apollo.analysis
Class BlastXMLParser

java.lang.Object
  apollo.analysis.BlastXMLParser

public class BlastXMLParser
extends java.lang.Object

Nested Class Summary

class

BlastXMLParser.BlastXMLParserException

Constructor Summary

BlastXMLParser()

Method Summary

java.lang.String	parse(java.io.InputStream is, StrandedFeatureSetI results)
java.lang.String	parse(java.io.InputStream is, StrandedFeatureSetI results, int strand, int genomicLength, int offset)

Methods inherited from class java.lang.Object

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

Constructor Detail

BlastXMLParser

public BlastXMLParser()
               throws javax.xml.parsers.ParserConfigurationException

Throws:

javax.xml.parsers.ParserConfigurationException

Method Detail

parse

public java.lang.String parse(java.io.InputStream is,
                              StrandedFeatureSetI results)
                       throws org.xml.sax.SAXException,
                              java.io.IOException,
                              BlastXMLParser.BlastXMLParserException

Throws:

org.xml.sax.SAXException

java.io.IOException

BlastXMLParser.BlastXMLParserException

parse

public java.lang.String parse(java.io.InputStream is,
                              StrandedFeatureSetI results,
                              int strand,
                              int genomicLength,
                              int offset)
                       throws org.xml.sax.SAXException,
                              java.io.IOException,
                              BlastXMLParser.BlastXMLParserException

Throws:

org.xml.sax.SAXException

java.io.IOException

BlastXMLParser.BlastXMLParserException