Package psidev.psi.mi.jami.json.nary

Class MIJsonModelledWriter

java.lang.Object

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

psidev.psi.mi.jami.json.nary.MIJsonModelledWriter

All Implemented Interfaces:

InteractionWriter<ModelledInteraction>

public class MIJsonModelledWriter
extends AbstractMIJsonWriter<ModelledInteraction>

Abstract JSON writer for interactions (n-ary json format)

Since:

03/07/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method	Description
protected void	initialiseInteractionWriter()	initialiseInteractionWriter.
protected void	writeComplex(Complex complex)	writeComplex.

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

clear, close, end, flush, getFetcher, getIdGenerator, getInteractionWriter, getInteractorWriter, getProcessedFeatures, getProcessedInteractors, getProcessedParticipants, getWriter, initialiseContext, registerAndWriteInteractor, reset, 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

MIJsonModelledWriter

public MIJsonModelledWriter()

Constructor for MIJsonModelledWriter.

MIJsonModelledWriter

public MIJsonModelledWriter(File file,
                            OntologyTermFetcher fetcher)
                     throws IOException

Constructor for MIJsonModelledWriter.

Parameters:

file - a File object.

fetcher - a OntologyTermFetcher object.

Throws:

IOException - if any.

MIJsonModelledWriter

public MIJsonModelledWriter(OutputStream output,
                            OntologyTermFetcher fetcher)

Constructor for MIJsonModelledWriter.

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

MIJsonModelledWriter

public MIJsonModelledWriter(Writer writer,
                            OntologyTermFetcher fetcher)

Constructor for MIJsonModelledWriter.

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

MIJsonModelledWriter

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

Constructor for MIJsonModelledWriter.

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.

MIJsonModelledWriter

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

Constructor for MIJsonModelledWriter.

Parameters:

processedInteractors - a Map object.

processedFeatures - a Map object.

processedParticipants - a Map object.

idGenerator - a IncrementalIdGenerator object.

Method Detail

writeComplex

protected void writeComplex(Complex complex)

writeComplex.

Specified by:

writeComplex in class AbstractMIJsonWriter<ModelledInteraction>

Parameters:

complex - a Complex object.

initialiseInteractionWriter

protected void initialiseInteractionWriter()

initialiseInteractionWriter.

Specified by:

initialiseInteractionWriter in class AbstractMIJsonWriter<ModelledInteraction>