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

Class MitabEvidenceSource

java.lang.Object

psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource<InteractionEvidence,ParticipantEvidence,FeatureEvidence>

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

All Implemented Interfaces:

InteractionEvidenceSource<InteractionEvidence>, InteractionEvidenceStream<InteractionEvidence>, InteractionSource<InteractionEvidence>, InteractionStream<InteractionEvidence>, MIDataSource, MIFileDataSource, MIFileParserListener, MitabSource<InteractionEvidence>, MitabStreamSource<InteractionEvidence>, MitabParserListener

public class MitabEvidenceSource
extends AbstractMitabSource<InteractionEvidence,ParticipantEvidence,FeatureEvidence>
implements InteractionEvidenceSource<InteractionEvidence>

A mitab datasource that loads interaction evidences (full 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
MitabEvidenceSource()	Constructor for MitabEvidenceSource.
MitabEvidenceSource(File file)	Constructor for MitabEvidenceSource.
MitabEvidenceSource(InputStream input)	Constructor for MitabEvidenceSource.
MitabEvidenceSource(Reader reader)	Constructor for MitabEvidenceSource.

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

MitabEvidenceSource

public MitabEvidenceSource()

Constructor for MitabEvidenceSource.

MitabEvidenceSource

public MitabEvidenceSource(File file)
                    throws IOException

Constructor for MitabEvidenceSource.

Parameters:

file - a File object.

Throws:

IOException - if any.

MitabEvidenceSource

public MitabEvidenceSource(InputStream input)

Constructor for MitabEvidenceSource.

Parameters:

input - a InputStream object.

MitabEvidenceSource

public MitabEvidenceSource(Reader reader)

Constructor for MitabEvidenceSource.

Parameters:

reader - a Reader object.