SequenceAlignmentSAXParser (biojava-legacy 1.9.5 API)
void
addPrefixMapping(String poPrefix,
String poURI)
Adds a namespace prefix to URI mapping as (key,value) pairs.
protected void
changeState(int piState)
Centralise chaining of iState field to help with debugging.
protected void
characters(char[] ch,
int start,
int length)
Utility method to centralize the sending of a SAX characters message a document handler.
protected void
endElement(org.biojava.bio.program.sax.QName poQName)
Utility method to centralize the sending of a SAX endElement message a document handler.
ContentHandler
getContentHandler()
Return the content handler.
protected BufferedReader
getContentStream(InputSource poSource)
Create a stream from an an InputSource, picking the correct stream according to order of precedance.
DTDHandler
getDTDHandler()
Do-nothing implementation of interface method
EntityResolver
getEntityResolver()
Do-nothing implementation of interface method
ErrorHandler
getErrorHandler()
Do-nothing implementation of interface method
boolean
getFeature(String poName)
Do-nothing implementation of interface method
String
getNamespacePrefix()
Describe getNamespacePrefix method here.
boolean
getNamespacePrefixes()
Support SAX2 configuration of namespace support of parser.
boolean
getNamespaces()
Support SAX2 configuration of namespace support of parser.
Object
getProperty(String name)
Do-nothing implementation of interface method
String
getURIFromPrefix(String poPrefix)
Gets the URI for a namespace prefix, given that prefix, or null if the prefix is not recognised.
void
parse(String poSystemId)
Full implementation of interface method.
void
parse(InputSource poSource)
Describe 'parse' method here.
String
prefix(String poElementName)
Given an unprefixed element name, returns a new element name with a namespace prefix
void
setContentHandler(ContentHandler poHandler)
Allow an application to register a content event handler.
void
setDTDHandler(DTDHandler handler)
Do-nothing implementation of interface method
void
setEntityResolver(EntityResolver resolver)
Do-nothing implementation of interface method
void
setErrorHandler(ErrorHandler handler)
Do-nothing implementation of interface method
void
setFeature(String poName,
boolean value)
Handles support for ReasoningDomain and Namespace-prefixes
void
setNamespacePrefix(String poPrefix)
void
setProperty(String name,
Object value)
Do-nothing implementation of interface method
protected void
startElement(org.biojava.bio.program.sax.QName poQName,
Attributes atts)
Utility method to centralize sending of a SAX startElement message to document handler