org.systemsbiology.jrap
Class SAX2ScanHandler

java.lang.Object
  extended by org.xml.sax.helpers.DefaultHandler
      extended by org.systemsbiology.jrap.SAX2ScanHandler
All Implemented Interfaces:
org.xml.sax.ContentHandler, org.xml.sax.DTDHandler, org.xml.sax.EntityResolver, org.xml.sax.ErrorHandler

public final class SAX2ScanHandler
extends org.xml.sax.helpers.DefaultHandler


Field Summary
protected  boolean inPeak
          Flag to indicate we are reading a peak tag
protected  boolean inPrecursorMZ
          Flag to indicate if we are reading the precursor MZ value
protected  java.lang.StringBuffer peakData
          A string to hold the Base64 peak data
protected  java.lang.StringBuffer precursorBuffer
          Buffer to hold characters while getting precursorMZ value
protected  Scan tmpScan
          A new Scan Object
 
Constructor Summary
SAX2ScanHandler()
           
 
Method Summary
 void characters(char[] ch, int start, int length)
          Characters.
 void endElement(java.lang.String uri, java.lang.String local, java.lang.String raw)
           
 void error(org.xml.sax.SAXParseException ex)
          Error.
 void fatalError(org.xml.sax.SAXParseException ex)
          Fatal error.
 Scan getScan()
           
 void ignorableWhitespace(char[] ch, int start, int length)
          Ignorable whitespace.
protected  void printError(java.lang.String type, org.xml.sax.SAXParseException ex)
          Prints the error message.
 void processingInstruction(java.lang.String target, java.lang.String data)
          Processing instruction.
 void startDocument()
          Start document.
 void startElement(java.lang.String uri, java.lang.String local, java.lang.String raw, org.xml.sax.Attributes attrs)
          Start element.
 void warning(org.xml.sax.SAXParseException ex)
          Warning.
 
Methods inherited from class org.xml.sax.helpers.DefaultHandler
endDocument, endPrefixMapping, notationDecl, resolveEntity, setDocumentLocator, skippedEntity, startPrefixMapping, unparsedEntityDecl
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

tmpScan

protected Scan tmpScan
A new Scan Object


peakData

protected java.lang.StringBuffer peakData
A string to hold the Base64 peak data


inPeak

protected boolean inPeak
Flag to indicate we are reading a peak tag


precursorBuffer

protected java.lang.StringBuffer precursorBuffer
Buffer to hold characters while getting precursorMZ value


inPrecursorMZ

protected boolean inPrecursorMZ
Flag to indicate if we are reading the precursor MZ value

Constructor Detail

SAX2ScanHandler

public SAX2ScanHandler()
Method Detail

getScan

public Scan getScan()

startDocument

public void startDocument()
                   throws org.xml.sax.SAXException
Start document.

Specified by:
startDocument in interface org.xml.sax.ContentHandler
Overrides:
startDocument in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

startElement

public void startElement(java.lang.String uri,
                         java.lang.String local,
                         java.lang.String raw,
                         org.xml.sax.Attributes attrs)
                  throws org.xml.sax.SAXException
Start element.

Specified by:
startElement in interface org.xml.sax.ContentHandler
Overrides:
startElement in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

endElement

public void endElement(java.lang.String uri,
                       java.lang.String local,
                       java.lang.String raw)
                throws org.xml.sax.SAXException
Specified by:
endElement in interface org.xml.sax.ContentHandler
Overrides:
endElement in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

characters

public void characters(char[] ch,
                       int start,
                       int length)
                throws org.xml.sax.SAXException
Characters.

Specified by:
characters in interface org.xml.sax.ContentHandler
Overrides:
characters in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

ignorableWhitespace

public void ignorableWhitespace(char[] ch,
                                int start,
                                int length)
                         throws org.xml.sax.SAXException
Ignorable whitespace.

Specified by:
ignorableWhitespace in interface org.xml.sax.ContentHandler
Overrides:
ignorableWhitespace in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

processingInstruction

public void processingInstruction(java.lang.String target,
                                  java.lang.String data)
                           throws org.xml.sax.SAXException
Processing instruction.

Specified by:
processingInstruction in interface org.xml.sax.ContentHandler
Overrides:
processingInstruction in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

warning

public void warning(org.xml.sax.SAXParseException ex)
             throws org.xml.sax.SAXException
Warning.

Specified by:
warning in interface org.xml.sax.ErrorHandler
Overrides:
warning in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

error

public void error(org.xml.sax.SAXParseException ex)
           throws org.xml.sax.SAXException
Error.

Specified by:
error in interface org.xml.sax.ErrorHandler
Overrides:
error in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

fatalError

public void fatalError(org.xml.sax.SAXParseException ex)
                throws org.xml.sax.SAXException
Fatal error.

Specified by:
fatalError in interface org.xml.sax.ErrorHandler
Overrides:
fatalError in class org.xml.sax.helpers.DefaultHandler
Throws:
org.xml.sax.SAXException

printError

protected void printError(java.lang.String type,
                          org.xml.sax.SAXParseException ex)
Prints the error message.



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