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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.impl.DescribableImpl
gov.nih.nci.mageom.domain.impl.IdentifiableImpl
gov.nih.nci.mageom.domain.DesignElement.impl.DesignElementImpl
gov.nih.nci.mageom.domain.DesignElement.impl.CompositeSequenceImpl
public class CompositeSequenceImpl
A collection of Reporter or CompositeSequence Design Elements, annotated through the association to BioSequence.
| Field Summary | |
|---|---|
protected static java.util.ArrayList |
allAssociationMethods
|
protected static java.util.Hashtable |
associationMethods
|
protected BioSequence[] |
biologicalCharacteristics
DOCUMENT ME |
protected int |
biologicalCharacteristicsCount
The count of BioSequence objects. |
protected CompositeCompositeMap[] |
compositeCompositeMaps
DOCUMENT ME |
protected int |
compositeCompositeMapsCount
The count of CompositeCompositeMap objects. |
protected ReporterCompositeMap[] |
reporterCompositeMaps
DOCUMENT ME |
protected int |
reporterCompositeMapsCount
The count of ReporterCompositeMap objects. |
| Fields inherited from class gov.nih.nci.mageom.domain.DesignElement.impl.DesignElementImpl |
|---|
controlType, controlTypeId |
| Fields inherited from class gov.nih.nci.mageom.domain.impl.IdentifiableImpl |
|---|
identifier, name |
| Fields inherited from class gov.nih.nci.mageom.domain.impl.DescribableImpl |
|---|
auditTrail, auditTrailCount, descriptions, descriptionsCount, security, securityId |
| Fields inherited from class gov.nih.nci.mageom.domain.impl.ExtendableImpl |
|---|
propertySets, propertySetsCount, securedElementId |
| Constructor Summary | |
|---|---|
CompositeSequenceImpl()
Default constructor |
|
| Method Summary | |
|---|---|
BioSequence[] |
getBiologicalCharacteristics()
Returns the value of this CompositeSequence object's biologicalCharacteristics attribute. |
int |
getBiologicalCharacteristicsCount()
Returns the count of all BioSequence
associated with this CompositeSequence object. |
CompositeCompositeMap[] |
getCompositeCompositeMaps()
Returns the value of this CompositeSequence object's compositeCompositeMaps attribute. |
int |
getCompositeCompositeMapsCount()
Returns the count of all CompositeCompositeMap
associated with this CompositeSequence object. |
ReporterCompositeMap[] |
getReporterCompositeMaps()
Returns the value of this CompositeSequence object's reporterCompositeMaps attribute. |
int |
getReporterCompositeMapsCount()
Returns the count of all ReporterCompositeMap
associated with this CompositeSequence object. |
java.util.Hashtable |
getXMLMethodDescriptors()
Returns a Hashtable containing XMLMethodDescriptors descriptors of
the association methods of this object. |
protected void |
init()
|
CompositeSequence[] |
searchCompositeSequences(CompositeSequenceSearchCriteria criteria)
Returns an array of CompositeSequence objects that
satisfy the given CompositeSequenceSearchCriteria. |
void |
setBiologicalCharacteristics(BioSequence[] p_biologicalCharacteristics)
Sets the biologicalCharacteristics attribute. |
void |
setCompositeCompositeMaps(CompositeCompositeMap[] p_compositeCompositeMaps)
Sets the compositeCompositeMaps attribute. |
void |
setReporterCompositeMaps(ReporterCompositeMap[] p_reporterCompositeMaps)
Sets the reporterCompositeMaps 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.DesignElement.impl.DesignElementImpl |
|---|
getControlType, searchDesignElements, setControlType |
| Methods inherited from class gov.nih.nci.mageom.domain.impl.IdentifiableImpl |
|---|
getIdentifier, getName, searchIdentifiables, setIdentifier, setName |
| Methods inherited from class gov.nih.nci.mageom.domain.impl.DescribableImpl |
|---|
getAuditTrail, getAuditTrailCount, getDescriptions, getDescriptionsCount, getSecurity, searchDescribables, setAuditTrail, setDescriptions, setSecurity |
| 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.DesignElement.DesignElement |
|---|
getControlType, setControlType |
| Methods inherited from interface gov.nih.nci.mageom.domain.Identifiable |
|---|
getIdentifier, getName, setIdentifier, setName |
| Methods inherited from interface gov.nih.nci.mageom.domain.Describable |
|---|
getAuditTrail, getDescriptions, getSecurity, setAuditTrail, setDescriptions, setSecurity |
| 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 biologicalCharacteristicsCount
protected BioSequence[] biologicalCharacteristics
protected int reporterCompositeMapsCount
protected ReporterCompositeMap[] reporterCompositeMaps
protected int compositeCompositeMapsCount
protected CompositeCompositeMap[] compositeCompositeMaps
| Constructor Detail |
|---|
public CompositeSequenceImpl()
| Method Detail |
|---|
protected void init()
init in class DesignElementImpl
public CompositeSequence[] searchCompositeSequences(CompositeSequenceSearchCriteria criteria)
throws gov.nih.nci.common.search.SearchException
CompositeSequence objects that
satisfy the given CompositeSequenceSearchCriteria.
criteria - The CompositeSequenceSearchCriteria
which represents a query for CompositeSequence objects.
CompositeSequence objects.
A - gov.nih.nci.common.search.SearchException if there is a problem searching.
gov.nih.nci.common.search.SearchExceptionpublic void setBiologicalCharacteristics(BioSequence[] p_biologicalCharacteristics)
CompositeSequence object.
setBiologicalCharacteristics in interface CompositeSequencep_biologicalCharacteristics - The new value for biologicalCharacteristics.CompositeSequence.getBiologicalCharacteristics()public BioSequence[] getBiologicalCharacteristics()
CompositeSequenceCompositeSequence object's biologicalCharacteristics attribute.
getBiologicalCharacteristics in interface CompositeSequencegov.nih.nci.mageom.bean.BioSequence.BioSequence[] The value of biologicalCharacteristics.CompositeSequence.getBiologicalCharacteristics()public void setReporterCompositeMaps(ReporterCompositeMap[] p_reporterCompositeMaps)
CompositeSequence object.
setReporterCompositeMaps in interface CompositeSequencep_reporterCompositeMaps - The new value for reporterCompositeMaps.CompositeSequence.getReporterCompositeMaps()public ReporterCompositeMap[] getReporterCompositeMaps()
CompositeSequenceCompositeSequence object's reporterCompositeMaps attribute.
getReporterCompositeMaps in interface CompositeSequencegov.nih.nci.mageom.bean.DesignElement.ReporterCompositeMap[] The value of reporterCompositeMaps.CompositeSequence.getReporterCompositeMaps()public void setCompositeCompositeMaps(CompositeCompositeMap[] p_compositeCompositeMaps)
CompositeSequence object.
setCompositeCompositeMaps in interface CompositeSequencep_compositeCompositeMaps - The new value for compositeCompositeMaps.CompositeSequence.getCompositeCompositeMaps()public CompositeCompositeMap[] getCompositeCompositeMaps()
CompositeSequenceCompositeSequence object's compositeCompositeMaps attribute.
getCompositeCompositeMaps in interface CompositeSequencegov.nih.nci.mageom.bean.DesignElement.CompositeCompositeMap[] The value of compositeCompositeMaps.CompositeSequence.getCompositeCompositeMaps()public int getBiologicalCharacteristicsCount()
BioSequence
associated with this CompositeSequence object.
CompositeSequence.getBiologicalCharacteristics()public int getReporterCompositeMapsCount()
ReporterCompositeMap
associated with this CompositeSequence object.
CompositeSequence.getReporterCompositeMaps()public int getCompositeCompositeMapsCount()
CompositeCompositeMap
associated with this CompositeSequence object.
CompositeSequence.getCompositeCompositeMaps()public org.w3c.dom.Element toXML(org.w3c.dom.Document doc)
toXML in class DesignElementImplpublic org.w3c.dom.Element toXMLDoc(org.w3c.dom.Document doc)
toXMLDoc in class DesignElementImpl
public org.w3c.dom.Element toXMLProcessor(org.w3c.dom.Document doc,
java.util.ArrayList fillOutValues)
toXMLProcessor in class DesignElementImpldoc - 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 DesignElementImplpublic java.lang.String toString()
toString in class DesignElementImpl
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