gov.nih.nci.mageom.domain.BioAssay.impl
Class DerivedBioAssayImpl

java.lang.Object
  extended by gov.nih.nci.mageom.domain.impl.MAGEOMObject
      extended by gov.nih.nci.mageom.domain.impl.ExtendableImpl
          extended by gov.nih.nci.mageom.domain.impl.DescribableImpl
              extended by gov.nih.nci.mageom.domain.impl.IdentifiableImpl
                  extended by gov.nih.nci.mageom.domain.BioAssay.impl.BioAssayImpl
                      extended by gov.nih.nci.mageom.domain.BioAssay.impl.DerivedBioAssayImpl
All Implemented Interfaces:
BioAssay, DerivedBioAssay, Describable, Extendable, Identifiable, java.io.Serializable

public class DerivedBioAssayImpl
extends BioAssayImpl
implements DerivedBioAssay

A BioAssay that is created by the Transformation BioEvent from one or more MeasuredBioAssays or DerivedBioAssays.

Version:
%I%, %G%
See Also:
Serialized Form

Field Summary
protected static java.util.ArrayList allAssociationMethods
           
protected static java.util.Hashtable associationMethods
           
protected  DerivedBioAssayData[] derivedBioAssayData
          DOCUMENT ME
protected  int derivedBioAssayDataCount
          The count of DerivedBioAssayData objects.
protected  BioAssayMap[] derivedBioAssayMap
          DOCUMENT ME
protected  int derivedBioAssayMapCount
          The count of BioAssayMap objects.
protected  OntologyEntry type
          DOCUMENT ME
protected  java.lang.Long typeId
          The internal ID of the associated type object.
 
Fields inherited from class gov.nih.nci.mageom.domain.BioAssay.impl.BioAssayImpl
bioAssayFactorValues, bioAssayFactorValuesCount, channels, channelsCount
 
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
DerivedBioAssayImpl()
          Default constructor
 
Method Summary
 DerivedBioAssayData[] getDerivedBioAssayData()
          Returns the value of this DerivedBioAssay object's derivedBioAssayData attribute.
 int getDerivedBioAssayDataCount()
          Returns the count of all DerivedBioAssayData associated with this DerivedBioAssay object.
 BioAssayMap[] getDerivedBioAssayMap()
          Returns the value of this DerivedBioAssay object's derivedBioAssayMap attribute.
 int getDerivedBioAssayMapCount()
          Returns the count of all BioAssayMap associated with this DerivedBioAssay object.
 OntologyEntry getType()
          Returns the value of this DerivedBioAssay object's type attribute.
 java.util.Hashtable getXMLMethodDescriptors()
          Returns a Hashtable containing XMLMethodDescriptors descriptors of the association methods of this object.
protected  void init()
           
 DerivedBioAssay[] searchDerivedBioAssays(DerivedBioAssaySearchCriteria criteria)
          Returns an array of DerivedBioAssay objects that satisfy the given DerivedBioAssaySearchCriteria.
 void setDerivedBioAssayData(DerivedBioAssayData[] p_derivedBioAssayData)
          Sets the derivedBioAssayData attribute.
 void setDerivedBioAssayMap(BioAssayMap[] p_derivedBioAssayMap)
          Sets the derivedBioAssayMap attribute.
 void setType(OntologyEntry p_type)
          Sets the type 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.BioAssay.impl.BioAssayImpl
getBioAssayFactorValues, getBioAssayFactorValuesCount, getChannels, getChannelsCount, searchBioAssays, setBioAssayFactorValues, setChannels
 
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.BioAssay.BioAssay
getBioAssayFactorValues, getChannels, setBioAssayFactorValues, setChannels
 
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

allAssociationMethods

protected static java.util.ArrayList allAssociationMethods

associationMethods

protected static java.util.Hashtable associationMethods

derivedBioAssayMapCount

protected int derivedBioAssayMapCount
The count of BioAssayMap objects.


derivedBioAssayMap

protected BioAssayMap[] derivedBioAssayMap
DOCUMENT ME


derivedBioAssayDataCount

protected int derivedBioAssayDataCount
The count of DerivedBioAssayData objects.


derivedBioAssayData

protected DerivedBioAssayData[] derivedBioAssayData
DOCUMENT ME


type

protected OntologyEntry type
DOCUMENT ME


typeId

protected java.lang.Long typeId
The internal ID of the associated type object.

Constructor Detail

DerivedBioAssayImpl

public DerivedBioAssayImpl()
Default constructor

Method Detail

init

protected void init()
Overrides:
init in class BioAssayImpl

searchDerivedBioAssays

public DerivedBioAssay[] searchDerivedBioAssays(DerivedBioAssaySearchCriteria criteria)
                                         throws gov.nih.nci.common.search.SearchException
Returns an array of DerivedBioAssay objects that satisfy the given DerivedBioAssaySearchCriteria.

Parameters:
criteria - The DerivedBioAssaySearchCriteria which represents a query for DerivedBioAssay objects.
Returns:
An array of DerivedBioAssay objects.
Throws:
A - gov.nih.nci.common.search.SearchException if there is a problem searching.
gov.nih.nci.common.search.SearchException

setDerivedBioAssayMap

public void setDerivedBioAssayMap(BioAssayMap[] p_derivedBioAssayMap)
Sets the derivedBioAssayMap attribute. This API is currently read-only. So, calling this method does not affect the persistent state of a DerivedBioAssay object.

Specified by:
setDerivedBioAssayMap in interface DerivedBioAssay
Parameters:
p_derivedBioAssayMap - The new value for derivedBioAssayMap.
See Also:
DerivedBioAssay.getDerivedBioAssayMap()

getDerivedBioAssayMap

public BioAssayMap[] getDerivedBioAssayMap()
Description copied from interface: DerivedBioAssay
Returns the value of this DerivedBioAssay object's derivedBioAssayMap attribute.

Specified by:
getDerivedBioAssayMap in interface DerivedBioAssay
Returns:
gov.nih.nci.mageom.bean.BioAssayData.BioAssayMap[] The value of derivedBioAssayMap.
See Also:
DerivedBioAssay.getDerivedBioAssayMap()

setDerivedBioAssayData

public void setDerivedBioAssayData(DerivedBioAssayData[] p_derivedBioAssayData)
Sets the derivedBioAssayData attribute. This API is currently read-only. So, calling this method does not affect the persistent state of a DerivedBioAssay object.

Specified by:
setDerivedBioAssayData in interface DerivedBioAssay
Parameters:
p_derivedBioAssayData - The new value for derivedBioAssayData.
See Also:
DerivedBioAssay.getDerivedBioAssayData()

getDerivedBioAssayData

public DerivedBioAssayData[] getDerivedBioAssayData()
Description copied from interface: DerivedBioAssay
Returns the value of this DerivedBioAssay object's derivedBioAssayData attribute.

Specified by:
getDerivedBioAssayData in interface DerivedBioAssay
Returns:
gov.nih.nci.mageom.bean.BioAssayData.DerivedBioAssayData[] The value of derivedBioAssayData.
See Also:
DerivedBioAssay.getDerivedBioAssayData()

setType

public void setType(OntologyEntry p_type)
Sets the type attribute. This API is currently read-only. So, calling this method does not affect the persistent state of a DerivedBioAssay object.

Specified by:
setType in interface DerivedBioAssay
Parameters:
p_type - The new value for type.
See Also:
DerivedBioAssay.getType()

getType

public OntologyEntry getType()
Description copied from interface: DerivedBioAssay
Returns the value of this DerivedBioAssay object's type attribute.

Specified by:
getType in interface DerivedBioAssay
Returns:
gov.nih.nci.mageom.bean.Description.OntologyEntry The value of type.
See Also:
DerivedBioAssay.getType()

getDerivedBioAssayMapCount

public int getDerivedBioAssayMapCount()
Returns the count of all BioAssayMap associated with this DerivedBioAssay object.

Returns:
the count
See Also:
DerivedBioAssay.getDerivedBioAssayMap()

getDerivedBioAssayDataCount

public int getDerivedBioAssayDataCount()
Returns the count of all DerivedBioAssayData associated with this DerivedBioAssay object.

Returns:
the count
See Also:
DerivedBioAssay.getDerivedBioAssayData()

toXML

public org.w3c.dom.Element toXML(org.w3c.dom.Document doc)
Overrides:
toXML in class BioAssayImpl

toXMLDoc

public org.w3c.dom.Element toXMLDoc(org.w3c.dom.Document doc)
Overrides:
toXMLDoc in class BioAssayImpl

toXMLProcessor

public org.w3c.dom.Element toXMLProcessor(org.w3c.dom.Document doc,
                                          java.util.ArrayList fillOutValues)
Returns an XML representation of the object. The document is not modified.

Overrides:
toXMLProcessor in class BioAssayImpl
Parameters:
doc - the working document
fillOutValues - a list of attribute names that should have full XML for their values.
Returns:
org.w3c.dom.Element an XML representation

getXMLMethodDescriptors

public java.util.Hashtable getXMLMethodDescriptors()
Returns a Hashtable containing XMLMethodDescriptors descriptors of the association methods of this object.

Overrides:
getXMLMethodDescriptors in class BioAssayImpl
Returns:
Hashtable The Hashtable of descriptors.

toString

public java.lang.String toString()
Returns a String representation of this object suitable for console display.

Overrides:
toString in class BioAssayImpl
Returns:
the String representation.