toxtree.plugins.search.rules
Class Find

java.lang.Object
  extended by java.util.Observable
      extended by toxTree.tree.AbstractRule
          extended by toxtree.plugins.search.rules.Find
All Implemented Interfaces:
java.io.Serializable, java.lang.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
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
Find()
           
 
Method Summary
protected  ambit2.base.interfaces.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 ambit2.base.interfaces.IProcessor configure(ambit2.base.data.Template profile)


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