Package psidev.psi.mi.jami.xml.model.reference.xml300

Class AbstractInteractorRef

java.lang.Object

psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference

psidev.psi.mi.jami.xml.model.reference.xml300.AbstractInteractorRef

All Implemented Interfaces:

FileSourceContext, Interactor, ExtendedPsiXmlInteractor, XmlIdReference

Direct Known Subclasses:

AbstractComplexRef

public abstract class AbstractInteractorRef
extends AbstractXmlIdReference
implements ExtendedPsiXmlInteractor

An implementation of XmlIdReference for interactors

Since:

11/10/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from class psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference

ref

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

UNKNOWN_INTERACTOR, UNKNOWN_INTERACTOR_MI

Constructor Summary

Constructors

Constructor	Description
AbstractInteractorRef(int ref)	Constructor for AbstractInteractorRef.

Method Summary

Modifier and Type	Method	Description
Collection<Alias>	getAliases()	getAliases.
Collection<Annotation>	getAnnotations()	getAnnotations.
Collection<Checksum>	getChecksums()	getChecksums.
protected ExtendedPsiXmlInteractor	getDelegate()	Getter for the field delegate.
String	getFullName()	getFullName.
int	getId()	getId.
Collection<Xref>	getIdentifiers()	getIdentifiers.
CvTerm	getInteractorType()	getInteractorType.
Organism	getOrganism()	getOrganism.
Xref	getPreferredIdentifier()	getPreferredIdentifier.
String	getPreferredName()	getPreferredName.
String	getShortName()	getShortName.
Collection<Xref>	getXrefs()	getXrefs.
protected void	initialiseInteractorDelegate()	initialiseInteractorDelegate.
protected void	setDelegate(ExtendedPsiXmlInteractor delegate)	Setter for the field delegate.
void	setFullName(String name)	Sets the full name of the interactor
void	setId(int id)	setId.
void	setInteractorType(CvTerm type)	Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)
void	setOrganism(Organism organism)	Sets the source organism of this interactor
void	setShortName(String name)	Sets the short name of an interactor
String	toString()	toString

Methods inherited from class psidev.psi.mi.jami.xml.model.reference.AbstractXmlIdReference

getRef, registerForResolution

Methods inherited from class java.lang.Object

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

Methods inherited from interface psidev.psi.mi.jami.datasource.FileSourceContext

getSourceLocator, setSourceLocator

Methods inherited from interface psidev.psi.mi.jami.xml.model.reference.XmlIdReference

resolve

Constructor Detail

AbstractInteractorRef

public AbstractInteractorRef(int ref)

Constructor for AbstractInteractorRef.

Parameters:

ref - a int.

Method Detail

getShortName

public String getShortName()

getShortName.

Specified by:

getShortName in interface Interactor

Returns:

a String object.

setShortName

public void setShortName(String name)

Sets the short name of an interactor

Specified by:

setShortName in interface Interactor

Parameters:

name - : short name

getFullName

public String getFullName()

getFullName.

Specified by:

getFullName in interface Interactor

Returns:

a String object.

setFullName

public void setFullName(String name)

Sets the full name of the interactor

Specified by:

setFullName in interface Interactor

Parameters:

name - : full name

getIdentifiers

public Collection<Xref> getIdentifiers()

getIdentifiers.

Specified by:

getIdentifiers in interface Interactor

Returns:

a Collection object.

getPreferredIdentifier

public Xref getPreferredIdentifier()

getPreferredIdentifier.

Specified by:

getPreferredIdentifier in interface Interactor

Returns:

a Xref object.

getPreferredName

public String getPreferredName()

getPreferredName.

Specified by:

getPreferredName in interface Interactor

Returns:

a String.

getChecksums

public Collection<Checksum> getChecksums()

getChecksums.

Specified by:

getChecksums in interface Interactor

Returns:

a Collection object.

getXrefs

public Collection<Xref> getXrefs()

getXrefs.

Specified by:

getXrefs in interface Interactor

Returns:

a Collection object.

getAnnotations

public Collection<Annotation> getAnnotations()

getAnnotations.

Specified by:

getAnnotations in interface Interactor

Returns:

a Collection object.

getAliases

public Collection<Alias> getAliases()

getAliases.

Specified by:

getAliases in interface Interactor

Returns:

a Collection object.

getOrganism

public Organism getOrganism()

getOrganism.

Specified by:

getOrganism in interface Interactor

Returns:

a Organism object.

setOrganism

public void setOrganism(Organism organism)

Sets the source organism of this interactor

Specified by:

setOrganism in interface Interactor

Parameters:

organism - : source organism

getInteractorType

public CvTerm getInteractorType()

getInteractorType.

Specified by:

getInteractorType in interface Interactor

Returns:

a CvTerm object.

setInteractorType

public void setInteractorType(CvTerm type)

Sets the molecule type for this interactor If the given type is null, this method automatically sets the interactor type to 'unknown participant' (MI:0329)

Specified by:

setInteractorType in interface Interactor

Parameters:

type - : molecule type

setId

public void setId(int id)

setId.

Specified by:

setId in interface ExtendedPsiXmlInteractor

Parameters:

id - a int.

getId

public int getId()

getId.

Specified by:

getId in interface ExtendedPsiXmlInteractor

Returns:

a int.

toString

public String toString()

toString

Specified by:

toString in interface FileSourceContext

Overrides:

toString in class AbstractXmlIdReference

Returns:

the file source context as a String. If the source locator is not null, it should give the source locator properties

initialiseInteractorDelegate

protected void initialiseInteractorDelegate()

initialiseInteractorDelegate.

getDelegate

protected ExtendedPsiXmlInteractor getDelegate()

Getter for the field delegate.

Returns:

a ExtendedPsiXmlInteractor object.

setDelegate

protected void setDelegate(ExtendedPsiXmlInteractor delegate)

Setter for the field delegate.

Parameters:

delegate - a ExtendedPsiXmlInteractor object.