Package psidev.psi.mi.jami.xml.model.extension.factory

Class XmlInteractorFactory

java.lang.Object

psidev.psi.mi.jami.factory.DefaultInteractorFactory

psidev.psi.mi.jami.xml.model.extension.factory.XmlInteractorFactory

All Implemented Interfaces:

InteractorFactory

public class XmlInteractorFactory
extends DefaultInteractorFactory

Interactor factory for XML interactors

Since:

24/07/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
XmlInteractorFactory()	Constructor for XmlInteractorFactory.
XmlInteractorFactory(InteractorFactory delegate)	Constructor for XmlInteractorFactory.

Method Summary

Modifier and Type	Method	Description
BioactiveEntity	createBioactiveEntity(String name, CvTerm type)	Creates a new BioactiveEntity with the name and interactor type
Complex	createComplex(String name, CvTerm type)	Creates a new Complex with the name and interactor type
Gene	createGene(String name)	Creates a new Gene with the name
Interactor	createInteractor(String name, CvTerm type)	Creates a default interactor from the name and interactor type
Interactor	createInteractorFromXmlInteractorInstance(AbstractBaseXmlInteractor source)	createInteractorFromXmlInteractorInstance.
InteractorPool	createInteractorSet(String name, CvTerm type)	Creates an interactor pool from the name and interactor type
NucleicAcid	createNucleicAcid(String name, CvTerm type)	Creates a new NucleicAcid with the name and interactor type
Polymer	createPolymer(String name, CvTerm type)	Creates a new Polymer with the name and interactor type
Protein	createProtein(String name, CvTerm type)	Creates a new Protein with the name and interactor type

Methods inherited from class psidev.psi.mi.jami.factory.DefaultInteractorFactory

createInteractorFromDatabase, createInteractorFromIdentityXrefs, createInteractorFromInteractorType, createInteractorFromRecognizedCategory, extractCvTermFromKey, initialiseDeterministicInteractorMaps, loadProperties

Methods inherited from class java.lang.Object

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

Constructor Detail

XmlInteractorFactory

public XmlInteractorFactory()

Constructor for XmlInteractorFactory.

XmlInteractorFactory

public XmlInteractorFactory(InteractorFactory delegate)

Constructor for XmlInteractorFactory.

Parameters:

delegate - a InteractorFactory object.

Method Detail

createProtein

public Protein createProtein(String name,
                             CvTerm type)

Creates a new Protein with the name and interactor type Creates a new Protein with the name and interactor type

Specified by:

createProtein in interface InteractorFactory

Overrides:

createProtein in class DefaultInteractorFactory

Parameters:

name - : short name

type - : interactor type

Returns:

created protein

createNucleicAcid

public NucleicAcid createNucleicAcid(String name,
                                     CvTerm type)

Creates a new NucleicAcid with the name and interactor type Creates a new NucleicAcid with the name and interactor type

Specified by:

createNucleicAcid in interface InteractorFactory

Overrides:

createNucleicAcid in class DefaultInteractorFactory

Parameters:

name - : short name

type - : interactor type

Returns:

created nucleic acid

createGene

public Gene createGene(String name)

Creates a new Gene with the name Creates a new Gene with the name

Specified by:

createGene in interface InteractorFactory

Overrides:

createGene in class DefaultInteractorFactory

Parameters:

name - : name

Returns:

created gene

createComplex

public Complex createComplex(String name,
                             CvTerm type)

Creates a new Complex with the name and interactor type Creates a new Complex with the name and interactor type

Specified by:

createComplex in interface InteractorFactory

Overrides:

createComplex in class DefaultInteractorFactory

Parameters:

name - : short name

type - : interactor type

Returns:

created complex

createBioactiveEntity

public BioactiveEntity createBioactiveEntity(String name,
                                             CvTerm type)

Creates a new BioactiveEntity with the name and interactor type Creates a new BioactiveEntity with the name and interactor type

Specified by:

createBioactiveEntity in interface InteractorFactory

Overrides:

createBioactiveEntity in class DefaultInteractorFactory

Parameters:

name - : short name

type - : interactor type

Returns:

created bioactive entity

createPolymer

public Polymer createPolymer(String name,
                             CvTerm type)

Creates a new Polymer with the name and interactor type Creates a new Polymer with the name and interactor type

Specified by:

createPolymer in interface InteractorFactory

Overrides:

createPolymer in class DefaultInteractorFactory

Parameters:

name - : short name

type - : interactor type

Returns:

created polymer

createInteractor

public Interactor createInteractor(String name,
                                   CvTerm type)

Creates a default interactor from the name and interactor type Creates a default interactor from the name and interactor type

Specified by:

createInteractor in interface InteractorFactory

Overrides:

createInteractor in class DefaultInteractorFactory

Parameters:

name - : short name

type - : interactor type

Returns:

created default interactor

createInteractorSet

public InteractorPool createInteractorSet(String name,
                                          CvTerm type)

Creates an interactor pool from the name and interactor type Creates an interactor pool from the name and interactor type

Specified by:

createInteractorSet in interface InteractorFactory

Overrides:

createInteractorSet in class DefaultInteractorFactory

Parameters:

name - : short name

type - : interactor type

Returns:

created interactor pool

createInteractorFromXmlInteractorInstance

public Interactor createInteractorFromXmlInteractorInstance(AbstractBaseXmlInteractor source)

createInteractorFromXmlInteractorInstance.

Parameters:

source - a AbstractXmlInteractor object.

Returns:

a Interactor object.