toxtree.plugins.search.rules

Class Find

java.lang.Object

java.util.Observable

toxTree.tree.AbstractRule

toxtree.plugins.search.rules.Find

All Implemented Interfaces:

Serializable, Cloneable, IDecisionRule, XMLSerializable

public class Find
extends AbstractRule

Compound lookup

Author:

Nina Jeliazkova jelaizkova.nina@gmail.com ModifiedJuly 11, 2011

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
protected ambit2.base.processors.search.AbstractFinder.MODE	mode
protected ambit2.base.data.Template	profile
protected ambit2.base.processors.search.AbstractFinder.SITE	searchSite

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
Find()

Method Summary

Modifier and Type	Method and Description
protected net.idea.modbcum.i.processors.IProcessor	configure(ambit2.base.data.Template profile)
boolean	verifyRule(org.openscience.cdk.interfaces.IAtomContainer mol) This is the core of a IDecisionRule behaviour.

Methods inherited from class toxTree.tree.AbstractRule

addPropertyChangeListener, clearFlags, clone, createRule, equals, fromXML, getEditor, getExampleMolecule, getExamples, getExplanation, getID, getNum, getSelector, getTitle, hideResiduesID, isEditable, isImplemented, 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

Field Detail

searchSite

protected ambit2.base.processors.search.AbstractFinder.SITE searchSite

mode

protected ambit2.base.processors.search.AbstractFinder.MODE mode

profile

protected ambit2.base.data.Template profile

Constructor Detail

Find

public Find()

Method Detail

verifyRule

public boolean verifyRule(org.openscience.cdk.interfaces.IAtomContainer mol)
                   throws DecisionMethodException

Description copied from interface: IDecisionRule

This is the core of a IDecisionRule behaviour. The method returns true if the answer of the rule is YES for the analyzed molecule org.openscience.cdk.interfaces.AtomContainer and FALSE if the answer of the rule is NO for the analyzed molecule org.openscience.cdk.interfaces.AtomContainer??

Parameters:

mol - org.openscience.cdk.interfaces.AtomContainer

Returns:

rule result, boolean

Throws:

DecisionMethodException

configure

protected net.idea.modbcum.i.processors.IProcessor configure(ambit2.base.data.Template profile)