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

Class AbstractXmlBasicInteraction

java.lang.Object

psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction<T>

psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction<Participant>

psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlBasicInteraction

All Implemented Interfaces:

com.sun.xml.bind.Locatable, FileSourceContext, Interaction<Participant>, NamedInteraction<Participant>, ExtendedPsiXmlInteraction<Participant>, PsiXmlInteraction<Participant>

Direct Known Subclasses:

DefaultXmlBasicInteraction, XmlBasicInteraction

public abstract class AbstractXmlBasicInteraction
extends AbstractPsiXmlInteraction<Participant>

Xml implementation of interaction

Since:

08/10/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	AbstractXmlBasicInteraction.JAXBParticipantWrapper

Nested classes/interfaces inherited from class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction

AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper

Nested classes/interfaces inherited from class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction

AbstractXmlInteraction.JAXBAttributeWrapper

Field Summary

Fields

Modifier and Type	Field	Description
protected Locator	locator

Constructor Summary

Constructors

Constructor	Description
AbstractXmlBasicInteraction()	Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String shortName)	Constructor for AbstractXmlBasicInteraction.
AbstractXmlBasicInteraction(String shortName, CvTerm type)	Constructor for AbstractXmlBasicInteraction.

Method Summary

Modifier and Type	Method	Description
List<CvTerm>	getInteractionTypes()	Gets the value of the interactionTypeList property.
FileSourceLocator	getSourceLocator()	Getter for the field sourceLocator.
protected void	initialiseParticipantWrapper()	initialiseParticipantWrapper.
boolean	isIntraMolecular()	isIntraMolecular.
void	setInteractionNamesContainer(NamesContainer value)	Sets the value of the names property.
void	setInteractionXrefContainer(InteractionXrefContainer value)	Sets the value of the interactionXrefContainer property.
void	setIntraMolecular(boolean intra)	Sets the value of the intraMolecular property.
void	setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper jaxbAttributeWrapper)	setJAXBAttributeWrapper.
void	setJAXBId(int value)	setJAXBId.
void	setJAXBImexId(String value)	setJAXBImexId.
void	setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper jaxbInferredWrapper)	setJAXBInferredInteractionWrapper.
void	setJAXBIntraMolecular(Boolean intra)	setJAXBIntraMolecular.
void	setJAXBParticipantWrapper(AbstractXmlBasicInteraction.JAXBParticipantWrapper jaxbParticipantWrapper)	setJAXBParticipantWrapper.

Methods inherited from class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractPsiXmlInteraction

getInferredInteractions, getInteractionType, setInteractionType

Methods inherited from class psidev.psi.mi.jami.xml.model.extension.xml300.AbstractXmlInteraction

addAllParticipants, addParticipant, assignComplexAc, assignImexId, getAliases, getAnnotations, getAttributeWrapper, getChecksums, getComplexAc, getComplexVersion, getCreatedDate, getEntry, getFullName, getId, getIdentifiers, getImexId, getInteractionNamesContainer, getInteractionXrefContainer, getParticipants, getRigid, getShortName, getUpdatedDate, getXrefs, initialiseAnnotationWrapper, initialiseNamesContainer, processAddedParticipant, removeAllParticipants, removeParticipant, setCreatedDate, setEntry, setFullName, setId, setParticipantWrapper, setRigid, setShortName, setSourceLocator, setUpdatedDate, sourceLocation, toString

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.xml.model.extension.ExtendedPsiXmlInteraction

getAliases

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

setSourceLocator, toString

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

addAllParticipants, addParticipant, getAnnotations, getChecksums, getCreatedDate, getIdentifiers, getParticipants, getRigid, getShortName, getUpdatedDate, getXrefs, removeAllParticipants, removeParticipant, setCreatedDate, setRigid, setShortName, setUpdatedDate

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

getFullName, setFullName

Methods inherited from interface psidev.psi.mi.jami.xml.model.extension.PsiXmlInteraction

getEntry, getId, setEntry, setId

Field Detail

locator

protected Locator locator

Constructor Detail

AbstractXmlBasicInteraction

public AbstractXmlBasicInteraction()

Constructor for AbstractXmlBasicInteraction.

AbstractXmlBasicInteraction

public AbstractXmlBasicInteraction(String shortName)

Constructor for AbstractXmlBasicInteraction.

Parameters:

shortName - a String object.

AbstractXmlBasicInteraction

public AbstractXmlBasicInteraction(String shortName,
                                   CvTerm type)

Constructor for AbstractXmlBasicInteraction.

Parameters:

shortName - a String object.

type - a CvTerm object.

Method Detail

getSourceLocator

public FileSourceLocator getSourceLocator()

Getter for the field sourceLocator.

Specified by:

getSourceLocator in interface FileSourceContext

Overrides:

getSourceLocator in class AbstractXmlInteraction<Participant>

Returns:

a FileSourceLocator object.

setInteractionNamesContainer

public void setInteractionNamesContainer(NamesContainer value)

Sets the value of the names property.

Overrides:

setInteractionNamesContainer in class AbstractXmlInteraction<Participant>

Parameters:

value - allowed object is NamesContainer

setInteractionXrefContainer

public void setInteractionXrefContainer(InteractionXrefContainer value)

Sets the value of the interactionXrefContainer property.

Overrides:

setInteractionXrefContainer in class AbstractXmlInteraction<Participant>

Parameters:

value - allowed object is InteractionXrefContainer

isIntraMolecular

public boolean isIntraMolecular()

isIntraMolecular.

Specified by:

isIntraMolecular in interface PsiXmlInteraction<Participant>

Overrides:

isIntraMolecular in class AbstractXmlInteraction<Participant>

Returns:

a boolean.

setIntraMolecular

public void setIntraMolecular(boolean intra)

Sets the value of the intraMolecular property.

Specified by:

setIntraMolecular in interface PsiXmlInteraction<Participant>

Overrides:

setIntraMolecular in class AbstractXmlInteraction<Participant>

Parameters:

intra - allowed object is Boolean

setJAXBIntraMolecular

public void setJAXBIntraMolecular(Boolean intra)

setJAXBIntraMolecular.

Parameters:

intra - a Boolean object.

setJAXBId

public void setJAXBId(int value)

setJAXBId.

Parameters:

value - a int.

setJAXBImexId

public void setJAXBImexId(String value)

setJAXBImexId.

Parameters:

value - a String object.

setJAXBAttributeWrapper

public void setJAXBAttributeWrapper(AbstractXmlInteraction.JAXBAttributeWrapper jaxbAttributeWrapper)

setJAXBAttributeWrapper.

Overrides:

setJAXBAttributeWrapper in class AbstractXmlInteraction<Participant>

Parameters:

jaxbAttributeWrapper - a AbstractXmlInteraction.JAXBAttributeWrapper object.

setJAXBParticipantWrapper

public void setJAXBParticipantWrapper(AbstractXmlBasicInteraction.JAXBParticipantWrapper jaxbParticipantWrapper)

setJAXBParticipantWrapper.

Parameters:

jaxbParticipantWrapper - a AbstractXmlBasicInteraction.JAXBParticipantWrapper object.

setJAXBInferredInteractionWrapper

public void setJAXBInferredInteractionWrapper(AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper jaxbInferredWrapper)

setJAXBInferredInteractionWrapper.

Overrides:

setJAXBInferredInteractionWrapper in class AbstractPsiXmlInteraction<Participant>

Parameters:

jaxbInferredWrapper - a AbstractPsiXmlInteraction.JAXBInferredInteractionWrapper object.

getInteractionTypes

public List<CvTerm> getInteractionTypes()

Gets the value of the interactionTypeList property.

Specified by:

getInteractionTypes in interface ExtendedPsiXmlInteraction<Participant>

Overrides:

getInteractionTypes in class AbstractPsiXmlInteraction<Participant>

Returns:

a List object.

initialiseParticipantWrapper

protected void initialiseParticipantWrapper()

initialiseParticipantWrapper.

Overrides:

initialiseParticipantWrapper in class AbstractXmlInteraction<Participant>