Package psidev.psi.mi.jami.model.impl

Class DefaultOntologyTerm

java.lang.Object

psidev.psi.mi.jami.model.impl.DefaultCvTerm

psidev.psi.mi.jami.model.impl.DefaultOntologyTerm

All Implemented Interfaces:

CvTerm, OntologyTerm

public class DefaultOntologyTerm
extends DefaultCvTerm
implements OntologyTerm

Default implementation for ontology term Notes: The equals and hashcode methods have been overridden to be consistent with UnambiguousCvTermComparator

Since:

15/02/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from interface psidev.psi.mi.jami.model.CvTerm

PSI_MI, PSI_MI_MI, PSI_MOD, PSI_MOD_MI, PSI_PAR

Constructor Summary

Constructors

Constructor	Description
DefaultOntologyTerm(String shortName)	Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String shortName, String miIdentifier)	Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String shortName, String fullName, String miIdentifier)	Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String shortName, String fullName, String miIdentifier, String def)	Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String shortName, String fullName, Xref ontologyId)	Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String shortName, String fullName, Xref ontologyId, String def)	Constructor for DefaultOntologyTerm.
DefaultOntologyTerm(String shortName, Xref ontologyId)	Constructor for DefaultOntologyTerm.

Method Summary

Modifier and Type	Method	Description
Collection<OntologyTerm>	getChildren()	Getter for the field children.
String	getDefinition()	Getter for the field definition.
Collection<OntologyTerm>	getParents()	Getter for the field parents.
protected void	initialiseChildren()	initialiseChildren
protected void	initialiseChildrenWith(Collection<OntologyTerm> children)	initialiseChildrenWith
protected void	initialiseParents()	initialiseParents
protected void	initialiseParentsWith(Collection<OntologyTerm> parents)	initialiseParentsWith
void	setDefinition(String def)	Set the definition

Methods inherited from class psidev.psi.mi.jami.model.impl.DefaultCvTerm

clearPropertiesLinkedToIdentifiers, equals, getAnnotations, getFullName, getIdentifiers, getMIIdentifier, getMODIdentifier, getPARIdentifier, getShortName, getSynonyms, getXrefs, hashCode, initialiseAnnotations, initialiseAnnotationsWith, initialiseIdentifiers, initialiseIdentifiersWith, initialiseSynonyms, initialiseSynonymsWith, initialiseXrefs, initialiseXrefsWith, processAddedIdentifierEvent, processRemovedIdentifierEvent, setFullName, setMIIdentifier, setMODIdentifier, setPARIdentifier, setShortName, toString

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface psidev.psi.mi.jami.model.CvTerm

getAnnotations, getFullName, getIdentifiers, getMIIdentifier, getMODIdentifier, getPARIdentifier, getShortName, getSynonyms, getXrefs, setFullName, setMIIdentifier, setMODIdentifier, setPARIdentifier, setShortName

Constructor Detail

DefaultOntologyTerm

public DefaultOntologyTerm(String shortName)

Constructor for DefaultOntologyTerm.

Parameters:

shortName - a String object.

DefaultOntologyTerm

public DefaultOntologyTerm(String shortName,
                           String miIdentifier)

Constructor for DefaultOntologyTerm.

Parameters:

shortName - a String object.

miIdentifier - a String object.

DefaultOntologyTerm

public DefaultOntologyTerm(String shortName,
                           String fullName,
                           String miIdentifier)

Constructor for DefaultOntologyTerm.

Parameters:

shortName - a String object.

fullName - a String object.

miIdentifier - a String object.

DefaultOntologyTerm

public DefaultOntologyTerm(String shortName,
                           String fullName,
                           String miIdentifier,
                           String def)

Constructor for DefaultOntologyTerm.

Parameters:

shortName - a String object.

fullName - a String object.

miIdentifier - a String object.

def - a String object.

DefaultOntologyTerm

public DefaultOntologyTerm(String shortName,
                           Xref ontologyId)

Constructor for DefaultOntologyTerm.

Parameters:

shortName - a String object.

ontologyId - a Xref object.

DefaultOntologyTerm

public DefaultOntologyTerm(String shortName,
                           String fullName,
                           Xref ontologyId)

Constructor for DefaultOntologyTerm.

Parameters:

shortName - a String object.

fullName - a String object.

ontologyId - a Xref object.

DefaultOntologyTerm

public DefaultOntologyTerm(String shortName,
                           String fullName,
                           Xref ontologyId,
                           String def)

Constructor for DefaultOntologyTerm.

Parameters:

shortName - a String object.

fullName - a String object.

ontologyId - a Xref object.

def - a String object.

Method Detail

initialiseParents

protected void initialiseParents()

initialiseParents

initialiseParentsWith

protected void initialiseParentsWith(Collection<OntologyTerm> parents)

initialiseParentsWith

Parameters:

parents - a Collection object.

initialiseChildren

protected void initialiseChildren()

initialiseChildren

initialiseChildrenWith

protected void initialiseChildrenWith(Collection<OntologyTerm> children)

initialiseChildrenWith

Parameters:

children - a Collection object.

getDefinition

public String getDefinition()

Getter for the field definition.

Specified by:

getDefinition in interface OntologyTerm

Returns:

a String object.

setDefinition

public void setDefinition(String def)

Set the definition

Specified by:

setDefinition in interface OntologyTerm

Parameters:

def - : definition of the term

getParents

public Collection<OntologyTerm> getParents()

Getter for the field parents.

Specified by:

getParents in interface OntologyTerm

Returns:

a Collection object.

getChildren

public Collection<OntologyTerm> getChildren()

Getter for the field children.

Specified by:

getChildren in interface OntologyTerm

Returns:

a Collection object.