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

Class MIJsonModelledWriter

java.lang.Object

psidev.psi.mi.jami.json.binary.AbstractMIJsonWriter<ModelledInteraction,ModelledBinaryInteraction>

psidev.psi.mi.jami.json.binary.MIJsonModelledWriter

All Implemented Interfaces:

InteractionWriter<ModelledInteraction>

public class MIJsonModelledWriter
extends AbstractMIJsonWriter<ModelledInteraction,ModelledBinaryInteraction>

The jsonWriter which writes the modelled interactions

Since:

05/07/13

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(File file, OntologyTermFetcher fetcher, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(OutputStream output, OntologyTermFetcher fetcher)	Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(OutputStream output, OntologyTermFetcher fetcher, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Writer writer, OntologyTermFetcher fetcher)	Constructor for MIJsonModelledWriter.
MIJsonModelledWriter(Writer writer, OntologyTermFetcher fetcher, ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)	Constructor for MIJsonModelledWriter.

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

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(File file,
                            OntologyTermFetcher fetcher,
                            ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)
                     throws IOException

Constructor for MIJsonModelledWriter.

Parameters:

file - a File object.

fetcher - a OntologyTermFetcher object.

expansionMethod - a ComplexExpansionMethod object.

Throws:

IOException - if any.

MIJsonModelledWriter

public MIJsonModelledWriter(OutputStream output,
                            OntologyTermFetcher fetcher,
                            ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)

Constructor for MIJsonModelledWriter.

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

expansionMethod - a ComplexExpansionMethod object.

MIJsonModelledWriter

public MIJsonModelledWriter(Writer writer,
                            OntologyTermFetcher fetcher,
                            ComplexExpansionMethod<ModelledInteraction,ModelledBinaryInteraction> expansionMethod)

Constructor for MIJsonModelledWriter.

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<ModelledInteraction,ModelledBinaryInteraction>

initialiseBinaryWriter

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

initialiseBinaryWriter.

Specified by:

initialiseBinaryWriter in class AbstractMIJsonWriter<ModelledInteraction,ModelledBinaryInteraction>

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<ModelledInteraction,ModelledBinaryInteraction>

Parameters:

output - a OutputStream object.

fetcher - a OntologyTermFetcher object.

initialiseBinaryWriter

protected void initialiseBinaryWriter(Writer writer,
                                      OntologyTermFetcher fetcher)

initialiseBinaryWriter.

Specified by:

initialiseBinaryWriter in class AbstractMIJsonWriter<ModelledInteraction,ModelledBinaryInteraction>

Parameters:

writer - a Writer object.

fetcher - a OntologyTermFetcher object.

initialiseDefaultBinaryWriter

protected void initialiseDefaultBinaryWriter()

initialiseDefaultBinaryWriter.

Specified by:

initialiseDefaultBinaryWriter in class AbstractMIJsonWriter<ModelledInteraction,ModelledBinaryInteraction>