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

Class MIJsonEvidenceWriter

java.lang.Object

psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter<InteractionEvidence,BinaryInteractionEvidence>

psidev.psi.mi.jami.json.binary.MIJsonEvidenceWriter

All Implemented Interfaces:

InteractionWriter<InteractionEvidence>

public class MIJsonEvidenceWriter
extends AbstractMIJsonWriter<InteractionEvidence,BinaryInteractionEvidence>

The jsonWriter which writes the interaction evidences

Since:

05/07/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
MIJsonEvidenceWriter()	Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(File file, OntologyTermFetcher fetcher)	Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(File file, OntologyTermFetcher fetcher, ComplexExpansionMethod<InteractionEvidence,BinaryInteractionEvidence> expansionMethod)	Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(OutputStream output, OntologyTermFetcher fetcher)	Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(OutputStream output, OntologyTermFetcher fetcher, ComplexExpansionMethod<InteractionEvidence,BinaryInteractionEvidence> expansionMethod)	Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(Writer writer, OntologyTermFetcher fetcher)	Constructor for MIJsonEvidenceWriter.
MIJsonEvidenceWriter(Writer writer, OntologyTermFetcher fetcher, ComplexExpansionMethod<InteractionEvidence,BinaryInteractionEvidence> expansionMethod)	Constructor for MIJsonEvidenceWriter.

Method Summary

Modifier and Type	Method	Description
protected void	initialiseBinaryWriter(File file, OntologyTermFetcher fetcher)	initialiseBinaryWriter.
protected void	initialiseBinaryWriter(OutputStream output, OntologyTermFetcher fetcher)	initialiseBinaryWriter.
protected void	initialiseBinaryWriter(Writer writer, OntologyTermFetcher fetcher)	initialiseBinaryWriter.
protected void	initialiseDefaultBinaryWriter()	initialiseDefaultBinaryWriter.
protected void	initialiseDefaultExpansionMethod()	initialiseDefaultExpansionMethod.

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

close, end, flush, getBinaryWriter, initialiseContext, reset, setBinaryWriter, setExpansionMethod, start, write, write, write

Methods inherited from class java.lang.Object

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

Constructor Detail

MIJsonEvidenceWriter

public MIJsonEvidenceWriter()

Constructor for MIJsonEvidenceWriter.

MIJsonEvidenceWriter

public MIJsonEvidenceWriter(File file,
                            OntologyTermFetcher fetcher)
                     throws IOException

Constructor for MIJsonEvidenceWriter.

Parameters:

file - a File object.

fetcher - a OntologyTermFetcher object.

Throws:

IOException - if any.

MIJsonEvidenceWriter

public MIJsonEvidenceWriter(OutputStream output,
                            OntologyTermFetcher fetcher)

Constructor for MIJsonEvidenceWriter.

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

MIJsonEvidenceWriter

public MIJsonEvidenceWriter(Writer writer,
                            OntologyTermFetcher fetcher)

Constructor for MIJsonEvidenceWriter.

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

MIJsonEvidenceWriter

public MIJsonEvidenceWriter(File file,
                            OntologyTermFetcher fetcher,
                            ComplexExpansionMethod<InteractionEvidence,BinaryInteractionEvidence> expansionMethod)
                     throws IOException

Constructor for MIJsonEvidenceWriter.

Parameters:

file - a File object.

fetcher - a OntologyTermFetcher object.

expansionMethod - a ComplexExpansionMethod object.

Throws:

IOException - if any.

MIJsonEvidenceWriter

public MIJsonEvidenceWriter(OutputStream output,
                            OntologyTermFetcher fetcher,
                            ComplexExpansionMethod<InteractionEvidence,BinaryInteractionEvidence> expansionMethod)

Constructor for MIJsonEvidenceWriter.

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

expansionMethod - a ComplexExpansionMethod object.

MIJsonEvidenceWriter

public MIJsonEvidenceWriter(Writer writer,
                            OntologyTermFetcher fetcher,
                            ComplexExpansionMethod<InteractionEvidence,BinaryInteractionEvidence> expansionMethod)

Constructor for MIJsonEvidenceWriter.

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

expansionMethod - a ComplexExpansionMethod object.

Method Detail

initialiseDefaultExpansionMethod

protected void initialiseDefaultExpansionMethod()

initialiseDefaultExpansionMethod.

Specified by:

initialiseDefaultExpansionMethod in class AbstractMIJsonWriter<InteractionEvidence,BinaryInteractionEvidence>

initialiseBinaryWriter

protected void initialiseBinaryWriter(File file,
                                      OntologyTermFetcher fetcher)
                               throws IOException

initialiseBinaryWriter.

Specified by:

initialiseBinaryWriter in class AbstractMIJsonWriter<InteractionEvidence,BinaryInteractionEvidence>

Parameters:

file - a File object.

fetcher - a OntologyTermFetcher object.

Throws:

IOException - if any.

initialiseBinaryWriter

protected void initialiseBinaryWriter(OutputStream output,
                                      OntologyTermFetcher fetcher)

initialiseBinaryWriter.

Specified by:

initialiseBinaryWriter in class AbstractMIJsonWriter<InteractionEvidence,BinaryInteractionEvidence>

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

initialiseBinaryWriter

protected void initialiseBinaryWriter(Writer writer,
                                      OntologyTermFetcher fetcher)

initialiseBinaryWriter.

Specified by:

initialiseBinaryWriter in class AbstractMIJsonWriter<InteractionEvidence,BinaryInteractionEvidence>

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

initialiseDefaultBinaryWriter

protected void initialiseDefaultBinaryWriter()

initialiseDefaultBinaryWriter.

Specified by:

initialiseDefaultBinaryWriter in class AbstractMIJsonWriter<InteractionEvidence,BinaryInteractionEvidence>