toxTree.tree.rules
Class RuleStructuresList
java.lang.Object
java.util.Observable
toxTree.tree.AbstractRule
toxTree.tree.rules.RuleStructuresList
- All Implemented Interfaces:
- java.io.Serializable, java.lang.Cloneable, IDecisionRule, XMLSerializable
- Direct Known Subclasses:
- RuleCommonComponentOfFood, RuleNormalBodyConstituent, RuleNormalBodyConstituent
public class RuleStructuresList
- extends AbstractRule
A rule, which returns true if the query is isomorphic to one of the structures
read from a preconfigured file of a type SDF, SMI, CSV
- Author:
- Nina Jeliazkova
Modified 2005-9-6
- 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.AbstractRule |
addPropertyChangeListener, clearFlags, clone, createRule, equals, 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 |
lookupFile
protected transient ILookupFile lookupFile
filename
protected java.lang.String filename
RuleStructuresList
public RuleStructuresList()
RuleStructuresList
public RuleStructuresList(java.lang.String resource)
RuleStructuresList
public RuleStructuresList(java.io.File file)
verifyRule
public boolean verifyRule(org.openscience.cdk.interfaces.IAtomContainer mol)
throws DecisionMethodException
IDecisionRule.verifyRule(IAtomContainer)
- Parameters:
mol
- org.openscience.cdk.interfaces.AtomContainer
- Returns:
- rule result, boolean
- Throws:
DecisionMethodException
isImplemented
public boolean isImplemented()
- Specified by:
isImplemented
in interface IDecisionRule
- Overrides:
isImplemented
in class AbstractRule
- Returns:
- false if the rule is not implemented and true if it is
getFile
public java.io.File getFile()
- Returns:
- Returns the file.
setFile
public void setFile(java.io.File file)
throws org.openscience.cdk.exception.CDKException,
java.io.IOException
- Parameters:
file
- The file to set.
- Throws:
org.openscience.cdk.exception.CDKException
java.io.IOException
getFilename
public java.lang.String getFilename()
setFilename
public void setFilename(java.lang.String filename)
verifyRule
public boolean verifyRule(org.openscience.cdk.interfaces.IAtomContainer mol,
org.openscience.cdk.interfaces.IAtomContainer selected)
throws DecisionMethodException
- Throws:
DecisionMethodException
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 AbstractRule
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