Package psidev.psi.mi.jami.json.elements

Class SimpleJsonParticipantWriter<P extends Participant>

java.lang.Object

psidev.psi.mi.jami.json.elements.SimpleJsonParticipantWriter<P>

All Implemented Interfaces:

JsonElementWriter<P>

Direct Known Subclasses:

SimpleJsonModelledParticipantWriter, SimpleJsonParticipantEvidenceWriter

public class SimpleJsonParticipantWriter<P extends Participant>
extends Object
implements JsonElementWriter<P>

Json writer for participants

Since:

18/07/14

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
SimpleJsonParticipantWriter(Writer writer, Map<Feature,Integer> processedFeatures, Map<String,String> processedInteractors, Map<Entity,Integer> processedParticipants)	Constructor for SimpleJsonParticipantWriter.
SimpleJsonParticipantWriter(Writer writer, Map<Feature,Integer> processedFeatures, Map<String,String> processedInteractors, Map<Entity,Integer> processedParticipants, IncrementalIdGenerator idGenerator, OntologyTermFetcher fetcher)	Constructor for SimpleJsonParticipantWriter.

Method Summary

Modifier and Type	Method	Description
JsonElementWriter<CvTerm>	getCvWriter()	Getter for the field cvWriter.
JsonElementWriter	getFeatureWriter()	Getter for the field featureWriter.
protected OntologyTermFetcher	getFetcher()	Getter for the field fetcher.
IncrementalIdGenerator	getIdGenerator()	Getter for the field idGenerator.
protected Map<Feature,Integer>	getProcessedFeatures()	Getter for the field processedFeatures.
protected Map<String,String>	getProcessedInteractors()	Getter for the field processedInteractors.
protected Map<Entity,Integer>	getProcessedParticipants()	Getter for the field processedParticipants.
JsonElementWriter<Stoichiometry>	getStoichiometryWriter()	Getter for the field stoichiometryWriter.
protected Writer	getWriter()	Getter for the field writer.
protected void	initialiseDefaultFeatureWriter()	initialiseDefaultFeatureWriter.
void	setCvWriter(JsonElementWriter<CvTerm> cvWriter)	Setter for the field cvWriter.
void	setFeatureWriter(JsonElementWriter featureWriter)	Setter for the field featureWriter.
void	setIdGenerator(IncrementalIdGenerator idGenerator)	Setter for the field idGenerator.
void	setStoichiometryWriter(JsonElementWriter<Stoichiometry> stoichiometryWriter)	Setter for the field stoichiometryWriter.
void	write(P object)	write.
protected <F extends Feature> void	writeAllFeatures(Collection<F> features)	writeAllFeatures.
protected <F extends Feature> void	writeFeatures(String name, Collection<F> features)	writeFeatures.
protected void	writeOtherProperties(P object)	writeOtherProperties.

Methods inherited from class java.lang.Object

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

Constructor Detail

SimpleJsonParticipantWriter

public SimpleJsonParticipantWriter(Writer writer,
                                   Map<Feature,Integer> processedFeatures,
                                   Map<String,String> processedInteractors,
                                   Map<Entity,Integer> processedParticipants)

Constructor for SimpleJsonParticipantWriter.

Parameters:

writer - a Writer object.

processedFeatures - a Map object.

processedInteractors - a Map object.

processedParticipants - a Map object.

SimpleJsonParticipantWriter

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

Constructor for SimpleJsonParticipantWriter.

Parameters:

writer - a Writer object.

processedFeatures - a Map object.

processedInteractors - a Map object.

processedParticipants - a Map object.

idGenerator - a IncrementalIdGenerator object.

fetcher - a OntologyTermFetcher object.

Method Detail

write

public void write(P object)
           throws IOException

write.

Specified by:

write in interface JsonElementWriter<P extends Participant>

Parameters:

object - a P object.

Throws:

IOException - if any.

writeAllFeatures

protected <F extends Feature> void writeAllFeatures(Collection<F> features)
                                             throws IOException

writeAllFeatures.

Type Parameters:

F - a F object.

Parameters:

features - a Collection object.

Throws:

IOException - if any.

writeFeatures

protected <F extends Feature> void writeFeatures(String name,
                                                 Collection<F> features)
                                          throws IOException

writeFeatures.

Type Parameters:

F - a F object.

Parameters:

name - a String object.

features - a Collection object.

Throws:

IOException - if any.

writeOtherProperties

protected void writeOtherProperties(P object)
                             throws IOException

writeOtherProperties.

Parameters:

object - a P object.

Throws:

IOException - if any.

getCvWriter

public JsonElementWriter<CvTerm> getCvWriter()

Getter for the field cvWriter.

Returns:

a JsonElementWriter object.

setCvWriter

public void setCvWriter(JsonElementWriter<CvTerm> cvWriter)

Setter for the field cvWriter.

Parameters:

cvWriter - a JsonElementWriter object.

getFeatureWriter

public JsonElementWriter getFeatureWriter()

Getter for the field featureWriter.

Returns:

a JsonElementWriter object.

initialiseDefaultFeatureWriter

protected void initialiseDefaultFeatureWriter()

initialiseDefaultFeatureWriter.

setFeatureWriter

public void setFeatureWriter(JsonElementWriter featureWriter)

Setter for the field featureWriter.

Parameters:

featureWriter - a JsonElementWriter object.

getIdGenerator

public IncrementalIdGenerator getIdGenerator()

Getter for the field idGenerator.

Returns:

a IncrementalIdGenerator object.

setIdGenerator

public void setIdGenerator(IncrementalIdGenerator idGenerator)

Setter for the field idGenerator.

Parameters:

idGenerator - a IncrementalIdGenerator object.

getStoichiometryWriter

public JsonElementWriter<Stoichiometry> getStoichiometryWriter()

Getter for the field stoichiometryWriter.

Returns:

a JsonElementWriter object.

setStoichiometryWriter

public void setStoichiometryWriter(JsonElementWriter<Stoichiometry> stoichiometryWriter)

Setter for the field stoichiometryWriter.

Parameters:

stoichiometryWriter - a JsonElementWriter object.

getWriter

protected Writer getWriter()

Getter for the field writer.

Returns:

a Writer object.

getProcessedFeatures

protected Map<Feature,Integer> getProcessedFeatures()

Getter for the field processedFeatures.

Returns:

a Map object.

getProcessedInteractors

protected Map<String,String> getProcessedInteractors()

Getter for the field processedInteractors.

Returns:

a Map object.

getProcessedParticipants

protected Map<Entity,Integer> getProcessedParticipants()

Getter for the field processedParticipants.

Returns:

a Map object.

getFetcher

protected OntologyTermFetcher getFetcher()

Getter for the field fetcher.

Returns:

a OntologyTermFetcher object.