Examples of VariableDS

ucar.nc2.dataset.VariableDS
An wrapper around a Variable, creating an "enhanced" Variable. The original Variable is used for the I/O. There are several distinct uses:
1. 1) handle scale/offset/missing values/enum conversion; this can change DataType and data values
2. 2) container for coordinate system information
3. 3) NcML modifications to underlying Variable
@see NetcdfDataset @author caron

Examples of ucar.nc2.dataset.VariableDS

    String paramS = paramElem.getText();
    Integer param = Integer.parseInt(paramS);


    Element varElem = joinElement.getChild("variable");
    String varName = varElem.getText();
    VariableDS v = (VariableDS) ds.findVariable(varName);
    return new JoinArray(v, type, param);
  }

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS


    promoteGlobalAttributes( (DatasetOuterDimension) typicalDataset);


    // create aggregation coordinate variable
    DataType coordType = getCoordinateType();
    VariableDS joinAggCoord = new VariableDS(ncDataset, null, null, dimName, coordType, dimName, null, null);
    ncDataset.addVariable(null, joinAggCoord);
    joinAggCoord.setProxyReader( this);
    if (isDate)
      joinAggCoord.addAttribute(new ucar.nc2.Attribute(_Coordinate.AxisType, "Time"));


    // if speced externally, this variable will get replaced
    CacheVar cv = new CoordValueVar(joinAggCoord.getFullName(), joinAggCoord.getDataType(), joinAggCoord.getUnitsString());
    joinAggCoord.setSPobject( cv);
    cacheList.add(cv);


    List<String> aggVarNames = getAggVariableNames();


    // if no names specified, add all "non-coordinate" variables.
    // Note that we havent identified coordinate systems with CoordSysBuilder, so that info ius not available.
    // So this isnt that general of a solution. But probably better than nothing
    if (aggVarNames.size() == 0) {
      for (Variable v : typical.getVariables()) {
        if (!(v instanceof CoordinateAxis))
          aggVarNames.add(v.getShortName());
      }
    }


    // now we can create all the aggNew variables
    // use only named variables
    for (String varname : aggVarNames) {
      Variable aggVar = ncDataset.findVariable(varname);
      if (aggVar == null) {
        logger.error(ncDataset.getLocation() + " aggNewDimension cant find variable " + varname);
        continue;
      }


      // construct new variable, replace old one LOOK what about Structures?
      Group newGroup =  DatasetConstructor.findGroup(ncDataset, aggVar.getParentGroup());
      VariableDS vagg = new VariableDS(ncDataset, newGroup, null, aggVar.getShortName(), aggVar.getDataType(),
          dimName + " " + aggVar.getDimensionsString(), null, null);
      vagg.setProxyReader( this);
      DatasetConstructor.transferVariableAttributes(aggVar, vagg);


      // _CoordinateAxes if it exists must be modified
      Attribute att = vagg.findAttribute(_Coordinate.Axes);
      if (att != null) {
        String axes = dimName + " " + att.getStringValue();
        vagg.addAttribute(new Attribute(_Coordinate.Axes, axes));
      }


      newGroup.removeVariable( aggVar.getShortName());
      newGroup.addVariable( vagg);
      aggVars.add(vagg);

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS


  public void testByteAttribute() throws IOException {
    String filename = "dods://localhost:8080/thredds/dodsC/CdataScan/profiler/PROFILER_wind_06min_20070514_2354.nc";
    NetcdfDataset ncd = NetcdfDataset.openDataset(filename, true, null);
    assert ncd != null;
    VariableDS v = (VariableDS) ncd.findVariable("uvQualityCode");
    assert v != null;
    assert v.hasMissing();


    int count = 0;
    Array data = v.read();
    IndexIterator ii = data.getIndexIterator();
    while (ii.hasNext()) {
      byte val = ii.getByteNext();
      if (v.isMissing(val)) count++;
      if (val == (byte)-1)
        assert v.isMissing(val);
    }
    System.out.println("size = "+v.getSize()+" missing= "+count);
  }

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS

      String outerName = v.getDimension(0).makeFullName();
      if (!dimName.equals(outerName))
        continue;


      Group newGroup =  DatasetConstructor.findGroup(ncDataset, v.getParentGroup());
      VariableDS vagg = new VariableDS(ncDataset, newGroup, null, v.getShortName(), v.getDataType(),
              v.getDimensionsString(), null, null);
      vagg.setProxyReader( this);
      DatasetConstructor.transferVariableAttributes(v, vagg);


      newGroup.removeVariable( v.getShortName());
      newGroup.addVariable( vagg);
      aggVars.add(vagg);


      if (cancelTask != null && cancelTask.isCancel()) return;
    }


    // handle the agg coordinate variable
    VariableDS joinAggCoord = (VariableDS) ncDataset.findVariable(dimName); // long name of dimension, coord variable
    if ((joinAggCoord == null) && (type == Type.joinExisting)) {
      typicalDataset.close( typical); // clean up
      throw new IllegalArgumentException("No existing coordinate variable for joinExisting on "+getLocation());
    }


    if (type == Type.joinExistingOne) {
      if (joinAggCoord != null) {
        // replace aggregation coordinate variable
        ncDataset.getRootGroup().removeVariable(joinAggCoord.getShortName());
      }
      
      joinAggCoord = new VariableDS(ncDataset, null, null, dimName, DataType.STRING, dimName, null, null);
      joinAggCoord.setProxyReader( this);
      ncDataset.getRootGroup().addVariable(joinAggCoord);
      aggVars.add(joinAggCoord);
      
      joinAggCoord.addAttribute(new ucar.nc2.Attribute(_Coordinate.AxisType, "Time"));
      joinAggCoord.addAttribute(new Attribute("long_name", "time coordinate"));
      joinAggCoord.addAttribute(new ucar.nc2.Attribute("standard_name", "time"));
    }


    if (timeUnitsChange) {
      readTimeCoordinates(joinAggCoord, cancelTask);
    }


    // make it a cacheVar
    joinAggCoord.setSPobject( coordCacheVar);


    // check persistence info - may have cached values other than coordinate  LOOK ????
    persistRead();


    setDatasetAcquireProxy(typicalDataset, ncDataset);

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS


  protected void rebuildDataset() throws IOException {
    super.rebuildDataset();


    if (timeUnitsChange) {
      VariableDS joinAggCoord = (VariableDS) ncDataset.getRootGroup().findVariable(dimName);
      readTimeCoordinates(joinAggCoord, null);
    }
  }

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS

        Variable v = ncfile.findVariable(timeAxis.getFullNameEscaped());
        if (v == null) {
          logger.warn("readTimeCoordinates: variable = " + timeAxis.getFullName() + " not found in file " + dataset.getLocation());
          return;
        }
        VariableDS vds = (v instanceof VariableDS) ? (VariableDS) v : new VariableDS( null, v, true);
        CoordinateAxis1DTime timeCoordVar = CoordinateAxis1DTime.factory(ncDataset, vds, null);
        java.util.Date[] dates = timeCoordVar.getTimeDates();
        dateList.addAll(Arrays.asList(dates));


        if (timeUnits == null)

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS


    // run through all variables
    for (Variable v : typical.getVariables()) {
      if (isTiled(v)) {
        Group newGroup = DatasetConstructor.findGroup(ncDataset, v.getParentGroup());
        VariableDS vagg = new VariableDS(ncDataset, newGroup, null, v.getShortName(), v.getDataType(),
                v.getDimensionsString(), null, null);   // LOOK what about anon dimensions?
        vagg.setProxyReader( this); // do the reading here
        DatasetConstructor.transferVariableAttributes(v, vagg);


        newGroup.removeVariable(v.getShortName());
        newGroup.addVariable(vagg);
        // aggVars.add(vagg);

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS

  public void testBzipProblem() throws IOException, InvalidRangeException {
    // file where there was an error unzipping the file
    String filename = TestAll.cdmUnitTestDir + "formats/nexrad/level2/Level2_KFTG_20060818_1814.ar2v.uncompress.missingradials";
    NetcdfDataset ncd = NetcdfDataset.openDataset( filename);


    VariableDS azi = (VariableDS) ncd.findVariable("azimuthR");
    assert azi != null;
    VariableDS elev = (VariableDS) ncd.findVariable("elevationR");
    assert elev != null;
    VariableDS time = (VariableDS) ncd.findVariable("timeR");
    assert time != null;
    VariableDS r = (VariableDS) ncd.findVariable("Reflectivity");
    assert r != null;
    checkMissingValues(elev, azi, time, r);


    azi = (VariableDS) ncd.findVariable("azimuthV");
    assert azi != null;

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS

        return null;
      }
    }


    // obs table
    VariableDS time = CoordSysEvaluator.findCoordByType(ds, AxisType.Time);
    if (time == null) {
      errlog.format("GempakCdm: Must have a Time coordinate");
      return null;
    }
    Dimension obsDim = time.getDimension(time.getRank()-1); // may be time(time) or time(stn, obs)


    Table.Type obsTableType = null;
    Structure multidimStruct = null;
    if (obsTableType == null) {
      // Structure(station, time)
      multidimStruct = Evaluator.getStructureWithDimensions(ds, stationDim, obsDim);
      if (multidimStruct != null) {
        obsTableType = Table.Type.MultidimStructure;
      }
    }


    // multidim case
    if (obsTableType == null) {
      // time(station, time)
      if (time.getRank() == 2) {
        obsTableType = Table.Type.MultidimInner;
      }
    }


    if (obsTableType == null) {
        errlog.format("GempakCdm: Cannot figure out Station/obs table structure");
        return null;
    }


    TableConfig obs = new TableConfig(obsTableType, obsDim.getName());
    obs.dimName = obsDim.getName();
    obs.time = time.getFullName();
    obs.missingVar = "_isMissing";
    stnTable.addChild(obs);


    if (obsTableType == Table.Type.MultidimStructure) {
      obs.structName = multidimStruct.getFullName();
      obs.structureType = TableConfig.StructureType.Structure;
      // if time is not in this structure, need to join it
      if (multidimStruct.findVariable( time.getShortName()) == null) {
        obs.addJoin(new JoinArray( time, JoinArray.Type.raw, 0));
      }
    }


    if (obsTableType == Table.Type.MultidimInner) {

View Full Code Here

Examples of ucar.nc2.dataset.VariableDS


    // optional alt coord
    Variable alt = CoordSysEvaluator.findCoordByType(ds, AxisType.Height);


    // obs table
    VariableDS time = CoordSysEvaluator.findCoordByType(ds, AxisType.Time);
    if (time == null) {
      errlog.format("GempakCdm: Must have a Time coordinate");
      return null;
    }
    Dimension obsDim = time.getDimension(time.getRank()-1); // may be time(time) or time(stn, obs)


    Table.Type obsTableType = Table.Type.Structure;
    Structure multidimStruct = Evaluator.getStructureWithDimensions(ds, stationDim, obsDim);


    if (multidimStruct == null) {
        errlog.format("GempakCdm: Cannot figure out StationAsPoint table structure");
        return null;
    }


    TableConfig obs = new TableConfig(obsTableType, obsDim.getName());
    obs.dimName = obsDim.getName();
    obs.structName = multidimStruct.getFullName();
    obs.structureType = TableConfig.StructureType.Structure;
    obs.featureType = FeatureType.POINT;


    obs.lat= lat.getFullName();
    obs.lon= lon.getFullName();
    obs.time= time.getFullName();
    if (alt != null)
       obs.elev = alt.getFullName();


    List<String> vars = new ArrayList<String>(30);
    for (Variable v : ds.getVariables()) {

View Full Code Here

0 1 2 3

TOP

All source code are property of their respective owners. Java is a trademark of Sun Microsystems, Inc and owned by ORACLE Inc. Contact coftware#gmail.com.