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

Class MitabInteractorPool

java.lang.Object

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

psidev.psi.mi.jami.model.impl.DefaultInteractorPool

psidev.psi.mi.jami.tab.extension.MitabInteractorPool

All Implemented Interfaces:

Iterable<Interactor>, Collection<Interactor>, FileSourceContext, Interactor, InteractorPool

public class MitabInteractorPool
extends DefaultInteractorPool
implements FileSourceContext

The mitab extension for InteractorSet

Since:

18/06/13

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

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

CANDIDATE_SET, CANDIDATE_SET_MI, DEFINED_SET, DEFINED_SET_MI, MOLECULE_SET, MOLECULE_SET_MI, OPEN_SET, OPEN_SET_MI

Constructor Summary

Constructors

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

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.DefaultInteractorPool

add, addAll, clear, contains, containsAll, initialiseInteractorCandidatesSet, initialiseInteractorCandidatesSetWith, isEmpty, iterator, remove, removeAll, retainAll, setInteractorType, size, toArray, toArray

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, setOrganism, setShortName

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.util.Collection

equals, hashCode, parallelStream, removeIf, spliterator, stream, toArray

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

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

Methods inherited from interface java.lang.Iterable

forEach

Constructor Detail

MitabInteractorPool

public MitabInteractorPool(String name,
                           CvTerm type)

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

type - a CvTerm object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

type - a CvTerm object.

organism - a Organism object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

organism - a Organism object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

type - a CvTerm object.

uniqueId - a Xref object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

uniqueId - a Xref object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

type - a CvTerm object.

organism - a Organism object.

uniqueId - a Xref object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - a String object.

type - a CvTerm object.

organism - a Organism object.

uniqueId - a Xref object.

MitabInteractorPool

public MitabInteractorPool(String name)

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

MitabInteractorPool

public MitabInteractorPool(String name,
                           String fullName)

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - a String object.

MitabInteractorPool

public MitabInteractorPool(String name,
                           Organism organism)

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

organism - a Organism object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - a String object.

organism - a Organism object.

MitabInteractorPool

public MitabInteractorPool(String name,
                           Xref uniqueId)

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

uniqueId - a Xref object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - a String object.

uniqueId - a Xref object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

organism - a Organism object.

uniqueId - a Xref object.

MitabInteractorPool

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

Constructor for MitabInteractorPool.

Parameters:

name - a String object.

fullName - 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