gov.usda.gdpc
Class AbstractPhenotypeOntologyGroup

java.lang.Object
  gov.usda.gdpc.AbstractGroup
      gov.usda.gdpc.AbstractDBElementGroup
          gov.usda.gdpc.AbstractPhenotypeOntologyGroup

All Implemented Interfaces:

java.util.Collection, DBElementGroup, Group, java.util.List, PhenotypeOntologyGroup

Direct Known Subclasses:

DefaultPhenotypeOntologyGroup

public abstract class AbstractPhenotypeOntologyGroup

extends AbstractDBElementGroup

implements PhenotypeOntologyGroup

This class provides a skeletal implementation of the PhenotypeOntologyGroup interface to minimize the effort required to implement this interface.

Author:

terryc

Field Summary

Fields inherited from class gov.usda.gdpc.AbstractDBElementGroup

myIndex

Constructor Summary

AbstractPhenotypeOntologyGroup()
AbstractPhenotypeOntologyGroup constructor.

AbstractPhenotypeOntologyGroup(java.util.List list)
AbstractPhenotypeOntologyGroup constructor.

AbstractPhenotypeOntologyGroup(PhenotypeOntology[] ontology)
AbstractPhenotypeOntologyGroup constructor.

AbstractPhenotypeOntologyGroup(PhenotypeOntologyGroup[] groups)
AbstractPhenotypeOntologyGroup constructor.

Method Summary

PhenotypeOntology	getPhenotypeOntology(java.lang.String dataSource, Identifier id) This returns the phenotype ontology instance from this group that matches the specified id and source.
PhenotypeOntologyGroup	getPhenotypeOntologyGroup(PhenotypeOntologyFilter filter) Get the phenotype ontology group matching the given filter from this phenotype ontology group.
java.lang.String	getType() Get type of this group.

Methods inherited from class gov.usda.gdpc.AbstractDBElementGroup

getDBElementGroup, getDBElements, getDefinedProperties, getDistinctProperties, index, toString

Methods inherited from class gov.usda.gdpc.AbstractGroup

add, add, addAll, addAll, clear, contains, containsAll, get, indexOf, isEmpty, iterator, lastIndexOf, listIterator, listIterator, remove, remove, removeAll, retainAll, set, size, subList, toArray, toArray

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface gov.usda.gdpc.DBElementGroup

getDBElements, getDefinedProperties, getDistinctProperties, index

Methods inherited from interface java.util.List

add, add, addAll, addAll, clear, contains, containsAll, equals, get, hashCode, indexOf, isEmpty, iterator, lastIndexOf, listIterator, listIterator, remove, remove, removeAll, retainAll, set, size, subList, toArray, toArray

Constructor Detail

AbstractPhenotypeOntologyGroup

public AbstractPhenotypeOntologyGroup(PhenotypeOntology[] ontology)

AbstractPhenotypeOntologyGroup constructor.

Parameters:

ontology - list of phenotype ontology to be a part of this group.

AbstractPhenotypeOntologyGroup

public AbstractPhenotypeOntologyGroup()

AbstractPhenotypeOntologyGroup constructor. Creates an empty group.

AbstractPhenotypeOntologyGroup

public AbstractPhenotypeOntologyGroup(java.util.List list)

AbstractPhenotypeOntologyGroup constructor.

Parameters:

list - list of objects to be a part of this group. Any null in the list will be discarded.

AbstractPhenotypeOntologyGroup

public AbstractPhenotypeOntologyGroup(PhenotypeOntologyGroup[] groups)

AbstractPhenotypeOntologyGroup constructor.

Parameters:

groups - groups to include in this new group.

Method Detail

getPhenotypeOntologyGroup

public PhenotypeOntologyGroup getPhenotypeOntologyGroup(PhenotypeOntologyFilter filter)

Get the phenotype ontology group matching the given filter from this phenotype ontology group.

Specified by:

getPhenotypeOntologyGroup in interface PhenotypeOntologyGroup

Parameters:

filter - filter

Returns:

phenotype ontology group

getPhenotypeOntology

public PhenotypeOntology getPhenotypeOntology(java.lang.String dataSource,
                                              Identifier id)

This returns the phenotype ontology instance from this group that matches the specified id and source. Null will be returned if its not in this group.

Specified by:

getPhenotypeOntology in interface PhenotypeOntologyGroup

Parameters:

dataSource - data source

id - identifier

Returns:

phenotype ontology or null if not in this group.

getType

public java.lang.String getType()

Get type of this group.

Specified by:

getType in interface DBElementGroup

Returns:

type