mutant.rules
Class SA20_nogen
java.lang.Object
java.util.Observable
toxTree.tree.AbstractRule
toxTree.tree.AbstractRuleHilightHits
toxTree.tree.rules.RuleSubstructures
toxTree.tree.rules.RuleRings
toxTree.tree.rules.RuleRingSubstituents
mutant.rules.SA20_nogen
- All Implemented Interfaces:
- java.io.Serializable, java.lang.Cloneable, IDecisionRule, IImplementationDetails, IRuleSubstructures, XMLSerializable, IAlertCounter
public class SA20_nogen
- extends RuleRingSubstituents
- implements IAlertCounter
- 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 |
Method Summary |
java.lang.String |
allowedSubstituents()
|
protected boolean |
analyze(org.openscience.cdk.interfaces.IRing r)
Initialize halogen counts to zero and returns true if the ring consists of single bonds only. |
java.lang.String |
getImplementationDetails()
|
ambit2.base.interfaces.IProcessor<org.openscience.cdk.interfaces.IAtomContainer,org.openscience.cdk.renderer.selection.IChemObjectSelection> |
getSelector()
|
void |
incrementCounter(org.openscience.cdk.interfaces.IAtomContainer mol)
|
boolean |
isImplemented()
|
boolean |
substituentIsAllowed(org.openscience.cdk.interfaces.IAtomContainer a,
int[] place)
Only counts halogens directly connected to the ring and returns true always. |
boolean |
verifyRule(org.openscience.cdk.interfaces.IAtomContainer mol,
org.openscience.cdk.interfaces.IAtomContainer selected)
|
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, getTitle, hideResiduesID, isEditable, isResidueIDHidden, removePropertyChangeListener, setEditable, setExampleMolecule, setExplanation, setID, setNum, setTitle, toString |
SA20_title
public static java.lang.String SA20_title
alertsCounter
protected IAlertCounter alertsCounter
SA20_nogen
public SA20_nogen()
incrementCounter
public void incrementCounter(org.openscience.cdk.interfaces.IAtomContainer mol)
- Specified by:
incrementCounter
in interface IAlertCounter
verifyRule
public boolean verifyRule(org.openscience.cdk.interfaces.IAtomContainer mol,
org.openscience.cdk.interfaces.IAtomContainer selected)
throws DecisionMethodException
- Overrides:
verifyRule
in class RuleRingSubstituents
- Throws:
DecisionMethodException
analyze
protected boolean analyze(org.openscience.cdk.interfaces.IRing r)
- Initialize halogen counts to zero and returns true if the ring consists of single bonds only.
- Overrides:
analyze
in class RuleRingSubstituents
substituentIsAllowed
public boolean substituentIsAllowed(org.openscience.cdk.interfaces.IAtomContainer a,
int[] place)
throws DecisionMethodException
- Only counts halogens directly connected to the ring and returns true always.
- Specified by:
substituentIsAllowed
in class RuleRingSubstituents
- Throws:
DecisionMethodException
allowedSubstituents
public java.lang.String allowedSubstituents()
- Overrides:
allowedSubstituents
in class RuleRingSubstituents
getImplementationDetails
public java.lang.String getImplementationDetails()
- Specified by:
getImplementationDetails
in interface IImplementationDetails
isImplemented
public boolean isImplemented()
- Specified by:
isImplemented
in interface IDecisionRule
- Overrides:
isImplemented
in class RuleSubstructures
- Returns:
- false if the rule is not implemented and true if it is
getSelector
public ambit2.base.interfaces.IProcessor<org.openscience.cdk.interfaces.IAtomContainer,org.openscience.cdk.renderer.selection.IChemObjectSelection> getSelector()
- Specified by:
getSelector
in interface IDecisionRule
- Overrides:
getSelector
in class AbstractRuleHilightHits
Copyright © 2004-2012 Ideaconsult Ltd.. All Rights Reserved.