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

Class MitabModelledSource

java.lang.Object

psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource<ModelledInteraction,ModelledParticipant,ModelledFeature>

psidev.psi.mi.jami.tab.extension.datasource.MitabModelledSource

All Implemented Interfaces:

InteractionSource<ModelledInteraction>, InteractionStream<ModelledInteraction>, MIDataSource, MIFileDataSource, ModelledInteractionSource<ModelledInteraction>, ModelledInteractionStream<ModelledInteraction>, MIFileParserListener, MitabSource<ModelledInteraction>, MitabStreamSource<ModelledInteraction>, MitabParserListener

public class MitabModelledSource
extends AbstractMitabSource<ModelledInteraction,ModelledParticipant,ModelledFeature>
implements ModelledInteractionSource<ModelledInteraction>

A mitab datasource that loads modelled interactions and ignore experimental details It will load the full interaction dataset.

Since:

08/11/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from interface psidev.psi.mi.jami.datasource.MIFileDataSource

FILE_URI_PREFIX, URL_PREFIX_REGEXP

Constructor Summary

Constructors

Constructor	Description
MitabModelledSource()	Constructor for MitabModelledSource.
MitabModelledSource(File file)	Constructor for MitabModelledSource.
MitabModelledSource(InputStream input)	Constructor for MitabModelledSource.
MitabModelledSource(Reader reader)	Constructor for MitabModelledSource.

Method Summary

Methods inherited from class psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource

close, getFileParserListener, getInteractions, getInteractionsIterator, getNumberOfInteractions, initialiseContext, onAliasWithoutDbSource, onAliasWithoutName, onAnnotationWithoutTopic, onEmptyUniqueIdentifiers, onInteractionWithoutParticipants, onInvalidOrganismTaxid, onInvalidPosition, onInvalidRange, onInvalidStoichiometry, onInvalidSyntax, onMissingChecksumMethod, onMissingChecksumValue, onMissingConfidenceType, onMissingConfidenceValue, onMissingCvTermName, onMissingExpansionId, onMissingInteractorIdentifierColumns, onMissingInteractorName, onMissingParameterType, onMissingParameterValue, onParticipantWithoutInteractor, onSeveralCreatedDateFound, onSeveralCvTermsFound, onSeveralFirstAuthorFound, onSeveralHostOrganismFound, onSeveralOrganismFound, onSeveralSourceFound, onSeveralStoichiometryFound, onSeveralUniqueIdentifiers, onSeveralUpdatedDateFound, onSyntaxWarning, onTextFoundInConfidence, onTextFoundInIdentifier, onXrefWithoutDatabase, onXrefWithoutId, reset, setFileParserListener, validateSyntax, validateSyntax

Methods inherited from class java.lang.Object

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

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

getInteractions, getNumberOfInteractions

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

getInteractionsIterator

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

close, initialiseContext, reset

Constructor Detail

MitabModelledSource

public MitabModelledSource()

Constructor for MitabModelledSource.

MitabModelledSource

public MitabModelledSource(File file)
                    throws IOException

Constructor for MitabModelledSource.

Parameters:

file - a File object.

Throws:

IOException - if any.

MitabModelledSource

public MitabModelledSource(InputStream input)

Constructor for MitabModelledSource.

Parameters:

input - a InputStream object.

MitabModelledSource

public MitabModelledSource(Reader reader)

Constructor for MitabModelledSource.

Parameters:

reader - a Reader object.