AbstractPsiXmlBinaryStream (PSI :: JAMI - Java framework for molecular interactions 3.3.0 API)

java.lang.Object
- psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream<B>
- - psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlBinaryStream<T,B>

All Implemented Interfaces:

ErrorHandler, BinaryInteractionStream<B>, InteractionStream<B>, MIDataSource, MIFileDataSource, MIFileParserListener, PsiXmlParserListener, PsiXmlStreamSource<B>

Direct Known Subclasses:

LightXmlBinaryStreamSource, XmlBinaryEvidenceStreamSource, XmlBinaryStreamSource, XmlModelledBinaryStreamSource
```
public abstract class AbstractPsiXmlBinaryStream<T extends Interaction,B extends BinaryInteraction>
extends AbstractPsiXmlStream<B>
implements BinaryInteractionStream<B>
```
Abstract class for binary interaction datasources
Since:
```
17/10/13
```
Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary
- Fields inherited from class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream
  SCHEMA_FEATURE, VALIDATION_FEATURE
- Fields inherited from interface psidev.psi.mi.jami.datasource.MIFileDataSource
  FILE_URI_PREFIX, URL_PREFIX_REGEXP

Constructor Summary

Constructors
Constructor	Description
`AbstractPsiXmlBinaryStream()`	Constructor for AbstractPsiXmlBinaryStream.
`AbstractPsiXmlBinaryStream(File file)`	Constructor for AbstractPsiXmlBinaryStream.
`AbstractPsiXmlBinaryStream(InputStream input)`	Constructor for AbstractPsiXmlBinaryStream.
`AbstractPsiXmlBinaryStream(Reader reader)`	Constructor for AbstractPsiXmlBinaryStream.
`AbstractPsiXmlBinaryStream(URL url)`	Constructor for AbstractPsiXmlBinaryStream.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`protected ComplexExpansionMethod<T,B>`	`getComplexExpansion()`	Getter for the field `complexExpansion`.
`protected void`	`initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction,? extends BinaryInteraction> expansionMethod)`	initialiseExpansionMethod.

Methods inherited from class psidev.psi.mi.jami.xml.model.extension.datasource.AbstractPsiXmlStream
close, createXmlIterator, error, fatalError, getElementCache, getFileParserListener, getInteractionsIterator, getInteractorFactory, getParser, initialiseContext, initialiseXmlParser, initialiseXmlParser, initialiseXmlParser, initialiseXmlParser, isInitialised, onAliasWithoutName, onAnnotationWithoutTopic, onInteractionWithoutParticipants, onInvalidOrganismTaxid, onInvalidPosition, onInvalidRange, onInvalidStoichiometry, onInvalidSyntax, onMissingChecksumMethod, onMissingChecksumValue, onMissingConfidenceType, onMissingConfidenceValue, onMissingCvTermName, onMissingInteractorName, onMissingParameterType, onMissingParameterValue, onParticipantWithoutInteractor, onSeveralExperimentalRolesFound, onSeveralExperimentsFound, onSeveralExpressedInOrganismFound, onSeveralHostOrganismFound, onSyntaxWarning, onUnresolvedReference, onXrefWithoutDatabase, onXrefWithoutId, reInit, reset, setFileParserListener, setInteractorFactory, setMIFileParserListener, setParser, setXmlFileParserListener, validateSyntax, validateSyntax, warning

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface psidev.psi.mi.jami.datasource.InteractionStream
getInteractionsIterator

Methods inherited from interface psidev.psi.mi.jami.datasource.MIDataSource
close, initialiseContext, reset

- Constructor Detail
  - AbstractPsiXmlBinaryStream
```
public AbstractPsiXmlBinaryStream()
```
    Constructor for AbstractPsiXmlBinaryStream.
  - AbstractPsiXmlBinaryStream
```
public AbstractPsiXmlBinaryStream(File file)
```
    Constructor for AbstractPsiXmlBinaryStream.
    
    Parameters:
    
    file - a File object.
  - AbstractPsiXmlBinaryStream
```
public AbstractPsiXmlBinaryStream(InputStream input)
```
    Constructor for AbstractPsiXmlBinaryStream.
    
    Parameters:
    
    input - a InputStream object.
  - AbstractPsiXmlBinaryStream
```
public AbstractPsiXmlBinaryStream(Reader reader)
```
    Constructor for AbstractPsiXmlBinaryStream.
    
    Parameters:
    
    reader - a Reader object.
  - AbstractPsiXmlBinaryStream
```
public AbstractPsiXmlBinaryStream(URL url)
```
    Constructor for AbstractPsiXmlBinaryStream.
    
    Parameters:
    
    url - a URL object.
- Method Detail
  - initialiseExpansionMethod
```
protected void initialiseExpansionMethod(ComplexExpansionMethod<? extends Interaction,? extends BinaryInteraction> expansionMethod)
```
    initialiseExpansionMethod.
    
    Specified by:
    
    initialiseExpansionMethod in class AbstractPsiXmlStream<B extends BinaryInteraction>
    
    Parameters:
    
    expansionMethod - a ComplexExpansionMethod object.
  - getComplexExpansion
```
protected ComplexExpansionMethod<T,B> getComplexExpansion()
```
    Getter for the field complexExpansion.
    
    Returns:
    
    a ComplexExpansionMethod object.