chemaxon.checkers

Class CircularRGroupReferenceChecker

java.lang.Object

chemaxon.checkers.AbstractStructureChecker

chemaxon.checkers.CircularRGroupReferenceChecker

All Implemented Interfaces:

StructureChecker, chemaxon.license.Licensable, PropertyChangeListener, Cloneable, EventListener

public class CircularRGroupReferenceChecker
extends AbstractStructureChecker

A descendant of AbstractStructureChecker detecting circular R-group references.

Since:

Marvin 5.10

Version:

5.10

Author:

Imre Barna

Field Summary

Fields inherited from class chemaxon.checkers.AbstractStructureChecker

errorType, propertyChangeSupport

Fields inherited from interface chemaxon.checkers.StructureChecker

PROPERTY_KEY_VALID

Constructor Summary

Constructors

Constructor and Description
CircularRGroupReferenceChecker() Initializes the checker

Method Summary

Methods

Modifier and Type	Method and Description
protected StructureCheckerResult	check1(Molecule molecule) This method contains the current checking mechanism.
protected void	convertResult(Molecule originalMolecule, Molecule expandedMolecule, StructureCheckerResult result, Map<MolAtom,MolAtom> atomMap, Map<MolBond,MolBond> bondMap) This implementation does nothing.
protected Molecule	expandMolecule(Molecule molecule, Map<MolAtom,MolAtom> atomMap, Map<MolBond,MolBond> bondMap) This implementation does nothing.

Methods inherited from class chemaxon.checkers.AbstractStructureChecker

addPropertyChangeListener, addPropertyChangeListener, check, clone, cloneItem, equals, getDescription, getDescriptor, getEditorClassName, getErrorCode, getErrorDescription, getErrorType, getHelpText, getIcon, getLocalMenuName, getName, hashCode, isAvailable, isLicensed, isValid, propertyChange, removePropertyChangeListener, removePropertyChangeListener, setDescription, setHelpText, setIcon, setLicenseEnvironment, setLocalMenuName, setMoreErrorMessage, setName, setNoErrorMessage, setOneErrorMessage, toString

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

CircularRGroupReferenceChecker

public CircularRGroupReferenceChecker()

Initializes the checker

Method Detail

check1

protected StructureCheckerResult check1(Molecule molecule)

Description copied from class: AbstractStructureChecker

This method contains the current checking mechanism.

Specified by:

check1 in class AbstractStructureChecker

Parameters:

molecule - the Molecule instance to be checked for problems

Returns:

a StructureCheckerResult which represents the problem or null if no problem found

convertResult

protected void convertResult(Molecule originalMolecule,
                 Molecule expandedMolecule,
                 StructureCheckerResult result,
                 Map<MolAtom,MolAtom> atomMap,
                 Map<MolBond,MolBond> bondMap)

This implementation does nothing.

Overrides:

convertResult in class AbstractStructureChecker

Parameters:

originalMolecule - the original molecule

expandedMolecule - the cloned then expanded molecule

result - the structure checker result on cloned molecule

atomMap - the mapping of cloned molecule and original molecule atoms

bondMap - the mapping of cloned molecule and original molecule bonds

expandMolecule

protected Molecule expandMolecule(Molecule molecule,
                      Map<MolAtom,MolAtom> atomMap,
                      Map<MolBond,MolBond> bondMap)

This implementation does nothing.

Overrides:

expandMolecule in class AbstractStructureChecker

Parameters:

molecule - the molecule to check

Returns:

the molecule