Package org.biojava.bio.program.xff

Class StrandedFeatureHandler

java.lang.Object

org.biojava.utils.stax.StAXContentHandlerBase

org.biojava.bio.program.xff.FeatureHandler

org.biojava.bio.program.xff.StrandedFeatureHandler

All Implemented Interfaces:

StAXContentHandler

public class StrandedFeatureHandler
extends FeatureHandler

StAX handler for XFF strandedFeature type. By default, XFFFeatureSetHandler uses this handler for all feature elements which have the strand attribute.

Like the basic FeatureHandler, this class can be subclassed to give handlers for more specialized feature types.

Since:

1.2

Author:

Thomas Down

Field Summary

Fields

Modifier and Type	Field	Description
static XFFPartHandlerFactory	STRANDEDFEATURE_HANDLER_FACTORY

Fields inherited from class org.biojava.bio.program.xff.FeatureHandler

FEATURE_HANDLER_FACTORY

Constructor Summary

Constructors

Constructor	Description
StrandedFeatureHandler(XFFFeatureSetHandler xffenv)

Method Summary

Modifier and Type	Method	Description
protected Feature.Template	createFeatureTemplate()	Create a new template of the appropriate type.
protected StrandedFeature.Template	getStrandedFeatureTemplate()
void	startElement(String nsURI, String localName, String qName, Attributes attrs, DelegationManager dm)	StAX callback for element starts.

Methods inherited from class org.biojava.bio.program.xff.FeatureHandler

endElement, fireEndFeature, fireStartFeature, getFeatureTemplate, getLocationHandler, getOldIDHandler, getSourceHandler, getTypeHandler, getXFFEnvironment, setFeatureProperty

Methods inherited from class org.biojava.utils.stax.StAXContentHandlerBase

characters, endPrefixMapping, endTree, ignorableWhitespace, processingInstruction, setDocumentLocator, skippedEntity, startPrefixMapping, startTree

Methods inherited from class java.lang.Object

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

Field Detail

STRANDEDFEATURE_HANDLER_FACTORY

public static final XFFPartHandlerFactory STRANDEDFEATURE_HANDLER_FACTORY

Constructor Detail

StrandedFeatureHandler

public StrandedFeatureHandler(XFFFeatureSetHandler xffenv)

Method Detail

createFeatureTemplate

protected Feature.Template createFeatureTemplate()

Description copied from class: FeatureHandler

Create a new template of the appropriate type. Override this method if you wish to use a template type other than Feature.Template.

Overrides:

createFeatureTemplate in class FeatureHandler

getStrandedFeatureTemplate

protected StrandedFeature.Template getStrandedFeatureTemplate()

startElement

public void startElement(String nsURI,
                         String localName,
                         String qName,
                         Attributes attrs,
                         DelegationManager dm)
                  throws SAXException

Description copied from class: FeatureHandler

StAX callback for element starts. Wrap this method to handle extra elements within your own feature types.

Specified by:

startElement in interface StAXContentHandler

Overrides:

startElement in class FeatureHandler

Throws:

SAXException