uk.ac.ebi.pride.utilities.data.io.file

Class MzXmlUnmarshallerAdaptor

java.lang.Object

uk.ac.ebi.pride.utilities.data.io.file.MzXmlUnmarshallerAdaptor

public class MzXmlUnmarshallerAdaptor
extends Object

The MzXML Unmarshaller Adaptor provides the methods to retrieve the information form the mzxml_parser library.

Author:

Yasset Perez-Riverol Date: 2/27/12 Time: 2:27 PM

Constructor Summary

Constructors

Constructor and Description
MzXmlUnmarshallerAdaptor(uk.ac.ebi.pride.tools.mzxml_parser.MzXMLFile um)

Method Summary

Methods

Modifier and Type	Method and Description
List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.DataProcessing>	getDataProcessing()
List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.MsInstrument>	getMsInstruments()
List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.ParentFile>	getParentFiles()
List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.Operator>	getPersonContacts()
List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.Software>	getSoftwares()
uk.ac.ebi.pride.tools.jmzreader.model.Spectrum	getSpectrumById(String id)
List<String>	getSpectrumIds()
Duration	getStartDate()

Methods inherited from class java.lang.Object

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

Constructor Detail

MzXmlUnmarshallerAdaptor

public MzXmlUnmarshallerAdaptor(uk.ac.ebi.pride.tools.mzxml_parser.MzXMLFile um)

Method Detail

getSpectrumIds

public List<String> getSpectrumIds()

getSpectrumById

public uk.ac.ebi.pride.tools.jmzreader.model.Spectrum getSpectrumById(String id)
                                                               throws uk.ac.ebi.pride.tools.jmzreader.JMzReaderException

Throws:

uk.ac.ebi.pride.tools.jmzreader.JMzReaderException

getPersonContacts

public List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.Operator> getPersonContacts()
                                                                                throws uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

Throws:

uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

getSoftwares

public List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.Software> getSoftwares()
                                                                           throws uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

Throws:

uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

getParentFiles

public List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.ParentFile> getParentFiles()
                                                                               throws uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

Throws:

uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

getMsInstruments

public List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.MsInstrument> getMsInstruments()
                                                                                   throws uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

Throws:

uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

getDataProcessing

public List<uk.ac.ebi.pride.tools.mzxml_parser.mzxml.model.DataProcessing> getDataProcessing()
                                                                                      throws uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

Throws:

uk.ac.ebi.pride.tools.mzxml_parser.MzXMLParsingException

getStartDate

public Duration getStartDate()
                      throws DatatypeConfigurationException

Throws:

DatatypeConfigurationException