org.proteios.io.mzdata
Class MzDataExpDataBlock

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.MzDataExpDataBlock

public class MzDataExpDataBlock
extends MzDataExpCommonPeakList

This class processes a "data" 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: 2006-10-25 14:40:28 +0200 (Wed, 25 Oct 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

MzDataExpDataBlock(SessionControl sc)
Default constructor.

Method Summary

String	getEndian() Get the endian.
String	getPrecision() Get the precision.
boolean	isBigEndian() Get the bigEndian.
boolean	isDoublePrecision() Get the doublePrecision.
void	setEndian(String endian) Set the endian.
void	setPrecision(String precision) Set the precision.
void	write(XMLCrudeWriter xmlCrudeWriter, List<Double> peakData) Creates a data 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

MzDataExpDataBlock

public MzDataExpDataBlock(SessionControl sc)

Default constructor.

Method Detail

getPrecision

public String getPrecision()

Get the precision.

Returns:

precision String the precision

setPrecision

public void setPrecision(String precision)

Set the precision.

Parameters:

precision - String the precision to set.

getEndian

public String getEndian()

Get the endian.

Returns:

endian String the endian

setEndian

public void setEndian(String endian)

Set the endian.

Parameters:

endian - String the endian to set.

isDoublePrecision

public boolean isDoublePrecision()

Get the doublePrecision.

Returns:

doublePrecision boolean doublePrecision based on String precision

isBigEndian

public boolean isBigEndian()

Get the bigEndian.

Returns:

bigEndian boolean bigEndian based on String endian

write

public void write(XMLCrudeWriter xmlCrudeWriter,
                  List<Double> peakData)
           throws javax.xml.stream.XMLStreamException

Creates a data block.

Parameters:

xmlCrudeWriter - the XMLCrudeWriter instance to use.

peakData - List List of peak data values.

Throws:

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