org.proteios.io.mzdata
Class MzDataExpSpectrumListBlock

java.lang.Object
  org.proteios.io.mzdata.MzDataExpCommon
      org.proteios.io.mzdata.MzDataExpCommonDc
          org.proteios.io.mzdata.MzDataExpCommonAnnotation
              org.proteios.io.mzdata.MzDataExpCommonPeakList
                  org.proteios.io.mzdata.MzDataExpSpectrumListBlock

public class MzDataExpSpectrumListBlock
extends MzDataExpCommonPeakList

This class processes a "spectrumList" XML block in an mzData file. This class supports export of mzData files from Proteios. An mzData file contains information on a mass spectrometry experiment. Given a Proteios peakListSet, MzDataExporter fetches stored data related to this peakListSet and stores it in an mzData file.

Version:

2.0

Author:

Olle

Last modified

$Date: 2006-09-28 13:29:53 +0200 (Thu, 28 Sep 2006) $

Field Summary

Fields inherited from class org.proteios.io.mzdata.MzDataExpCommonDc

anna, dc, factory

Fields inherited from class org.proteios.io.mzdata.MzDataExpCommon

log

Constructor Summary

MzDataExpSpectrumListBlock(SessionControl sc)
Default constructor.

Method Summary

ProgressReporter	getProgressReporter() Get the ProgressReporter.
void	setProgressReporter(ProgressReporter progress) Set the ProgressReporter.
void	write(XMLCrudeWriter xmlCrudeWriter, PeakListSet peakListSet) Creates a spectrumList block.

Methods inherited from class org.proteios.io.mzdata.MzDataExpCommonPeakList

getPeakList, setPeakList

Methods inherited from class org.proteios.io.mzdata.MzDataExpCommonAnnotation

createAddedParamAnnotationType, createAnnotationType, createCvLookupAnnotationType, createCvParamAnnotationType, createUserParamAnnotationType, fetchAddedParamAnnotationType, fetchAnnotation, fetchCvLookupAnnotation, fetchCvLookupAnnotationList, fetchCvLookupAnnotationType, fetchCvParamAnnotation, fetchCvParamAnnotationList, fetchUserParamAnnotation, fetchUserParamAnnotationList, obtainAddedParamAnnotationType, obtainCvLookupAnnotationType, storeAnnotation, storeCvLookupAnnotation, storeCvParamAnnotation, storeUserParamAnnotation

Methods inherited from class org.proteios.io.mzdata.MzDataExpCommonDc

enableAnnotator, enableDbControl, enableDbControl, getDbControl, getSessionControl, setDbControl

Methods inherited from class org.proteios.io.mzdata.MzDataExpCommon

getBlockTagName, setBlockTagName, write, writeAttribute, writeEndTag, writeNamespace, writeSimpleElementPair, writeSimpleElementPair, writeSingleElementEnd, writeStartElement, writeStartElementEnd, writeStartListTag, writeStartTag, zeroPad, zeroPad, zeroPad

Methods inherited from class java.lang.Object

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

Constructor Detail

MzDataExpSpectrumListBlock

public MzDataExpSpectrumListBlock(SessionControl sc)

Default constructor.

Parameters:

sc -

Method Detail

getProgressReporter

public ProgressReporter getProgressReporter()

Get the ProgressReporter.

Returns:

The ProgressReporter object.

setProgressReporter

public void setProgressReporter(ProgressReporter progress)

Set the ProgressReporter.

Parameters:

progress - The ProgressReporter object to set.

write

public void write(XMLCrudeWriter xmlCrudeWriter,
                  PeakListSet peakListSet)
           throws javax.xml.stream.XMLStreamException

Creates a spectrumList block.

Parameters:

xmlCrudeWriter - the XMLCrudeWriter instance to use.

peakListSet - PeakListSet peakListSet used

Throws:

javax.xml.stream.XMLStreamException - If there is an XML Stream related error