned int	getTransparency () const
	Returns the transparency.

virtual unsigned int	getMaximumTransparency () const
	Returns the maximum transparency.

void	connectStructuralSignalToSlot (SBCReferenceTarget referenceTarget, void(SBCReferenceTarget::functionPointer)(SBStructuralEvent ), SBCReferenceTarget nextReferenceTarget=0, void(SBCReferenceTarget::nextFunctionPointer)(SBStructuralEvent )=0)

bool	structuralSignalIsConnectedToSlot (SBCReferenceTarget referenceTarget, void(SBCReferenceTarget::functionPointer)(SBStructuralEvent *)) const

void	disconnectStructuralSignalFromSlot (SBCReferenceTarget referenceTarget, void(SBCReferenceTarget::functionPointer)(SBStructuralEvent *))

void	getAllStructuralNodesBreadthFirstTopDown (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getInternalStructuralNodesBreadthFirstTopDown (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getLeafStructuralNodesBreadthFirstTopDown (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getStructuralNodesBreadthFirstTopDown (std::vector< SBMStructuralModelNode > &nodeIndexer, bool(selectionRule)(SBMStructuralModelNode *))

void	getAllStructuralNodesBreadthFirstBottomUp (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getInternalStructuralNodesBreadthFirstBottomUp (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getLeafStructuralNodesBreadthFirstBottomUp (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getStructuralNodesBreadthFirstBottomUp (std::vector< SBMStructuralModelNode > &nodeIndexer, bool(selectionRule)(SBMStructuralModelNode *))

void	getAllStructuralNodesDepthFirst (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getInternalStructuralNodesDepthFirst (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getLeafStructuralNodesDepthFirst (std::vector< SBMStructuralModelNode *> &nodeIndexer)

void	getStructuralNodesDepthFirst (std::vector< SBMStructuralModelNode > &nodeIndexer, bool(selectionRule)(SBMStructuralModelNode *))

void	getStructuralNodesBreadthFirst (std::vector< SBMStructuralModelNode > &nodeVectorTopDown, std::vector< SBMStructuralModelNode > &nodeVectorBottomUp, bool(selectionRule)(SBMStructuralModelNode ))

virtual void	forEachNodeDepthFirst (void(action)(SBDDataGraphNode node))
	Performs an action on each node.

virtual void	forEachNodeDepthFirst (SBCClass object, void(SBCClass::action)(SBDDataGraphNode *node))
	Performs an action on each node.

void	forEachStructuralNodeBreadthFirst (void(action)(SBMStructuralModelNode node))

void	forEachStructuralNodeDepthFirst (void(action)(SBMStructuralModelNode node))

void	forEachStructuralNodeBreadthFirst (SBCClass object, void(SBCClass::action)(SBMStructuralModelNode *node))

void	forEachStructuralNodeDepthFirst (SBCClass object, void(SBCClass::action)(SBMStructuralModelNode *node))

Public Member Functions inherited from SBMModelNode
	SB_DECLARE_DATA (SBMModelNode)

Public Member Functions inherited from SBDDataGraphNode
	SB_DECLARE_DATA (SBDDataGraphNode)

SBDDataGraphNode *	getParent () const
	Returns the parent of the node. More...

SBDDataGraphNode *	getThisNode () const
	Returns the pointer to this node. More...

SBDDataGraphNode *	getNextNode () const
	Returns the pointer to the next node in the children of the node's parent. More...

SBDDataGraphNode *	getPreviousNode () const
	Returns the pointer to the previous node in the children of the node's parent. More...

SBDDataGraphNode *	getNextNode (SBDDataGraphNode::Type nodeType) const
	Returns the pointer to the next node with type `nodeType` in the children of the node's parent. More...

SBDDataGraphNode *	getPreviousNode (SBDDataGraphNode::Type nodeType) const
	Returns the pointer to the previous node with type `nodeType` in the children of the node's parent. More...

SBDDocument *	getDocument () const
	Returns the document the node belongs to. More...

virtual bool	canAddChild (SBDDataGraphNode node, SBDDataGraphNode nextNode=0) const
	Returns whether this node can add `node` as a child. More...

virtual bool	canAddChildType (SBDDataGraphNode::Type nodeType) const
	Returns whether this node can add a node with type `nodeType` as a child. More...

virtual bool	canHaveDescendantType (SBDDataGraphNode::Type nodeType) const
	Returns whether this node can have a node with type `nodeType` as a descendant. More...

virtual bool	addChild (SBDDataGraphNode node, SBDDataGraphNode nextNode=0)
	Adds a child to the node. More...

virtual bool	removeChild (SBDDataGraphNode *node)
	Removes a child from the node. More...

bool	hasOneOf (const SBNodeIndexer &nodeIndexer) const
	Returns true if and only if this node is one of the nodes of the `nodeIndexer`, or is the ancestor of one of them. More...

bool	descendsFrom (SBDDataGraphNode *node) const
	Returns true if and only if this node is `node`, or descends from it. More...

bool	descendsFrom (const SBNodeIndexer &nodeIndexer) const
	Returns true if and only if this node is one of the nodes of the `nodeIndexer`, or descends from one of them. More...

bool	descendsFrom (SBPointerIndexer< SBDDataGraphNode > *nodePointerIndexer) const
	Returns true if and only if this node is one of the nodes of the `nodePointerIndexer`, or descends from one of them. More...

bool	isIn (SBDDataGraphNode *node) const
	Returns true if and only if this node is `node`, or descends from it, or belongs to a group stored in `node`. More...

bool	isIn (const SBNodeIndexer &nodeIndexer) const
	Returns true if and only if this node is one of the nodes of the `nodeIndexer`, or descends from one of them, or belongs to a group stored in one of the nodes of the `nodeIndexer`. More...

bool	isIn (SBPointerIndexer< SBDDataGraphNode > *nodePointerIndexer) const
	Returns true if and only if this node is one of the nodes of the `nodePointerIndexer`, or descends from one of them, or belongs to a group stored in of the nodes of the `nodePointerIndexer`. More...

bool	isOneOf (const SBNodeIndexer &nodeIndexer) const
	Returns true if and only if this node is one of the nodes of the `nodeIndexer`. More...

bool	isOneOf (SBPointerIndexer< SBDDataGraphNode > *nodePointerIndexer) const
	Returns true if and only if this node is one of the nodes of the `nodePointerIndexer`. More...

SBDDataGraphNode *	getRoot () const
	Returns the root of the hierarchy the node belongs to. More...

unsigned int	getNodeIndex () const
	Returns the node index (unique in the whole data graph, but non-persistent) More...

std::string	getTypeString (bool humanReadable=false) const
	Returns a string describing the type of the data graph node. More...

virtual std::string const &	getName () const
	Returns the name of the node.

virtual void	setName (const std::string &name)
	Sets the name of the node. More...

bool	isType (Type type) const
	Returns true when the type of the node corresponds to `type`.

bool	isModel () const
	Returns true when the node is a model.

bool	isStructuralNode () const
	Returns true when the node is a structural node.

bool	isStructuralModel () const
	Returns true when the node is a structural model.

bool	isVisualModel () const
	Returns true when the node is a visual model.

bool	isDynamicalModel () const
	Returns true when the node is a dynamical model.

bool	isInteractionModel () const
	Returns true when the node is a interaction model.

bool	isPropertyModel () const
	Returns true when the node is a property model.

bool	isMesh () const
	Returns true when the node is a mesh.

bool	isSimulator () const
	Returns true when the node is a simulator.

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

virtual void	setLockedFlag (bool flag)
	Sets the locked flag.

bool	isCreated () const
	Returns true if and only if the node is created. More...

void	create ()
	Creates the node. More...

bool	isErased () const
	Returns true if and only if the node is erased. More...

void	erase ()
	Erases the node. More...

unsigned int	getFlags () const
	Returns the flags. More...

unsigned int	getInheritedFlags () const
	Returns the inherited flags. More...

bool	isSelected () const
	Returns whether the node is selected. More...

bool	getSelected () const
	Returns whether the node is selected.

bool	getSelectionFlag () const
	Returns the selection flag. More...

void	setSelectionFlag (bool flag)
	Sets the selection flag. More...

bool	isVisible () const
	Returns whether the node is visible. More...

bool	getVisible () const
	Returns whether the node is visible.

bool	getVisibilityFlag () const
	Returns the visibility flag. More...

void	setVisibilityFlag (bool flag)
	Sets the visibility flag. More...

bool	isHighlighted () const
	Returns whether the node is highlighted. More...

bool	getHighlightingFlag () const
	Returns the highlighting flag. More...

void	setHighlightingFlag (bool flag)
	Sets the highlighting flag. More...

virtual void	display (RenderingPass renderingPass)
	Displays the node. More...

virtual void	display ()
	Displays the node (deprecated) More...

virtual void	displayForShadow ()
	Displays the node for shadowing purposes (deprecated) More...

virtual void	displayForSelection ()
	Displays the node for selection purposes (deprecated) More...

virtual void	setOpacity (unsigned int opacity)
	Sets the opacity.

virtual bool	hasOpacityRange () const
	Returns whether the node has the opacity range.

virtual unsigned int	getDefaultOpacity () const
	Returns the default opacity.

virtual unsigned int	getMaximumOpacity () const
	Returns the maximum opacity.

virtual unsigned int	getOpacitySingleStep () const
	Returns the opacity single step.

virtual std::string	getOpacitySuffix () const
	Returns the opacity suffix.

virtual void	setTransparency (unsigned int transparency)
	Sets the transparency.

virtual bool	hasTransparencyRange () const
	Returns whether the node has the transparency range.

virtual unsigned int	getDefaultTransparency () const
	Returns the default transparency.

virtual unsigned int	getMinimumTransparency () const
	Returns the minimum transparency.

virtual unsigned int	getTransparencySingleStep () const
	Returns the transparency single step.

virtual std::string	getTransparencySuffix () const
	Returns the transparency suffix.

float	getInheritedOpacity () const
	Returns the cumulative opacity, when taking into account the ascendants.

float	getInheritedTransparency () const
	Returns the cumulative transparency, when taking into account the ascendants.

bool	addMaterial (SBDDataGraphNodeMaterial *material)
	Adds a material. More...

bool	removeMaterial ()
	Removes the material. More...

SBDDataGraphNodeMaterial *	getMaterial () const
	Returns the material. More...

SBDDataGraphNode *	getMaterialOwner () const
	Returns the node whose material is inherited. More...

void	connectBaseSignalToSlot (SBCReferenceTarget referenceTarget, void(SBCReferenceTarget::functionPointer)(SBBaseEvent ), SBCReferenceTarget nextReferenceTarget=0, void(SBCReferenceTarget::nextFunctionPointer)(SBBaseEvent )=0)
	Connects the base signal to a slot. More...

bool	baseSignalIsConnectedToSlot (SBCReferenceTarget referenceTarget, void(SBCReferenceTarget::functionPointer)(SBBaseEvent *)) const
	Returns true when the base signal is connected to a slot.

void	disconnectBaseSignalFromSlot (SBCReferenceTarget referenceTarget, void(SBCReferenceTarget::functionPointer)(SBBaseEvent *))
	Disconnects the base signal from a slot.

unsigned int	countNodes (SBDDataGraphNode::Type nodeType, bool selectedNodesOnly=false, const SBNodePredicate &visitPredicate=SBDDataGraphNode::All(), bool includeDependencies=false) const
	Collects nodes into `nodeIndexer`, based on a `nodeType`, a selection status and a `visitPredicate`, with our without dependencies. More...

unsigned int	countNodes (const SBNodePredicate &selectionPredicate=SBDDataGraphNode::All(), const SBNodePredicate &visitPredicate=SBDDataGraphNode::All(), bool includeDependencies=false) const
	Collects nodes into `nodeIndexer`, based on a `selectionPredicate` and a `visitPredicate`, with our without dependencies. More...

virtual std::string	getHierarchyString (const std::string &separator="/", bool includeNodeType=false) const
	Returns a string with hierarchical information on the node and its parents names. More...

Public Member Functions inherited from SBCReferenceTarget
	SBCReferenceTarget ()

virtual	~SBCReferenceTarget ()

unsigned int	getMemoryFootprint () const

void	printReferencesToOwners () const

Constructors and destructors
	SBMStructuralModelNodeBond ()
	Constructs a bond.

	SBMStructuralModelNodeBond (SBMStructuralModelNodeAtom leftAtom, SBMStructuralModelNodeAtom rightAtom, const SBQuantity::dimensionless &order=SBQuantity::dimensionless(1.0))
	Constructs a bond between atoms `leftAtom` and `rightAtom` and a specific bond `order`.

virtual	~SBMStructuralModelNodeBond ()
	Destructs the bond.

Serialization
bool	isSerializable () const
	Returns true.

virtual void	serialize (SBCSerializer *serializer, const SBNodeIndexer &nodeIndexer, const SBVersionNumber &sdkVersionNumber=SB_SDK_VERSION_NUMBER, const SBVersionNumber &classVersionNumber=SBVersionNumber(1, 0, 0)) const
	Serializes the bond.

virtual void	unserialize (SBCSerializer *serializer, const SBNodeIndexer &nodeIndexer, const SBVersionNumber &sdkVersionNumber=SB_SDK_VERSION_NUMBER, const SBVersionNumber &classVersionNumber=SBVersionNumber(1, 0, 0))
	Unserializes the bond.

Topology
enum	BondType { Undefined, Single, Double, Triple, Amide, Aromatic, Dummy }
	The bond type. More...

SBQuantity::dimensionless const &	getOrder () const
	Returns the bond order.

void	setOrder (const SBQuantity::dimensionless &order)
	Sets the bond order to `order`.

SBQuantity::dimensionless const &	getMinimumOrder () const
	Returns the minimum bond order for the inspector.

SBQuantity::dimensionless const &	getMaximumOrder () const
	Returns the maximum bond order for the inspector.

SBQuantity::dimensionless const &	getOrderSingleStep () const
	Returns the bond order single step for the inspector.

std::string	getOrderSuffix () const
	Returns the bond order suffix for the inspector.

BondType	getBondType () const
	Returns the bond type.

void	setBondType (BondType bondType)
	Sets the bond type to `bondType`.

SBMStructuralModelNodeAtom *	getLeftAtom () const
	Returns a pointer to the left atom.

SBMStructuralModelNodeAtom *	getRightAtom () const
	Returns a pointer to the right atom.

SBMStructuralModelNodeAtom *	getOppositeAtom (const SBMStructuralModelNodeAtom *atom) const
	Returns the pointer to the atom opposite `atom`, when `atom` is either the left atom or the right atom of the bond.

SBQuantity::length	getLength () const
	Compute the length of the bond.

SBPosition3	getMidPoint () const
	Compute the mid point of the bond.

const SBVector3 &	getDisplacement () const
	Returns the displacement used for display when multiple bond rendering is turned on.

bool	isLinking (const SBNodeIndexer &nodeIndexer) const
	Returns true if and only if either atom is in `nodeIndexer`, or descends from a node of `nodeIndexer`.

virtual SBMStructuralModelNodeBond *	clone ()
	Returns a copy of the node and its descendants.

static std::string	getBondTypeString (BondType bondType)
	Returns the string corresponding to the `bondType`.

Identity
SBDDataGraphNode::Type	getType () const
	Returns the node type (SBNode::Bond)

Selection functions
virtual void	getNodes (SBNodeIndexer &nodeIndexer, SBNode::Type nodeType, bool selectedNodesOnly=false, const SBNodePredicate &visitPredicate=SBDDataGraphNode::All(), bool includeDependencies=false) const
	Collects nodes into `nodeIndexer`, based on a `nodeType`, a selection status and a `visitPredicate`, with our without dependencies. More...

virtual void	getNodes (SBNodeIndexer &nodeIndexer, const SBNodePredicate &selectionPredicate=SBDDataGraphNode::All(), const SBNodePredicate &visitPredicate=SBDDataGraphNode::All(), bool includeDependencies=false) const
	Returns some nodes. More...

Properties
bool	hasStatusBit () const
	Returns true when the bond's status bit is set.

std::string const &	getStatusBit () const
	Returns the bond's status bit.

void	setStatusBit (const std::string &statusBit)
	Sets the bond's status bit.

void	clearStatusBit ()
	Clears the bond's status bit.

bool	hasCustomType () const
	Returns true when the bond's custom type is set.

int const &	getCustomType () const
	Returns the bond's custom type.

void	setCustomType (const int &water)
	Sets the bond's custom type.

void	clearCustomType ()
	Clears the bond's custom type.

bool	isAmideBond () const
	Returns true if the bond is an amide bond, i.e. between a Nitrogen and a carbonyl Carbon: N-C=O. More...

bool	isPrimaryAmideBond () const
	Returns true if the bond is a primary amide bond, i.e. an amid bond where the Nitrogen atom has exactly one non-Hydrogen bond. More...

bool	isSecondaryAmideBond () const
	Returns true if the bond is a secondary amide bond, i.e. an amid bond where the Nitrogen atom has exactly two non-Hydrogen bonds. More...

bool	isTertiaryAmideBond () const
	Returns true if the bond is a tertiary amide bond, i.e. an amid bond where the Nitrogen atom has exactly three non-Hydrogen bonds. More...

bool	isCarbonylBond () const
	Returns true if the bond is a carbonyl bond (C=O) More...

bool	isEsterBond () const
	Returns true if the bond is an ester bond, i.e. between an Oxygen and a carbonyl Carbon: O-C=O.

Debugging
virtual void	print (unsigned int offset=0) const
	Prints debugging information.

Additional Inherited Members
Public Types inherited from SBDDataGraphNode
enum	RenderingPass { RenderingPass::Setup, RenderingPass::OpaqueGeometry, RenderingPass::SelectableGeometry, RenderingPass::ShadowingGeometry, RenderingPass::TransparentGeometry, RenderingPass::Interface, RenderingPass::Text }
	The rendering pass. More...

enum	Type { Undefined, StructuralModel, StructuralModelNode, StructuralModelConformation, Conformation, StructuralModelPath, Path, StructuralModelNodeGroup, StructuralGroup, StructuralModelNodeRoot, Root, StructuralModelNodeParticle, StructuralParticle, StructuralModelNodeAtom, Atom, StructuralModelNodePseudoAtom, PseudoAtom, StructuralModelNodeBond, Bond, StructuralModelNodePseudoBond, PseudoBond, StructuralModelNodeHydrogenBond, HydrogenBond, StructuralModelNodeHydrogenBondGroup, HydrogenBondGroup, StructuralModelNodeResidue, Residue, StructuralModelNodeSegment, Segment, StructuralModelNodeProtein, Protein, StructuralModelNodeChain, Chain, StructuralModelNodeMolecule, Molecule, StructuralModelNodeBackbone, Backbone, StructuralModelNodeSideChain, SideChain, VisualModel, VisualModelMesh, Mesh, DynamicalModel, DynamicalModelParticleSystem, ParticleSystem, DynamicalModelRigidBodySystem, RigidBodySystem, DynamicalModelArticulatedBodySystem, ArticulatedBodySystem, DynamicalModelNode, DynamicalNode, DynamicalModelNodeGroup, DynamicalGroup, DynamicalModelNodeRoot, DynamicalRoot, DynamicalModelNodeParticle, DynamicalParticle, DynamicalModelNodeRigidBody, RigidBody, DynamicalModelNodeArticulatedBody, ArticulatedBody, InteractionModel, InteractionModelParticleSystem, InteractionModelRigidBodySystem, InteractionModelArticulatedBodySystem, PropertyModel, PropertyModelFunction, Simulator, SimulatorParticleSystem, SimulatorRigidBodySystem, SimulatorArticulatedBodySystem, StateUpdater, StateUpdaterParticleSystem, StateUpdaterRigidBodySystem, StateUpdaterArticulatedBodySystem, DocumentManager, Document, Folder, Camera, Label, Note, Animation, Presentation, DataGraphNodeGroup, NodeGroup, Controller, ControllerNode, Asset }
	The type of the data graph node. More...

Static Public Member Functions inherited from SBMStructuralModelNode
static void	forEachStructuralNodeInSelection (std::vector< SBMStructuralModelNode > &selection, void(action)(SBMStructuralModelNode *node))

static void	forEachStructuralNodeInSelection (std::vector< SBMStructuralModelNode > &selection, SBCClass object, void(SBCClass::action)(SBMStructuralModelNode node))

Static Public Member Functions inherited from SBDDataGraphNode
static void	clone (const SBNodeIndexer &sourceNodeIndexer, SBNodeIndexer &destinationNodeIndexer)
	Clones the nodes in `sourceNodeIndexer` (treated as a whole) and places the clones in `destinationNodeIndexer`. More...

static SBDDataGraphNode *	getNode (unsigned int nodeIndex)
	Returns the unique node corresponding to the node index `nodeIndex`. More...

static std::string	getTypeString (Type type, bool humanReadable=false)
	Returns a string describing the type of the data graph node. More...

static void	forEachNodeInSelection (SBNodeIndexer &nodeIndexer, void(action)(SBDDataGraphNode node))
	Performs an action for each node in a selection.

static void	forEachNodeInSelection (SBNodeIndexer &nodeIndexer, SBCClass object, void(SBCClass::action)(SBDDataGraphNode *node))
	Performs an action for each node in a selection.

Protected Member Functions inherited from SBMStructuralModelNode
	SBMStructuralModelNode ()
	Builds a structural model node.

	SBMStructuralModelNode (SBMStructuralModelNodeData *dataPointer)
	Builds a structural model node.

Protected Member Functions inherited from SBMModelNode
	SBMModelNode ()
	Builds a base object.

	SBMModelNode (SBMModelNodeData *dataPointer)
	Builds a base object.

virtual	~SBMModelNode ()

Protected Member Functions inherited from SBDDataGraphNode
	SBDDataGraphNode ()
	Builds a data graph node. More...

	SBDDataGraphNode (SBDDataGraphNodeData *dataPointer)
	Builds a data graph node.

virtual	~SBDDataGraphNode ()
	Destroys the node. More...

Protected Member Functions inherited from SBCReferenceTarget
void	removeAllReferenceOwners ()

	SBCReferenceTarget (SBCReferenceTargetData *dataPointer)

Protected Attributes inherited from SBCReferenceTarget
SBCReferenceTargetData *	dataPointer

Member Enumeration Documentation

◆ BondType

enum SBMStructuralModelNodeBond::BondType

Enumerator
Undefined	The bond type.
Single	The single bond type.
Double	The double bond type.
Triple	The triple bond type.
Amide	The amide bond type.
Aromatic	The aromatic bond type.
Dummy	The dummy bond type.

Member Function Documentation

◆ getNodes() [1/2]

void SBMStructuralModelNodeBond::getNodes	(	SBNodeIndexer &	nodeIndexer,
		SBNode::Type	nodeType,
		bool	selectedNodesOnly = `false`,
		const SBNodePredicate &	visitPredicate = `SBDDataGraphNode::All()`,
		bool	includeDependencies = `false`
	)		const

virtual

This function adds to nodeIndexer the bond itself (if the predicates are valid) and, if includeDependencies is true, attempts to add the bonded atoms as well.

Reimplemented from SBMStructuralModelNode.

◆ getNodes() [2/2]

void SBMStructuralModelNodeBond::getNodes	(	SBNodeIndexer &	nodeIndexer,
		const SBNodePredicate &	selectionPredicate = `SBDDataGraphNode::All()`,
		const SBNodePredicate &	visitPredicate = `SBDDataGraphNode::All()`,
		bool	includeDependencies = `false`
	)		const

virtual

This function adds to nodeIndexer the bond itself (if the predicates are valid) and, if includeDependencies is true, attempts to add the bonded atoms as well.

Reimplemented from SBMStructuralModelNode.

◆ isAmideBond()

bool SBMStructuralModelNodeBond::isAmideBond ( ) const

This function returns true if this bonds is an amide bond, i.e. a bond between a Nitrogen and a carbonyl Carbon. Amide has a general formula RC(=O)NR'R'', where R, R', and R'' represent organic groups or hydrogen atoms. This function checks for a single C-N bond in which Nitrogen has 3 bonds and Carbon has a carbonyl bond (C=O).

◆ isCarbonylBond()

bool SBMStructuralModelNodeBond::isCarbonylBond ( ) const

This functions returns true if this bonds is a carbonyl bond - a double bond between carbon and oxygen.

◆ isPrimaryAmideBond()

bool SBMStructuralModelNodeBond::isPrimaryAmideBond ( ) const

This function returns true if this is an amide bond and Nitrogen participating in this bond has exactly one non hydrogen bond.

◆ isSecondaryAmideBond()

bool SBMStructuralModelNodeBond::isSecondaryAmideBond ( ) const

This function returns true if this is an amide bond and Nitrogen participating in this bond has exactly two non hydrogen bonds.

◆ isTertiaryAmideBond()

bool SBMStructuralModelNodeBond::isTertiaryAmideBond ( ) const

This function returns true if this is an amide bond and Nitrogen participating in this bond has exactly three non hydrogen bonds.

Public Member Functions

Constructors and destructors

Serialization

Topology

Identity

Selection functions

Properties

Debugging

Additional Inherited Members