Package psidev.psi.mi.jami.html

Class MIModelledHtmlWriter

java.lang.Object

psidev.psi.mi.jami.html.AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

psidev.psi.mi.jami.html.MIModelledHtmlWriter

All Implemented Interfaces:

InteractionWriter<ModelledInteraction>

public class MIModelledHtmlWriter
extends AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Writer for modelled interactions

Since:

06/12/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Constructor Summary

Constructors

Constructor	Description
MIModelledHtmlWriter()	Constructor for MIModelledHtmlWriter.
MIModelledHtmlWriter(File file)	Constructor for MIModelledHtmlWriter.
MIModelledHtmlWriter(OutputStream output)	Constructor for MIModelledHtmlWriter.
MIModelledHtmlWriter(Writer writer)	Constructor for MIModelledHtmlWriter.

Method Summary

Modifier and Type	Method	Description
protected void	writeConfidences(ModelledInteraction interaction)	writeConfidences
protected void	writeConfidences(ModelledParticipant participant)	writeConfidences
protected void	writeCooperativeEffects(ModelledInteraction interaction)	writeCooperativeEffects
protected void	writeDetectionMethods(ModelledFeature feature)	writeDetectionMethods
protected void	writeExperiment(ModelledInteraction interaction)	writeExperiment
protected void	writeExperimentalPreparations(ModelledParticipant participant)	writeExperimentalPreparations
protected void	writeExperimentalRole(ModelledParticipant participant)	writeExperimentalRole
protected void	writeExpressedInOrganism(ModelledParticipant participant)	writeExpressedInOrganism
protected void	writeGeneralProperties(ModelledInteraction interaction)	writeGeneralProperties
protected void	writeModelledInteraction(ModelledInteraction c)	writeModelledInteraction
protected void	writeParameters(ModelledInteraction interaction)	writeParameters
protected void	writeParameters(ModelledParticipant participant)	writeParameters
protected void	writeParticipantIdentificationMethods(ModelledParticipant participant)	writeParticipantIdentificationMethods
protected void	writePublication(Publication publication)	writePublication

Methods inherited from class psidev.psi.mi.jami.html.AbstractMIHtmlWriter

close, end, flush, getComplexesToWrite, getComplexWriter, getProcessedObjects, getWriter, initialiseContext, reset, setWriteHeader, start, write, write, write, writeCvTerm, writeEndDocument, writeFeature, writeHeader, writeHtmlStyle, writeInteractionAnchor, writeInteractionList, writeInteractor, writeOrganism, writeParticipant, writeProperty, writePropertyWithQualifier, writerEndBody, writerStartBody, writeStartDocument, writeSubTitle, writeTag

Methods inherited from class java.lang.Object

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

Constructor Detail

MIModelledHtmlWriter

public MIModelledHtmlWriter()

Constructor for MIModelledHtmlWriter.

MIModelledHtmlWriter

public MIModelledHtmlWriter(File file)
                     throws IOException

Constructor for MIModelledHtmlWriter.

Parameters:

file - a File object.

Throws:

IOException - if any.

MIModelledHtmlWriter

public MIModelledHtmlWriter(OutputStream output)

Constructor for MIModelledHtmlWriter.

Parameters:

output - a OutputStream object.

MIModelledHtmlWriter

public MIModelledHtmlWriter(Writer writer)

Constructor for MIModelledHtmlWriter.

Parameters:

writer - a Writer object.

Method Detail

writeCooperativeEffects

protected void writeCooperativeEffects(ModelledInteraction interaction)
                                throws IOException

writeCooperativeEffects

Specified by:

writeCooperativeEffects in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

interaction - a T object.

Throws:

IOException - if any.

writePublication

protected void writePublication(Publication publication)
                         throws IOException

writePublication

Parameters:

publication - a Publication object.

Throws:

IOException - if any.

writeConfidences

protected void writeConfidences(ModelledInteraction interaction)
                         throws IOException

writeConfidences

Specified by:

writeConfidences in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

interaction - a T object.

Throws:

IOException - if any.

writeParameters

protected void writeParameters(ModelledInteraction interaction)
                        throws IOException

writeParameters

Specified by:

writeParameters in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

interaction - a T object.

Throws:

IOException - if any.

writeDetectionMethods

protected void writeDetectionMethods(ModelledFeature feature)
                              throws IOException

writeDetectionMethods

Specified by:

writeDetectionMethods in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

feature - a F object.

Throws:

IOException - if any.

writeGeneralProperties

protected void writeGeneralProperties(ModelledInteraction interaction)
                               throws IOException

writeGeneralProperties

Specified by:

writeGeneralProperties in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

interaction - a T object.

Throws:

IOException - if any.

writeExperiment

protected void writeExperiment(ModelledInteraction interaction)
                        throws IOException

writeExperiment

Specified by:

writeExperiment in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

interaction - a T object.

Throws:

IOException - if any.

writeConfidences

protected void writeConfidences(ModelledParticipant participant)
                         throws IOException

writeConfidences

Specified by:

writeConfidences in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

participant - a P object.

Throws:

IOException - if any.

writeParameters

protected void writeParameters(ModelledParticipant participant)
                        throws IOException

writeParameters

Specified by:

writeParameters in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

participant - a P object.

Throws:

IOException - if any.

writeExperimentalPreparations

protected void writeExperimentalPreparations(ModelledParticipant participant)
                                      throws IOException

writeExperimentalPreparations

Specified by:

writeExperimentalPreparations in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

participant - a P object.

Throws:

IOException - if any.

writeExpressedInOrganism

protected void writeExpressedInOrganism(ModelledParticipant participant)
                                 throws IOException

writeExpressedInOrganism

Specified by:

writeExpressedInOrganism in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

participant - a P object.

Throws:

IOException - if any.

writeExperimentalRole

protected void writeExperimentalRole(ModelledParticipant participant)
                              throws IOException

writeExperimentalRole

Specified by:

writeExperimentalRole in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

participant - a P object.

Throws:

IOException - if any.

writeParticipantIdentificationMethods

protected void writeParticipantIdentificationMethods(ModelledParticipant participant)
                                              throws IOException

writeParticipantIdentificationMethods

Specified by:

writeParticipantIdentificationMethods in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

participant - a P object.

Throws:

IOException - if any.

writeModelledInteraction

protected void writeModelledInteraction(ModelledInteraction c)

writeModelledInteraction

Overrides:

writeModelledInteraction in class AbstractMIHtmlWriter<ModelledInteraction,ModelledParticipant,ModelledFeature>

Parameters:

c - a ModelledInteraction object.