Package org.biojava.bio.program.das.dasalignment

Class DASAlignmentXMLResponseParser

  • All Implemented Interfaces:
    org.xml.sax.ContentHandler, org.xml.sax.DTDHandler, org.xml.sax.EntityResolver, org.xml.sax.ErrorHandler
    public class DASAlignmentXMLResponseParser
extends org.xml.sax.helpers.DefaultHandler
    A class to Parse the XML response of a DAS Alignment service. returns an Alignment object.
    Since:
    1.4
    Author:
    Andreas Prlic

    • Method Summary

      All Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      void characters​(char[] ch, int start, int length)  
      void endDocument()  
      void endElement​(java.lang.String uri, java.lang.String name, java.lang.String qName)  
      Alignment getAlignment​(int position)
      Returns Alignment at position ...
      Alignment[] getAlignments()
      Returns the alignments.
      void startDocument()  
      void startElement​(java.lang.String uri, java.lang.String name, java.lang.String qName, org.xml.sax.Attributes atts)  

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

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

      • Methods inherited from class java.lang.Object

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

    • Constructor Detail

      • DASAlignmentXMLResponseParser

        public DASAlignmentXMLResponseParser()

    • Method Detail

      • getAlignments

        public Alignment[] getAlignments()
        Returns the alignments.
        Returns:
        an array of Alignment objects

      • getAlignment

        public Alignment getAlignment​(int position)
        Returns Alignment at position ...
        Parameters:
        position - an int
        Returns:
        an Alignment object

      • startElement

        public void startElement​(java.lang.String uri,
                         java.lang.String name,
                         java.lang.String qName,
                         org.xml.sax.Attributes atts)
        Specified by:
        startElement in interface org.xml.sax.ContentHandler
        Overrides:
        startElement in class org.xml.sax.helpers.DefaultHandler

      • endElement

        public void endElement​(java.lang.String uri,
                       java.lang.String name,
                       java.lang.String qName)
        Specified by:
        endElement in interface org.xml.sax.ContentHandler
        Overrides:
        endElement in class org.xml.sax.helpers.DefaultHandler

      • startDocument

        public void startDocument()
        Specified by:
        startDocument in interface org.xml.sax.ContentHandler
        Overrides:
        startDocument in class org.xml.sax.helpers.DefaultHandler

      • endDocument

        public void endDocument()
        Specified by:
        endDocument in interface org.xml.sax.ContentHandler
        Overrides:
        endDocument in class org.xml.sax.helpers.DefaultHandler

      • characters

        public void characters​(char[] ch,
                       int start,
                       int length)
        Specified by:
        characters in interface org.xml.sax.ContentHandler
        Overrides:
        characters in class org.xml.sax.helpers.DefaultHandler