verhaar.rules

Class Rule25

java.lang.Object

java.util.Observable

toxTree.tree.AbstractRule

toxTree.tree.AbstractRuleHilightHits

toxTree.tree.rules.RuleSubstructures

toxTree.tree.rules.RuleRings

toxTree.tree.rules.RuleRingSubstituents

toxTree.tree.rules.RuleRingAllowedSubstituents

verhaar.rules.RuleRingMainStrucSubstituents

verhaar.rules.Rule21

verhaar.rules.Rule25

All Implemented Interfaces:

Serializable, Cloneable, IDecisionRule, IImplementationDetails, IRuleSubstructures, XMLSerializable, IAlertCounter

public class Rule25
extends Rule21

Pyridines with one or two chlorine substituents and/or alkyl substituents.

Author:

Nina Jeliazkova jeliazkova.nina@gmail.com Modified July 12, 2011

See Also:

Serialized Form

Field Summary

Fields inherited from class verhaar.rules.Rule21

alertsCounter, halogenIDs, halogens, halogensCount, maxHalogens, maxNitroGroups, nitroGroupsCount, nitroIDs, phenolIDs

Fields inherited from class verhaar.rules.RuleRingMainStrucSubstituents

mainStructure

Fields inherited from class toxTree.tree.rules.RuleRingSubstituents

analyzeOnlyRingsWithFlagSet, CONDITION_FAILED, CYCLIC_SUBSTITUENT, ERR_PRECONDITION_FAILED, LONGCHAIN_SUBSTITUENT

Fields inherited from class toxTree.tree.rules.RuleSubstructures

ids, MSG_HASGROUP

Fields inherited from class toxTree.tree.AbstractRule

changes, editable, ERR_STRUCTURENOTPREPROCESSED, examples, explanation, id, logger, MSG_NO, MSG_YES, no, residueIDHidden, title

Fields inherited from interface toxTree.core.XMLSerializable

xmltag_CATEGORIES, xmltag_CATEGORY, xmltag_CATEGORYTHRESHOLD, xmltag_CLASS, xmltag_EXPLANATION, xmltag_ID, xmltag_METHOD, xmltag_METHODPARAMETER, xmltag_METHODS, xmltag_NAME, xmltag_RULE, xmltag_RULEEXAMPLE, xmltag_RULES, xmltag_TREEROOT

Constructor Summary

Constructors

Constructor and Description
Rule25()

Method Summary

Modifier and Type	Method and Description
protected org.openscience.cdk.isomorphism.matchers.QueryAtomContainer	createMainStructure()
protected String[]	getHalogens()

Methods inherited from class verhaar.rules.Rule21

getImplementationDetails, getMaxHalogens, getMaxNitroGroups, incrementCounter, initQuery, isImplemented, setMaxHalogens, setMaxNitroGroups, substituentIsAllowed, verifyRule, verifyRule

Methods inherited from class toxTree.tree.rules.RuleRingSubstituents

allowedSubstituents, analyze, analyzeOnlyRingsWithFlagSet, clearFlags, getFlag, setAnalyzeAromatic, setAnalyzeHeterocyclic, setAnalyzeOnlyRingsWithFlagSet, setFlag

Methods inherited from class toxTree.tree.rules.RuleRings

hasRingsToProcess

Methods inherited from class toxTree.tree.rules.RuleSubstructures

addSubstructure, clearSubstructures, equals, getIds, getQuery, getSubstructure, getSubstructures, getSubstructuresCount, removeSubstructure, setIds, setQuery, setSubstructure

Methods inherited from class toxTree.tree.AbstractRuleHilightHits

getSelector

Methods inherited from class toxTree.tree.AbstractRule

addPropertyChangeListener, clearFlags, clone, createRule, fromXML, getEditor, getExampleMolecule, getExamples, getExplanation, getID, getNum, getTitle, hideResiduesID, isEditable, isResidueIDHidden, log, log, log, makeMolecule, removePropertyChangeListener, setEditable, setExampleMolecule, setExamples, setExplanation, setID, setNum, setTitle, toShallowXML, toString, toXML

Methods inherited from class java.util.Observable

addObserver, clearChanged, countObservers, deleteObserver, deleteObservers, hasChanged, notifyObservers, notifyObservers, setChanged

Methods inherited from class java.lang.Object

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

Methods inherited from interface toxTree.core.IDecisionRule

addPropertyChangeListener, clearFlags, clone, getEditor, getExampleMolecule, getExplanation, getID, getNum, getSelector, getTitle, hideResiduesID, isEditable, isResidueIDHidden, removePropertyChangeListener, setEditable, setExampleMolecule, setExplanation, setID, setNum, setTitle, toString

Constructor Detail

Rule25

public Rule25()
       throws Exception

Throws:

Exception

Method Detail

getHalogens

protected String[] getHalogens()

Overrides:

getHalogens in class Rule21

createMainStructure

protected org.openscience.cdk.isomorphism.matchers.QueryAtomContainer createMainStructure()
                                                                                   throws org.openscience.cdk.exception.CDKException

Overrides:

createMainStructure in class Rule21

Throws:

org.openscience.cdk.exception.CDKException