Package jspecview.source

Class NMRMLReader

java.lang.Object
jspecview.source.NMRMLReader
All Implemented Interfaces:
SourceReader
public class NMRMLReader extends Object
Representation of an nmrML Source.

  • Field Details

    • source

      protected JDXSource source

    • filePath

      protected String filePath

    • parser

      protected XMLParser parser

    • tagName

      protected String tagName

    • attrList

      protected String attrList

    • title

      protected String title

    • owner

      protected String owner

    • origin

      protected String origin

    • tmpEnd

      protected String tmpEnd

    • molForm

      protected String molForm

    • techname

      protected String techname

    • npoints

      protected int npoints

    • samplenum

      protected int samplenum

    • yaxisData

      protected double[] yaxisData

    • xaxisData

      protected double[] xaxisData

    • xUnits

      protected String xUnits

    • yUnits

      protected String yUnits

    • vendor

      protected String vendor

    • modelType

      protected String modelType

    • LongDate

      protected String LongDate

    • pathlength

      protected String pathlength

    • identifier

      protected String identifier

    • plLabel

      protected String plLabel

    • resolution

      protected String resolution

    • resLabel

      protected String resLabel

    • LocName

      protected String LocName

    • LocContact

      protected String LocContact

    • casName

      protected String casName

    • sampleowner

      protected String sampleowner

    • obNucleus

      protected String obNucleus

    • strObFreq

      protected String strObFreq

    • increasing

      protected boolean increasing

    • continuous

      protected boolean continuous

    • ivspoints

      protected int ivspoints

    • evspoints

      protected int evspoints

    • sampleRefNum

      protected int sampleRefNum

    • deltaX

      protected double deltaX

    • xFactor

      protected double xFactor

    • yFactor

      protected double yFactor

    • firstX

      protected double firstX

    • lastX

      protected double lastX

    • firstY

      protected double firstY

    • obFreq

      protected double obFreq

    • refPoint

      protected double refPoint

    • casRN

      protected String casRN

    • sampleID

      protected String sampleID

    • errorLog

      protected SB errorLog

  • Constructor Details

    • NMRMLReader

      public NMRMLReader()

  • Method Details

    • getXML

      protected JDXSource getXML(BufferedReader br)

    • processTag

      protected boolean processTag(int tagId) throws Exception
      Process the XML events. Invoked for every start tag. Invoked by the superclass method XMLSource.process(tagId, requiresEndTag)
      Parameters:
      tagId -
      Returns:
      true to continue looking for encapsulated tags false to process once only (no encapsulated tags of interest)
      Throws:
      Exception

    • processEndTag

      protected void processEndTag(int tagId) throws Exception
      Throws:
      Exception

    • getSource

      public JDXSource getSource(String filePath, BufferedReader br)
      Specified by:
      getSource in interface SourceReader

    • getSimpleXmlReader

      protected void getSimpleXmlReader(BufferedReader br)

    • checkStart

      protected void checkStart() throws Exception
      Throws:
      Exception

    • populateVariables

      protected void populateVariables()

    • checkPointCount

      protected boolean checkPointCount()

    • processErrors

      protected void processErrors(String type)

    • processXML

      protected void processXML(int i0, int i1) throws Exception
      Throws:
      Exception

    • process

      protected void process(int tagId, boolean requiresEndTag)
      Process the audit XML events
      Parameters:
      tagId -
      requiresEndTag -