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

Class DefaultMitabFeature

java.lang.Object

psidev.psi.mi.jami.model.impl.AbstractFeature<Entity,Feature>

psidev.psi.mi.jami.model.impl.DefaultFeature

psidev.psi.mi.jami.tab.extension.DefaultMitabFeature

All Implemented Interfaces:

FileSourceContext, Feature<Entity,Feature>, MitabFeature<Entity,Feature>

public class DefaultMitabFeature
extends DefaultFeature
implements MitabFeature<Entity,Feature>, FileSourceContext

A DefaultMitabFeature is a feature in MITAB with some free text. It can be ModelledFeature of FeatureEvidence

Since:

07/06/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Nested Class Summary

Nested classes/interfaces inherited from class psidev.psi.mi.jami.model.impl.AbstractFeature

AbstractFeature.FeatureIdentifierList

Field Summary

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

ALLOSTERIC_PTM, ALLOSTERIC_PTM_MI, BINDING_SITE, BINDING_SITE_MI, BIOLOGICAL_FEATURE, BIOLOGICAL_FEATURE_MI, DECREASING_PTM, DECREASING_PTM_MI, DIRECT_BINDING, DIRECT_BINDING_MI, DISRUPTING_PTM, DISRUPTING_PTM_MI, EXPERIMENTAL_FEATURE, EXPERIMENTAL_FEATURE_MI, INCREASING_PTM, INCREASING_PTM_MI, MUTATION, MUTATION_MI, OBSERVED_PTM, OBSERVED_PTM_MI, PREREQUISITE_PTM, PREREQUISITE_PTM_MI, RESULTING_CLEAVAGE, RESULTING_CLEAVAGE_MI, RESULTING_PTM, RESULTING_PTM_MI, SUFFICIENT_BINDING, SUFFICIENT_BINDING_MI, VARIANT, VARIANT_MI

Constructor Summary

Constructors

Constructor	Description
DefaultMitabFeature()	Constructor for DefaultMitabFeature.
DefaultMitabFeature(String type)	Constructor for DefaultMitabFeature.
DefaultMitabFeature(CvTerm type)	Constructor for DefaultMitabFeature.
DefaultMitabFeature(CvTerm type, String interpro)	Constructor for DefaultMitabFeature.

Method Summary

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

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

clearPropertiesLinkedToIdentifiers, getAliases, getAnnotations, getFullName, getIdentifiers, getInterpro, getLinkedFeatures, getParticipant, getRanges, getRole, getShortName, getType, getXrefs, initialiseAliases, initialiseAliasesWith, initialiseAnnotations, initialiseAnnotationsWith, initialiseIdentifiers, initialiseIdentifiersWith, initialiseLinkedFeatures, initialiseLinkedFeaturesWith, initialiseRanges, initialiseRangesWith, initialiseXrefs, initialiseXrefsWith, processAddedIdentifierEvent, processRemovedIdentifierEvent, setFullName, setInterpro, setParticipant, setParticipantAndAddFeature, setRole, setShortName, setType

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.Feature

getAliases, getAnnotations, getFullName, getIdentifiers, getInterpro, getLinkedFeatures, getParticipant, getRanges, getRole, getShortName, getType, getXrefs, setFullName, setInterpro, setParticipant, setParticipantAndAddFeature, setRole, setShortName, setType

Constructor Detail

DefaultMitabFeature

public DefaultMitabFeature()

Constructor for DefaultMitabFeature.

DefaultMitabFeature

public DefaultMitabFeature(CvTerm type)

Constructor for DefaultMitabFeature.

Parameters:

type - a CvTerm object.

DefaultMitabFeature

public DefaultMitabFeature(String type)

Constructor for DefaultMitabFeature.

Parameters:

type - a String object.

DefaultMitabFeature

public DefaultMitabFeature(CvTerm type,
                           String interpro)

Constructor for DefaultMitabFeature.

Parameters:

type - a CvTerm object.

interpro - a String object.

Method Detail

getText

public String getText()

Getter for the field text.

Specified by:

getText in interface MitabFeature<Entity,Feature>

Returns:

a String object.

setText

public void setText(String text)

setText.

Specified by:

setText in interface MitabFeature<Entity,Feature>

Parameters:

text - a String object.

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 AbstractFeature<Entity,Feature>

Returns:

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