Package org.biojava.bio.program.blast2html

Class Blast2HTMLHandler

java.lang.Object

org.xml.sax.helpers.DefaultHandler

org.biojava.bio.program.blast2html.Blast2HTMLHandler

All Implemented Interfaces:

ContentHandler, DTDHandler, EntityResolver, ErrorHandler

public class Blast2HTMLHandler
extends DefaultHandler

Takes a SAX event stream and a HTMLRenderer to produce a HTML Blast like program report. Primary author - Colin Hardman (CAT) Other authors - Tim Dilks (CAT) Simon Brocklehurst (CAT) Stuart Johnston (CAT) Lawerence Bower (CAT) Derek Crockford (CAT) Neil Benn (CAT) Copyright 2001 Cambridge Antibody Technology Group plc. This code released to the biojava project, May 2001 under the LGPL license.

Version:

1.0

Author:

Cambridge Antibody Technology Group plc, Greg Cox

Constructor Summary

Constructors

Constructor	Description
Blast2HTMLHandler(HTMLRenderer poRenderer)	A content handler for rendering blast like outputs into HTML.

Method Summary

Modifier and Type	Method	Description
void	characters(char[] charBuffer, int start, int length)	Describe characters method here.
void	endElement(String poNameSpace, String poElementName, String poQName)	Called when the end of an element is reached.
void	startElement(String poNameSpace, String poElementName, String poQName, Attributes poAtts)	This is called when an element is entered.

Methods inherited from class org.xml.sax.helpers.DefaultHandler

endDocument, endPrefixMapping, error, fatalError, ignorableWhitespace, notationDecl, processingInstruction, resolveEntity, setDocumentLocator, skippedEntity, startDocument, startPrefixMapping, unparsedEntityDecl, warning

Methods inherited from class java.lang.Object

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

Constructor Detail

Blast2HTMLHandler

public Blast2HTMLHandler(HTMLRenderer poRenderer)

A content handler for rendering blast like outputs into HTML.

Parameters:

poRenderer - HTMLRenderer - a configured HTMLRenderer.

Method Detail

startElement

public void startElement(String poNameSpace,
                         String poElementName,
                         String poQName,
                         Attributes poAtts)
                  throws SAXException

This is called when an element is entered. That is, the parser has met the first tag of the tag pair.

Specified by:

startElement in interface ContentHandler

Overrides:

startElement in class DefaultHandler

Parameters:

poNameSpace - String - the name space.

poElementName - String - the local name of the tag.

poQName - String - the fully qualified name with prefix

poAtts - an Attributes - the tag attributes.

Throws:

SAXException - if an error occurs

endElement

public void endElement(String poNameSpace,
                       String poElementName,
                       String poQName)

Called when the end of an element is reached.

Specified by:

endElement in interface ContentHandler

Overrides:

endElement in class DefaultHandler

Parameters:

poNameSpace - a String - the name space.

poElementName - a String - the local element name.

poQName - a String value - the qualified element name.

characters

public void characters(char[] charBuffer,
                       int start,
                       int length)

Describe characters method here.

Specified by:

characters in interface ContentHandler

Overrides:

characters in class DefaultHandler

Parameters:

charBuffer - - character array containing data.

start - - the start position of relavent chars in passes array

length - - the stop position of relavent chars in passes array