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java.lang.Objectgov.nih.nci.mageom.domain.impl.MAGEOMObject
gov.nih.nci.mageom.domain.impl.ExtendableImpl
gov.nih.nci.mageom.domain.BioSequence.impl.SequencePositionImpl
gov.nih.nci.mageom.domain.DesignElement.impl.ReporterPositionImpl
public class ReporterPositionImpl
The location in the composite target's sequence to which a source reporter maps. The association to MismatchInformation allows the specification, usually for control purposes, of deviations from the CompositeSequence's BioMaterial.
| Field Summary | |
|---|---|
protected static java.util.ArrayList |
allAssociationMethods
|
protected static java.util.Hashtable |
associationMethods
|
protected MismatchInformation[] |
mismatchInformation
DOCUMENT ME |
protected int |
mismatchInformationCount
The count of MismatchInformation objects. |
protected Reporter |
reporter
DOCUMENT ME |
protected java.lang.Long |
reporterId
The internal ID of the associated reporter object. |
| Fields inherited from class gov.nih.nci.mageom.domain.BioSequence.impl.SequencePositionImpl |
|---|
end, start |
| Fields inherited from class gov.nih.nci.mageom.domain.impl.ExtendableImpl |
|---|
propertySets, propertySetsCount, securedElementId |
| Constructor Summary | |
|---|---|
ReporterPositionImpl()
Default constructor |
|
| Method Summary | |
|---|---|
MismatchInformation[] |
getMismatchInformation()
Returns the value of this ReporterPosition object's mismatchInformation attribute. |
int |
getMismatchInformationCount()
Returns the count of all MismatchInformation
associated with this ReporterPosition object. |
Reporter |
getReporter()
Returns the value of this ReporterPosition object's reporter attribute. |
java.util.Hashtable |
getXMLMethodDescriptors()
Returns a Hashtable containing XMLMethodDescriptors descriptors of
the association methods of this object. |
protected void |
init()
|
ReporterPosition[] |
searchReporterPositions(ReporterPositionSearchCriteria criteria)
Returns an array of ReporterPosition objects that
satisfy the given ReporterPositionSearchCriteria. |
void |
setMismatchInformation(MismatchInformation[] p_mismatchInformation)
Sets the mismatchInformation attribute. |
void |
setReporter(Reporter p_reporter)
Sets the reporter attribute. |
java.lang.String |
toString()
Returns a String representation of this object suitable for console display. |
org.w3c.dom.Element |
toXML(org.w3c.dom.Document doc)
|
org.w3c.dom.Element |
toXMLDoc(org.w3c.dom.Document doc)
|
org.w3c.dom.Element |
toXMLProcessor(org.w3c.dom.Document doc,
java.util.ArrayList fillOutValues)
Returns an XML representation of the object. |
| Methods inherited from class gov.nih.nci.mageom.domain.BioSequence.impl.SequencePositionImpl |
|---|
getEnd, getStart, searchSequencePositions, setEnd, setStart |
| Methods inherited from class gov.nih.nci.mageom.domain.impl.ExtendableImpl |
|---|
getPropertySets, getPropertySetsCount, getSecuredElementId, searchExtendables, setPropertySets, setSecuredElementId |
| Methods inherited from class gov.nih.nci.mageom.domain.impl.MAGEOMObject |
|---|
getId, getIsEditable, setId |
| Methods inherited from class java.lang.Object |
|---|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
| Methods inherited from interface gov.nih.nci.mageom.domain.BioSequence.SequencePosition |
|---|
getEnd, getStart, setEnd, setStart |
| Methods inherited from interface gov.nih.nci.mageom.domain.Extendable |
|---|
getPropertySets, setPropertySets |
| Field Detail |
|---|
protected static java.util.ArrayList allAssociationMethods
protected static java.util.Hashtable associationMethods
protected int mismatchInformationCount
protected MismatchInformation[] mismatchInformation
protected Reporter reporter
protected java.lang.Long reporterId
| Constructor Detail |
|---|
public ReporterPositionImpl()
| Method Detail |
|---|
protected void init()
init in class SequencePositionImpl
public ReporterPosition[] searchReporterPositions(ReporterPositionSearchCriteria criteria)
throws gov.nih.nci.common.search.SearchException
ReporterPosition objects that
satisfy the given ReporterPositionSearchCriteria.
criteria - The ReporterPositionSearchCriteria
which represents a query for ReporterPosition objects.
ReporterPosition objects.
A - gov.nih.nci.common.search.SearchException if there is a problem searching.
gov.nih.nci.common.search.SearchExceptionpublic void setMismatchInformation(MismatchInformation[] p_mismatchInformation)
ReporterPosition object.
setMismatchInformation in interface ReporterPositionp_mismatchInformation - The new value for mismatchInformation.ReporterPosition.getMismatchInformation()public MismatchInformation[] getMismatchInformation()
ReporterPositionReporterPosition object's mismatchInformation attribute.
getMismatchInformation in interface ReporterPositiongov.nih.nci.mageom.bean.DesignElement.MismatchInformation[] The value of mismatchInformation.ReporterPosition.getMismatchInformation()public void setReporter(Reporter p_reporter)
ReporterPosition object.
setReporter in interface ReporterPositionp_reporter - The new value for reporter.ReporterPosition.getReporter()public Reporter getReporter()
ReporterPositionReporterPosition object's reporter attribute.
getReporter in interface ReporterPositiongov.nih.nci.mageom.bean.DesignElement.Reporter The value of reporter.ReporterPosition.getReporter()public int getMismatchInformationCount()
MismatchInformation
associated with this ReporterPosition object.
ReporterPosition.getMismatchInformation()public org.w3c.dom.Element toXML(org.w3c.dom.Document doc)
toXML in class SequencePositionImplpublic org.w3c.dom.Element toXMLDoc(org.w3c.dom.Document doc)
toXMLDoc in class SequencePositionImpl
public org.w3c.dom.Element toXMLProcessor(org.w3c.dom.Document doc,
java.util.ArrayList fillOutValues)
toXMLProcessor in class SequencePositionImpldoc - the working documentfillOutValues - a list of attribute names that should have
full XML for their values.
public java.util.Hashtable getXMLMethodDescriptors()
XMLMethodDescriptors descriptors of
the association methods of this object.
getXMLMethodDescriptors in class SequencePositionImplpublic java.lang.String toString()
toString in class SequencePositionImpl
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