Package org.biojava.bio.seq.io.agave
Class AGAVEChromosomeHandler
java.lang.Object
org.biojava.bio.seq.io.agave.StAXContentHandlerBase
org.biojava.bio.seq.io.agave.StAXFeatureHandler
org.biojava.bio.seq.io.agave.AGAVEChromosomeHandler
- All Implemented Interfaces:
AGAVEChromosomeCallbackItf,SequenceHandler,StAXContentHandler
public class AGAVEChromosomeHandler
extends StAXFeatureHandler
implements AGAVEChromosomeCallbackItf, SequenceHandler
Handles the AGAVE <chromosome> element
- Author:
- Hanning Ni Doubletwist Inc
-
Field Summary
FieldsFields inherited from class org.biojava.bio.seq.io.agave.StAXFeatureHandler
annot, callbackStack, endLoc, featureListener, featureTemplate, myLocalName, stackLevel, startLoc, staxenv, subFeatures -
Method Summary
Modifier and TypeMethodDescriptionvoidendElementHandler(String nsURI, String localName, String qName, StAXContentHandler handler) Element specific exit handler Subclass to do anything useful.voidreportSequence(Sequence sequence) voidstartElementHandler(String nsURI, String localName, String qName, Attributes attrs) Element-specific handler.Methods inherited from class org.biojava.bio.seq.io.agave.StAXFeatureHandler
addFeatureToSequence, addHandler, createTemplate, endElement, getFeatureListener, getHandlerStackIterator, getLevel, pop, push, realizeSubFeatures, setFeatureListener, setHandlerCharacteristics, setProperty, startElementMethods inherited from class org.biojava.bio.seq.io.agave.StAXContentHandlerBase
characters, endPrefixMapping, endTree, ignorableWhitespace, processingInstruction, setDocumentLocator, skippedEntity, startPrefixMapping, startTree
-
Field Details
-
AGAVE_CHROMOSOME_HANDLER_FACTORY
-
-
Method Details
-
reportSequence
- Specified by:
reportSequencein interfaceAGAVEChromosomeCallbackItf
-
getSequences
-
startElementHandler
public void startElementHandler(String nsURI, String localName, String qName, Attributes attrs) throws SAXException Description copied from class:StAXFeatureHandlerElement-specific handler. Subclass this to do something useful!- Overrides:
startElementHandlerin classStAXFeatureHandler- Throws:
SAXException
-
endElementHandler
public void endElementHandler(String nsURI, String localName, String qName, StAXContentHandler handler) throws SAXException Description copied from class:StAXFeatureHandlerElement specific exit handler Subclass to do anything useful.- Overrides:
endElementHandlerin classStAXFeatureHandler- Throws:
SAXException
-