Package psidev.psi.mi.jami.json

Class MIJsonOptionFactory

java.lang.Object

psidev.psi.mi.jami.json.MIJsonOptionFactory

public class MIJsonOptionFactory
extends Object

The factory to populate the map of options for the InteractionWriterFactory for json writers

Since:

03/07/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Method Summary

Modifier and Type	Method	Description
Map<String,Object>	getDefaultJsonOptions(File outputFile)	Create the options for a JSON interaction writer.
Map<String,Object>	getDefaultJsonOptions(OutputStream output)	Create the options for a JSON interaction writer.
Map<String,Object>	getDefaultJsonOptions(Writer writer)	Create the options for a JSON interaction writer.
static MIJsonOptionFactory	getInstance()	Getter for the field instance.
Map<String,Object>	getJsonOptions(Object output, InteractionCategory objectCategory, ComplexType complexType, MIJsonType type, OntologyTermFetcher ontologyFetcher, ComplexExpansionMethod complexExpansion)	Create the options for the JSON InteractionWriter.
Map<String,Object>	getJsonOptions(MIJsonType type, File output)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(MIJsonType type, OutputStream output)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(MIJsonType type, Writer writer)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, File outputFile)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, OutputStream output)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, Writer writer)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, ComplexExpansionMethod expansion, File writer)	Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, ComplexExpansionMethod expansion, OutputStream writer)	Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, ComplexExpansionMethod expansion, Writer writer)	Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, ComplexExpansionMethod expansion, OntologyTermFetcher fetcher, File writer)	Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, ComplexExpansionMethod expansion, OntologyTermFetcher fetcher, OutputStream writer)	Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, ComplexExpansionMethod expansion, OntologyTermFetcher fetcher, Writer writer)	Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, OntologyTermFetcher fetcher, File writer)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, OntologyTermFetcher fetcher, OutputStream writer)	Create the options for a JSON interaction writer.
Map<String,Object>	getJsonOptions(InteractionCategory objectCategory, OntologyTermFetcher fetcher, Writer writer)	Create the options for a JSON interaction writer.

Methods inherited from class java.lang.Object

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

Method Detail

getInstance

public static MIJsonOptionFactory getInstance()

Getter for the field instance.

Returns:

a MIJsonOptionFactory object.

getDefaultJsonOptions

public Map<String,Object> getDefaultJsonOptions(File outputFile)

Create the options for a JSON interaction writer.

Parameters:

outputFile - : the file where to write the interactions

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               File outputFile)

Create the options for a JSON interaction writer.

Parameters:

objectCategory - : the interaction object type to write

outputFile - : the file where to write the interactions

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(MIJsonType type,
                                               File output)

Create the options for a JSON interaction writer.

Parameters:

type - : json type

output - : the outputstream

Returns:

the options for a JSON interaction writer.

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               OntologyTermFetcher fetcher,
                                               File writer)

Create the options for a JSON interaction writer.

Parameters:

objectCategory - : the interaction object type to write

fetcher - : the ontology term fetcher

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               ComplexExpansionMethod expansion,
                                               OntologyTermFetcher fetcher,
                                               File writer)

Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.

Parameters:

objectCategory - : the interaction object type to write

expansion - : the complex expansion

fetcher - : the ontology term fetcher

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               ComplexExpansionMethod expansion,
                                               File writer)

Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.

Parameters:

objectCategory - : the interaction object type to write

expansion - : the complex expansion

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getDefaultJsonOptions

public Map<String,Object> getDefaultJsonOptions(OutputStream output)

Create the options for a JSON interaction writer.

Parameters:

output - : the output

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               OutputStream output)

Create the options for a JSON interaction writer.

Parameters:

objectCategory - : the interaction object type to write

output - : the output

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(MIJsonType type,
                                               OutputStream output)

Create the options for a JSON interaction writer.

Parameters:

type - : json type

output - : the outputstream

Returns:

the options for a JSON interaction writer.

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               OntologyTermFetcher fetcher,
                                               OutputStream writer)

Create the options for a JSON interaction writer.

Parameters:

objectCategory - : the interaction object type to write

fetcher - : the ontology term fetcher

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               ComplexExpansionMethod expansion,
                                               OntologyTermFetcher fetcher,
                                               OutputStream writer)

Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.

Parameters:

objectCategory - : the interaction object type to write

expansion - : the complex expansion

fetcher - : the ontology term fetcher

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               ComplexExpansionMethod expansion,
                                               OutputStream writer)

Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.

Parameters:

objectCategory - : the interaction object type to write

expansion - : the complex expansion

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getDefaultJsonOptions

public Map<String,Object> getDefaultJsonOptions(Writer writer)

Create the options for a JSON interaction writer.

Parameters:

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               Writer writer)

Create the options for a JSON interaction writer.

Parameters:

objectCategory - : the interaction object type to write

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               OntologyTermFetcher fetcher,
                                               Writer writer)

Create the options for a JSON interaction writer.

Parameters:

objectCategory - : the interaction object type to write

fetcher - : the ontology term fetcher

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               ComplexExpansionMethod expansion,
                                               OntologyTermFetcher fetcher,
                                               Writer writer)

Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.

Parameters:

objectCategory - : the interaction object type to write

expansion - : the complex expansion

fetcher - : the ontology term fetcher

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(InteractionCategory objectCategory,
                                               ComplexExpansionMethod expansion,
                                               Writer writer)

Create the options for a JSON interaction writer which will be by default of type MIJsonType.binary_only as a complex ecpasnion is provided.

Parameters:

objectCategory - : the interaction object type to write

expansion - : the complex expansion

writer - : the writer

Returns:

the options for the JSON InteractionWriter

getJsonOptions

public Map<String,Object> getJsonOptions(MIJsonType type,
                                               Writer writer)

Create the options for a JSON interaction writer.

Parameters:

type - : type of json

writer - : the writer

Returns:

the options for a JSON interaction writer.

getJsonOptions

public Map<String,Object> getJsonOptions(Object output,
                                               InteractionCategory objectCategory,
                                               ComplexType complexType,
                                               MIJsonType type,
                                               OntologyTermFetcher ontologyFetcher,
                                               ComplexExpansionMethod complexExpansion)

Create the options for the JSON InteractionWriter.

Parameters:

output - a Object object.

objectCategory - : the interaction object type to write

complexType - : binary, n-ary, etc

type - : the MI jason type (n_ary_only or binary_only)

ontologyFetcher - : the ontology fetcher

complexExpansion - a ComplexExpansionMethod object.

Returns:

the options for the JSON InteractionWriter