toxTree.tree.cramer
Class RuleSomeBenzeneDerivatives
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
toxTree.tree.cramer.RuleSomeBenzeneDerivatives
- All Implemented Interfaces:
- java.io.Serializable, java.lang.Cloneable, IDecisionRule, IRuleSubstructures, XMLSerializable
public class RuleSomeBenzeneDerivatives
- extends RuleRingAllowedSubstituents
Rule 6 of the Cramer scheme (see CramerRules
)
- Version:
- 0.1, 2005-5-2
- Author:
- Nina Jeliazkova
- See Also:
- Serialized Form
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 |
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.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 |
MSG_ALKOXYPARACH
public static final transient java.lang.String MSG_ALKOXYPARACH
- See Also:
- Constant Field Values
MSG_BENZENESUBSTITUENT
public static final transient java.lang.String MSG_BENZENESUBSTITUENT
- See Also:
- Constant Field Values
index_hydroxy1
protected int index_hydroxy1
index_hydroxy
protected int index_hydroxy
index_ester
protected int index_ester
index_alkoxy
protected int index_alkoxy
index_hydrocarbon
protected int index_hydrocarbon
chIDs
protected java.util.ArrayList chIDs
hydroxyIDs
protected java.util.ArrayList hydroxyIDs
alkoxyIDs
protected java.util.ArrayList alkoxyIDs
places
protected int[] places
ring6
protected org.openscience.cdk.isomorphism.matchers.QueryAtomContainer ring6
RuleSomeBenzeneDerivatives
public RuleSomeBenzeneDerivatives()
- Constructor
hasRingsToProcess
protected org.openscience.cdk.interfaces.IRingSet hasRingsToProcess(org.openscience.cdk.interfaces.IAtomContainer mol)
throws DecisionMethodException
- Overrides:
hasRingsToProcess
in class RuleRings
- Throws:
DecisionMethodException
substituentIsAllowed
public boolean substituentIsAllowed(org.openscience.cdk.interfaces.IAtomContainer a,
int[] place)
throws DecisionMethodException
- Description copied from class:
RuleRingSubstituents
- returns true if the substituent is allowed and false if it is forbidden
to be implemented by the inheriting class
- Overrides:
substituentIsAllowed
in class RuleRingAllowedSubstituents
- Throws:
DecisionMethodException
isImplemented
public boolean isImplemented()
- Specified by:
isImplemented
in interface IDecisionRule
- Overrides:
isImplemented
in class RuleRingAllowedSubstituents
- Returns:
- false if the rule is not implemented and true if it is
verifyRule
public boolean verifyRule(org.openscience.cdk.interfaces.IAtomContainer mol)
throws DecisionMethodException
- Description copied from class:
RuleRingSubstituents
IDecisionRule.verifyRule(IAtomContainer)
- Specified by:
verifyRule
in interface IDecisionRule
- Overrides:
verifyRule
in class RuleRingAllowedSubstituents
- Parameters:
mol
- org.openscience.cdk.interfaces.AtomContainer
- Returns:
- rule result, boolean
- Throws:
DecisionMethodException
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