Uses of Class
ambit2.smarts.SMIRKSManager

Packages that use SMIRKSManager

Package	Description
ambit2.reactions
ambit2.reactions.reactor
ambit2.reactions.retrosynth
ambit2.smarts	SMARTS parser
ambit2.smarts.processors

Uses of SMIRKSManager in ambit2.reactions

Methods in ambit2.reactions with parameters of type SMIRKSManager

Modifier and Type	Method and Description
org.openscience.cdk.interfaces.IAtomContainer	GenericReaction.applyAtInstance(org.openscience.cdk.interfaces.IAtomContainer target, List<org.openscience.cdk.interfaces.IAtom> instance, SMIRKSManager smrkMan)
org.openscience.cdk.interfaces.IAtomContainer	GenericReaction.applyAtInstance(org.openscience.cdk.interfaces.IAtomContainer target, List<org.openscience.cdk.interfaces.IAtom> instance, SMIRKSManager smrkMan, boolean FlagClone)
org.openscience.cdk.interfaces.IAtomContainer	GenericReaction.applyAtInstancesSimultaneously(org.openscience.cdk.interfaces.IAtomContainer target, List<List<org.openscience.cdk.interfaces.IAtom>> instances, SMIRKSManager smrkMan, boolean FlagClone)
void	GenericReaction.configure(SMIRKSManager smrkMan)
void	ReactionDataBase.configureGenericReactions(SMIRKSManager smrkMan)
List<List<org.openscience.cdk.interfaces.IAtom>>	GenericReaction.findReactionInstances(org.openscience.cdk.interfaces.IAtomContainer target, SMIRKSManager smrkMan)
List<List<org.openscience.cdk.interfaces.IAtom>>	GenericReaction.findReactionInstances(org.openscience.cdk.interfaces.IAtomContainer target, SMIRKSManager smrkMan, SmartsConst.SSM_MODE SSMode)

Uses of SMIRKSManager in ambit2.reactions.reactor

Fields in ambit2.reactions.reactor declared as SMIRKSManager

Modifier and Type	Field and Description
protected SMIRKSManager	Reactor.smrkMan

Methods in ambit2.reactions.reactor that return SMIRKSManager

Modifier and Type	Method and Description
SMIRKSManager	Reactor.getSMIRKSManager()

Uses of SMIRKSManager in ambit2.reactions.retrosynth

Methods in ambit2.reactions.retrosynth that return SMIRKSManager

Modifier and Type	Method and Description
SMIRKSManager	ReactionSequence.getSmrkMan()

Methods in ambit2.reactions.retrosynth with parameters of type SMIRKSManager

Modifier and Type	Method and Description
void	ReactionSequence.setSmrkMan(SMIRKSManager smrkMan)

Uses of SMIRKSManager in ambit2.smarts

Methods in ambit2.smarts that return SMIRKSManager

Modifier and Type	Method and Description
static SMIRKSManager	SMIRKSManager.getDefaultSMIRKSManager()

Uses of SMIRKSManager in ambit2.smarts.processors

Fields in ambit2.smarts.processors declared as SMIRKSManager

Modifier and Type	Field and Description
protected SMIRKSManager	SMIRKSProcessor.smrkMan

Methods in ambit2.smarts.processors with parameters of type SMIRKSManager

Modifier and Type	Method and Description
boolean	SMIRKSTransformation.applyTransformation(SMIRKSManager smrkMan, org.openscience.cdk.interfaces.IAtomContainer target)
void	SMIRKSTransformation.configure(SMIRKSManager smrkMan)
void	NeutraliseProcessor.configureReactions(SMIRKSManager smrkMan)
void	SMIRKSProcessor.configureReactions(SMIRKSManager smrkMan)