Package psidev.psi.mi.jami.tab.extension

Class MitabMolecule

java.lang.Object

psidev.psi.mi.jami.model.impl.DefaultInteractor

psidev.psi.mi.jami.model.impl.DefaultMolecule

psidev.psi.mi.jami.tab.extension.MitabMolecule

All Implemented Interfaces:

FileSourceContext, Interactor, Molecule

public class MitabMolecule
extends DefaultMolecule
implements FileSourceContext

Mitab extension for Molecule

Since:

11/06/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

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

UNKNOWN_INTERACTOR, UNKNOWN_INTERACTOR_MI

Constructor Summary

Constructors

Constructor	Description
MitabMolecule(String name)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName, CvTerm type)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName, CvTerm type, Organism organism)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName, CvTerm type, Organism organism, Xref uniqueId)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName, CvTerm type, Xref uniqueId)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName, Organism organism)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName, Organism organism, Xref uniqueId)	Constructor for MitabMolecule.
MitabMolecule(String name, String fullName, Xref uniqueId)	Constructor for MitabMolecule.
MitabMolecule(String name, CvTerm type)	Constructor for MitabMolecule.
MitabMolecule(String name, CvTerm type, Organism organism)	Constructor for MitabMolecule.
MitabMolecule(String name, CvTerm type, Organism organism, Xref uniqueId)	Constructor for MitabMolecule.
MitabMolecule(String name, CvTerm type, Xref uniqueId)	Constructor for MitabMolecule.
MitabMolecule(String name, Organism organism)	Constructor for MitabMolecule.
MitabMolecule(String name, Organism organism, Xref uniqueId)	Constructor for MitabMolecule.
MitabMolecule(String name, Xref uniqueId)	Constructor for MitabMolecule.

Method Summary

Modifier and Type	Method	Description
FileSourceLocator	getSourceLocator()	Getter for the field sourceLocator.
void	setSourceLocator(FileSourceLocator sourceLocator)	Sets the source locator
String	toString()

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

getAliases, getAnnotations, getChecksums, getFullName, getIdentifiers, getInteractorType, getOrganism, getPreferredIdentifier, getPreferredName, getShortName, getXrefs, initialiseAliases, initialiseAliasesWith, initialiseAnnotations, initialiseAnnotationsWith, initialiseChecksums, initialiseChecksumsWith, initialiseIdentifiers, initialiseIdentifiersWith, initialiseXrefs, initialiseXrefsWith, setFullName, setInteractorType, setOrganism, setShortName

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.model.Interactor

getAliases, getAnnotations, getChecksums, getFullName, getIdentifiers, getInteractorType, getOrganism, getPreferredIdentifier, getPreferredName, getShortName, getXrefs, setFullName, setInteractorType, setOrganism, setShortName

Constructor Detail

MitabMolecule

public MitabMolecule(String name,
                     CvTerm type)

Constructor for MitabMolecule.

Parameters:

name - a String object.

type - a CvTerm object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName,
                     CvTerm type)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

MitabMolecule

public MitabMolecule(String name,
                     CvTerm type,
                     Organism organism)

Constructor for MitabMolecule.

Parameters:

name - a String object.

type - a CvTerm object.

organism - a Organism object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName,
                     CvTerm type,
                     Organism organism)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

organism - a Organism object.

MitabMolecule

public MitabMolecule(String name,
                     CvTerm type,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

type - a CvTerm object.

uniqueId - a Xref object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName,
                     CvTerm type,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

uniqueId - a Xref object.

MitabMolecule

public MitabMolecule(String name,
                     CvTerm type,
                     Organism organism,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

type - a CvTerm object.

organism - a Organism object.

uniqueId - a Xref object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName,
                     CvTerm type,
                     Organism organism,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

organism - a Organism object.

uniqueId - a Xref object.

MitabMolecule

public MitabMolecule(String name)

Constructor for MitabMolecule.

Parameters:

name - a String object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

MitabMolecule

public MitabMolecule(String name,
                     Organism organism)

Constructor for MitabMolecule.

Parameters:

name - a String object.

organism - a Organism object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName,
                     Organism organism)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

organism - a Organism object.

MitabMolecule

public MitabMolecule(String name,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

uniqueId - a Xref object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

uniqueId - a Xref object.

MitabMolecule

public MitabMolecule(String name,
                     String fullName,
                     Organism organism,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

fullName - a String object.

organism - a Organism object.

uniqueId - a Xref object.

MitabMolecule

public MitabMolecule(String name,
                     Organism organism,
                     Xref uniqueId)

Constructor for MitabMolecule.

Parameters:

name - a String object.

organism - a Organism object.

uniqueId - a Xref object.

Method Detail

getSourceLocator

public FileSourceLocator getSourceLocator()

Getter for the field sourceLocator.

Specified by:

getSourceLocator in interface FileSourceContext

Returns:

a FileSourceLocator object.

setSourceLocator

public void setSourceLocator(FileSourceLocator sourceLocator)

Sets the source locator

Specified by:

setSourceLocator in interface FileSourceContext

Parameters:

sourceLocator - : the file locator

toString

public String toString()

Specified by:

toString in interface FileSourceContext

Overrides:

toString in class DefaultInteractor

Returns:

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