TreeFileParser

java.lang.Object

org.xml.sax.helpers.DefaultHandler

edu.msu.cme.rdp.classifier.io.TreeFileParser

All Implemented Interfaces:: ContentHandler, DTDHandler, EntityResolver, ErrorHandler

public class TreeFileParser extends DefaultHandler

A parser to parse a reader containing taxonomic training information. Note: The first TreeNode is the root TreeNode.

Constructor Summary

Constructors

Constructor

Description

TreeFileParser()

Creates a new instance of TreeFileParser.
Method Summary

Modifier and Type

Method

Description

HierarchyTree

createTree(Reader in, HierarchyVersion version)

Reads from a reader that contains the information for each treenode.

void

endElement(String str, String str1, String str2)

void

error(SAXParseException e)

String

getTrainRank()

void

startElement(String namespaceURI, String lName, String qName, Attributes attrs)

Methods inherited from class org.xml.sax.helpers.DefaultHandler
characters, endDocument, endPrefixMapping, 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

Methods inherited from interface org.xml.sax.ContentHandler
declaration

Constructor Details
- TreeFileParser
  
  public TreeFileParser()
  
  Creates a new instance of TreeFileParser.
Method Details
- getTrainRank
  
  public String getTrainRank()
- createTree
  
  public HierarchyTree createTree(Reader in, HierarchyVersion version) throws IOException, TrainingDataException
  
  Reads from a reader that contains the information for each treenode. Creates all the HierarchyTrees and returns the root of the trees. Note: The first TreeNode is the root TreeNode. The version information should be obtained from the other files first.
  
  Throws:
  
  IOException
  
  TrainingDataException
- startElement
  
  public void startElement(String namespaceURI, String lName, String qName, Attributes attrs) throws SAXException
  
  Specified by:
  
  startElement in interface ContentHandler
  
  Overrides:
  
  startElement in class DefaultHandler
  
  Throws:
  
  SAXException
- endElement
  
  public void endElement(String str, String str1, String str2) throws SAXException
  
  Specified by:
  
  endElement in interface ContentHandler
  
  Overrides:
  
  endElement in class DefaultHandler
  
  Throws:
  
  SAXException
- error
  
  public void error(SAXParseException e) throws SAXException
  
  Specified by:
  
  error in interface ErrorHandler
  
  Overrides:
  
  error in class DefaultHandler
  
  Throws:
  
  SAXException