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

Class LightMitabBinarySource

java.lang.Object

psidev.psi.mi.jami.tab.extension.datasource.AbstractMitabSource<BinaryInteraction,Participant,Feature>

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

All Implemented Interfaces:

BinaryInteractionSource<BinaryInteraction>, BinaryInteractionStream<BinaryInteraction>, InteractionSource<BinaryInteraction>, InteractionStream<BinaryInteraction>, MIDataSource, MIFileDataSource, MIFileParserListener, MitabSource<BinaryInteraction>, MitabStreamSource<BinaryInteraction>, MitabParserListener

public class LightMitabBinarySource
extends AbstractMitabSource<BinaryInteraction,Participant,Feature>
implements BinaryInteractionSource<BinaryInteraction>

A mitab datasource that loads very basic binary interactions and ignore experimental details, source, confidence and experimental details. It loads 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
LightMitabBinarySource()	Constructor for LightMitabBinarySource.
LightMitabBinarySource(File file)	Constructor for LightMitabBinarySource.
LightMitabBinarySource(InputStream input)	Constructor for LightMitabBinarySource.
LightMitabBinarySource(Reader reader)	Constructor for LightMitabBinarySource.

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

LightMitabBinarySource

public LightMitabBinarySource()

Constructor for LightMitabBinarySource.

LightMitabBinarySource

public LightMitabBinarySource(File file)
                       throws IOException

Constructor for LightMitabBinarySource.

Parameters:

file - a File object.

Throws:

IOException - if any.

LightMitabBinarySource

public LightMitabBinarySource(InputStream input)

Constructor for LightMitabBinarySource.

Parameters:

input - a InputStream object.

LightMitabBinarySource

public LightMitabBinarySource(Reader reader)

Constructor for LightMitabBinarySource.

Parameters:

reader - a Reader object.