Package psidev.psi.mi.jami.json.binary

Class MIJsonBinaryEvidenceWriter

java.lang.Object

psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter<I>

psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter<BinaryInteractionEvidence>

psidev.psi.mi.jami.json.binary.MIJsonBinaryEvidenceWriter

All Implemented Interfaces:

InteractionWriter<BinaryInteractionEvidence>

public class MIJsonBinaryEvidenceWriter
extends AbstractMIJsonBinaryWriter<BinaryInteractionEvidence>

JSON writer for InteractionEvidences

Since:

03/07/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
MIJsonBinaryEvidenceWriter()	Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(File file, OntologyTermFetcher fetcher)	Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(OutputStream output, OntologyTermFetcher fetcher)	Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(Writer writer, OntologyTermFetcher fetcher)	Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(Writer writer, OntologyTermFetcher fetcher, Map<String,String> processedInteractors, Map<Feature,Integer> processedFeatures, Map<Entity,Integer> processedParticipants, IncrementalIdGenerator idGenerator)	Constructor for MIJsonBinaryEvidenceWriter.
MIJsonBinaryEvidenceWriter(Map<String,String> processedInteractors, Map<Feature,Integer> processedFeatures, Map<Entity,Integer> processedParticipants, IncrementalIdGenerator idGenerator)	Constructor for MIJsonBinaryEvidenceWriter.

Method Summary

Modifier and Type	Method	Description
protected void	initExpansionMethodInteractionWriter(Integer expansionId)	initExpansionMethodInteractionWriter.
protected void	initialiseInteractionWriter()	initialiseInteractionWriter.

Methods inherited from class psidev.psi.mi.jami.json.binary.AbstractMIJsonBinaryWriter

close, flush, getExpansionId, initialiseContext, reset, setExpansionId, writeComplex

Methods inherited from class psidev.psi.mi.jami.json.nary.AbstractMIJsonWriter

clear, end, getFetcher, getIdGenerator, getInteractionWriter, getInteractorWriter, getProcessedFeatures, getProcessedInteractors, getProcessedParticipants, getWriter, registerAndWriteInteractor, setFetcher, setInteractionWriter, start, write, write, write, writeEnd, writeStart

Methods inherited from class java.lang.Object

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

Constructor Detail

MIJsonBinaryEvidenceWriter

public MIJsonBinaryEvidenceWriter()

Constructor for MIJsonBinaryEvidenceWriter.

MIJsonBinaryEvidenceWriter

public MIJsonBinaryEvidenceWriter(File file,
                                  OntologyTermFetcher fetcher)
                           throws IOException

Constructor for MIJsonBinaryEvidenceWriter.

Parameters:

file - a File object.

fetcher - a OntologyTermFetcher object.

Throws:

IOException - if any.

MIJsonBinaryEvidenceWriter

public MIJsonBinaryEvidenceWriter(OutputStream output,
                                  OntologyTermFetcher fetcher)

Constructor for MIJsonBinaryEvidenceWriter.

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

MIJsonBinaryEvidenceWriter

public MIJsonBinaryEvidenceWriter(Writer writer,
                                  OntologyTermFetcher fetcher)

Constructor for MIJsonBinaryEvidenceWriter.

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

MIJsonBinaryEvidenceWriter

public MIJsonBinaryEvidenceWriter(Writer writer,
                                  OntologyTermFetcher fetcher,
                                  Map<String,String> processedInteractors,
                                  Map<Feature,Integer> processedFeatures,
                                  Map<Entity,Integer> processedParticipants,
                                  IncrementalIdGenerator idGenerator)

Constructor for MIJsonBinaryEvidenceWriter.

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

processedInteractors - a Map object.

processedFeatures - a Map object.

processedParticipants - a Map object.

idGenerator - a IncrementalIdGenerator object.

MIJsonBinaryEvidenceWriter

public MIJsonBinaryEvidenceWriter(Map<String,String> processedInteractors,
                                  Map<Feature,Integer> processedFeatures,
                                  Map<Entity,Integer> processedParticipants,
                                  IncrementalIdGenerator idGenerator)

Constructor for MIJsonBinaryEvidenceWriter.

Parameters:

processedInteractors - a Map object.

processedFeatures - a Map object.

processedParticipants - a Map object.

idGenerator - a IncrementalIdGenerator object.

Method Detail

initialiseInteractionWriter

protected void initialiseInteractionWriter()

initialiseInteractionWriter.

Specified by:

initialiseInteractionWriter in class AbstractMIJsonWriter<BinaryInteractionEvidence>

initExpansionMethodInteractionWriter

protected void initExpansionMethodInteractionWriter(Integer expansionId)

initExpansionMethodInteractionWriter.

Specified by:

initExpansionMethodInteractionWriter in class AbstractMIJsonBinaryWriter<BinaryInteractionEvidence>

Parameters:

expansionId - a Integer object.