Uses of Interface
org.openscience.cdk.isomorphism.matchers.IQueryAtom

Packages that use IQueryAtom

Package	Description
org.openscience.cdk.isomorphism.matchers
org.openscience.cdk.isomorphism.matchers.smarts
org.openscience.cdk.pharmacophore
org.openscience.cdk.smsd.algorithm.matchers

Uses of IQueryAtom in org.openscience.cdk.isomorphism.matchers

Classes in org.openscience.cdk.isomorphism.matchers that implement IQueryAtom

Modifier and Type	Class	Description
class	InverseSymbolSetQueryAtom	Deprecated.
class	QueryAtom
class	SymbolAndChargeQueryAtom	Deprecated.
class	SymbolChargeIDQueryAtom
class	SymbolQueryAtom	Deprecated.
class	SymbolSetQueryAtom	Deprecated. Use new Expr(Element, 6).and(new Expr(Element, 8)) etc

Constructors in org.openscience.cdk.isomorphism.matchers with parameters of type IQueryAtom

Modifier	Constructor	Description
	OrderQueryBond(IQueryAtom atom1, IQueryAtom atom2, IBond.Order order, IChemObjectBuilder builder)	Deprecated.
	OrderQueryBondOrderOnly(IQueryAtom atom1, IQueryAtom atom2, IBond.Order order, IChemObjectBuilder builder)	Deprecated.

Uses of IQueryAtom in org.openscience.cdk.isomorphism.matchers.smarts

Classes in org.openscience.cdk.isomorphism.matchers.smarts that implement IQueryAtom

Modifier and Type	Class	Description
class	AliphaticAtom	Deprecated.
class	AliphaticSymbolAtom	Deprecated.
class	AnyAtom	Deprecated.
class	AromaticAtom	Deprecated.
class	AromaticSymbolAtom	Deprecated.
class	AtomicNumberAtom	Deprecated.
class	ChiralityAtom	Deprecated.
final class	ExplicitConnectionAtom	Deprecated.
class	FormalChargeAtom	Deprecated.
class	HybridizationNumberAtom	Deprecated.
class	HydrogenAtom	Deprecated.
class	ImplicitHCountAtom	Deprecated.
class	LogicalOperatorAtom	Deprecated.
class	MassAtom	Deprecated.
class	NonCHHeavyAtom	Deprecated.
class	PeriodicGroupNumberAtom	Deprecated.
class	ReactionRoleQueryAtom	Deprecated.
final class	RecursiveSmartsAtom	Deprecated.
class	RingIdentifierAtom	Deprecated.
class	RingMembershipAtom	Deprecated.
final class	SmallestRingAtom	Deprecated.
class	SMARTSAtom	Deprecated.
final class	TotalConnectionAtom	Deprecated.
final class	TotalHCountAtom	Deprecated.
final class	TotalRingConnectionAtom	Deprecated.
final class	TotalValencyAtom	Deprecated.

Methods in org.openscience.cdk.isomorphism.matchers.smarts that return IQueryAtom

Modifier and Type	Method	Description
IQueryAtom	RingIdentifierAtom.getAtom()	Deprecated.
IQueryAtom	LogicalOperatorAtom.getLeft()	Deprecated.
IQueryAtom	LogicalOperatorAtom.getRight()	Deprecated.

Methods in org.openscience.cdk.isomorphism.matchers.smarts with parameters of type IQueryAtom

Modifier and Type	Method	Description
static SMARTSAtom	LogicalOperatorAtom.and(IQueryAtom left, IQueryAtom right)	Deprecated. Conjunction the provided expressions.
static SMARTSAtom	LogicalOperatorAtom.not(IQueryAtom expr)	Deprecated. Negate the provided expression.
static SMARTSAtom	LogicalOperatorAtom.or(IQueryAtom left, IQueryAtom right)	Deprecated. Disjunction the provided expressions.
void	RingIdentifierAtom.setAtom(IQueryAtom atom)	Deprecated.
void	LogicalOperatorAtom.setLeft(IQueryAtom left)	Deprecated.
void	LogicalOperatorAtom.setRight(IQueryAtom right)	Deprecated.

Constructors in org.openscience.cdk.isomorphism.matchers.smarts with parameters of type IQueryAtom

Modifier	Constructor	Description
	AnyOrderQueryBond(IQueryAtom atom1, IQueryAtom atom2, IBond.Order order, IChemObjectBuilder builder)	Deprecated. Creates a new instance.
	AromaticOrSingleQueryBond(IQueryAtom atom1, IQueryAtom atom2, IBond.Order order, IChemObjectBuilder builder)	Deprecated. Creates a new instance
	AromaticQueryBond(IQueryAtom atom1, IQueryAtom atom2, IBond.Order order, IChemObjectBuilder builder)	Deprecated. Creates a new instance
	SMARTSBond(IQueryAtom atom1, IQueryAtom atom2, IBond.Order order, IChemObjectBuilder builder)	Deprecated.

Uses of IQueryAtom in org.openscience.cdk.pharmacophore

Classes in org.openscience.cdk.pharmacophore that implement IQueryAtom

Modifier and Type	Class	Description
class	PharmacophoreQueryAtom	Represents a query pharmacophore group.

Uses of IQueryAtom in org.openscience.cdk.smsd.algorithm.matchers

Constructors in org.openscience.cdk.smsd.algorithm.matchers with parameters of type IQueryAtom

Modifier	Constructor	Description
	DefaultMCSPlusAtomMatcher(IQueryAtom smartQueryAtom, IQueryAtomContainer container)	Deprecated. Constructor
	DefaultVFAtomMatcher(IQueryAtom smartQueryAtom, IQueryAtomContainer container)	Deprecated. Constructor