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

Class LightMIJsonWriter

java.lang.Object

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

psidev.psi.mi.jami.json.nary.LightMIJsonWriter

All Implemented Interfaces:

InteractionWriter<Interaction>

public class LightMIJsonWriter
extends AbstractMIJsonWriter<Interaction>

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

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

LightMIJsonWriter

public LightMIJsonWriter()

Constructor for LightMIJsonWriter.

LightMIJsonWriter

public LightMIJsonWriter(File file,
                         OntologyTermFetcher fetcher)
                  throws IOException

Constructor for LightMIJsonWriter.

Parameters:

file - a File object.

fetcher - a OntologyTermFetcher object.

Throws:

IOException - if any.

LightMIJsonWriter

public LightMIJsonWriter(OutputStream output,
                         OntologyTermFetcher fetcher)

Constructor for LightMIJsonWriter.

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

LightMIJsonWriter

public LightMIJsonWriter(Writer writer,
                         OntologyTermFetcher fetcher)

Constructor for LightMIJsonWriter.

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

LightMIJsonWriter

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

Constructor for LightMIJsonWriter.

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.

LightMIJsonWriter

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

Constructor for LightMIJsonWriter.

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<Interaction>

Parameters:

complex - a Complex object.

initialiseInteractionWriter

protected void initialiseInteractionWriter()

initialiseInteractionWriter.

Specified by:

initialiseInteractionWriter in class AbstractMIJsonWriter<Interaction>