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 Details

    • Blast2HTMLHandler

      public Blast2HTMLHandler(HTMLRenderer poRenderer)
      A content handler for rendering blast like outputs into HTML.
      Parameters:
      poRenderer - HTMLRenderer - a configured HTMLRenderer.

  • Method Details

    • 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