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

Class MitabBinaryEvidenceSource

java.lang.Object

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

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

All Implemented Interfaces:

BinaryInteractionEvidenceSource, BinaryInteractionEvidenceStream, InteractionEvidenceSource<BinaryInteractionEvidence>, InteractionEvidenceStream<BinaryInteractionEvidence>, InteractionSource<BinaryInteractionEvidence>, InteractionStream<BinaryInteractionEvidence>, MIDataSource, MIFileDataSource, MIFileParserListener, MitabSource<BinaryInteractionEvidence>, MitabStreamSource<BinaryInteractionEvidence>, MitabParserListener

public class MitabBinaryEvidenceSource
extends AbstractMitabSource<BinaryInteractionEvidence,ParticipantEvidence,FeatureEvidence>
implements BinaryInteractionEvidenceSource

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
MitabBinaryEvidenceSource()	Constructor for MitabBinaryEvidenceSource.
MitabBinaryEvidenceSource(File file)	Constructor for MitabBinaryEvidenceSource.
MitabBinaryEvidenceSource(InputStream input)	Constructor for MitabBinaryEvidenceSource.
MitabBinaryEvidenceSource(Reader reader)	Constructor for MitabBinaryEvidenceSource.

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

MitabBinaryEvidenceSource

public MitabBinaryEvidenceSource()

Constructor for MitabBinaryEvidenceSource.

MitabBinaryEvidenceSource

public MitabBinaryEvidenceSource(File file)
                          throws IOException

Constructor for MitabBinaryEvidenceSource.

Parameters:

file - a File object.

Throws:

IOException - if any.

MitabBinaryEvidenceSource

public MitabBinaryEvidenceSource(InputStream input)

Constructor for MitabBinaryEvidenceSource.

Parameters:

input - a InputStream object.

MitabBinaryEvidenceSource

public MitabBinaryEvidenceSource(Reader reader)

Constructor for MitabBinaryEvidenceSource.

Parameters:

reader - a Reader object.