Examples of ucar.nc2.dataset.NetcdfDataset

ucar.nc2.dataset.NetcdfDataset
NetcdfDataset extends the netCDF API, adding standard attribute parsing such as scale and offset, and explicit support for Coordinate Systems. A NetcdfDataset wraps a NetcdfFile, or is defined by an NcML document.

Be sure to close the dataset when done, best practice is to enclose in a try/finally block:
```
 NetcdfDataset ncd = null; try { ncd = NetcdfDataset.openDataset(fileName); ... } finally { ncd.close(); } 
```
By default NetcdfDataset is opened with all enhancements turned on. The default "enhance mode" can be set through setDefaultEnhanceMode(). One can also explicitly set the enhancements you want in the dataset factory methods. The enhancements are:
- ScaleMissing : process scale/offset/missing attributes, and automatically convert the data.
- ScaleMissingDefer : process scale/offset/missing attributes, but dont automatically convert the data. You can call VariableEnhanced.convertScaleOffsetMissing() on the data manually.
- CoordSystem : extract CoordinateSystem using the CoordSysBuilder plug-in mechanism
- ConvertEnums : automaticlly convert enum values to their corresponding Strings. If you want to do this manually, you can call Variable.lookupEnumString() manually.
Automatic ScaleMissing processing has some overhead, and if you need maximum performance, but still want to use scale/offset/missing value handling, open the NetcdfDataset with ScaleMissingDefer. The VariableDS data type is not promoted, and the data is not converted on a read, but you can call the convertScaleOffsetMissing() routines which will do the conversion on a point-by-point basis. @author caron @see ucar.nc2.NetcdfFile

    String wantName = (pos > -1) ? matchPath.substring(pos + 1) : matchPath;
    String hasName = StringUtil.replace(name, ' ', "_") + "_";


    try {
      if (wantType.equals(FILES)) {
        NetcdfDataset ncd = getNetcdfDataset(matchPath);
        return ncd == null ? null : new ucar.nc2.dt.grid.GridDataset(ncd);


      } else if (wantName.equals(hasName + FMRC) && wantDatasets.contains(FeatureCollectionConfig.FmrcDatasetType.TwoD)) {
        return fmrc.getDataset2D(null);

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  }


  static public TrajectoryObsDataset open( String netcdfFileURI, ucar.nc2.util.CancelTask cancelTask)
          throws  IOException
  {
    NetcdfDataset ds = NetcdfDataset.acquireDataset( netcdfFileURI, cancelTask);
    if ( RafTrajectoryObsDataset.isValidFile( ds) )
      return new RafTrajectoryObsDataset( ds);
    else if ( SimpleTrajectoryObsDataset.isValidFile( ds))
      return new SimpleTrajectoryObsDataset( ds);
    else if ( Float10TrajectoryObsDataset.isValidFile( ds))

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      DODSNetcdfFile.debugServerCall = true;
      DODSNetcdfFile.debugCE = true;
      DODSNetcdfFile.debugDataResult = true;
      DODSNetcdfFile.debugConvertData = true;


      NetcdfDataset ds = NetcdfDataset.openDataset("C:/data/ncml/oceanwatch.ncml");
      // System.out.println("ds= "+ ds.toString());


      new SequenceObsDataset(ds, null);


    }

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    testEnhanceEquals("file:R:/testdata/2008TrainingWorkshop/tds/knmi/RAD___TEST_R_C_NL25PCP_L___20080720T000000_200807201T015500_0001_resampledto256x256.ncml");
  }


  private void testEquals(String ncmlLocation) throws  IOException {
    System.out.println("testEquals");
    NetcdfDataset ncd = NcMLReader.readNcML(ncmlLocation, null);


    String locref  = ncd.getReferencedFile().getLocation();
    NetcdfDataset ncdref = NetcdfDataset.openDataset(locref, false, null);


    CompareNetcdf.compareFiles(ncd, ncdref, false, true, false);


    ncd.close();
    ncdref.close();
  }

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    ncdref.close();
  }


  private void testEnhanceEquals(String ncmlLocation) throws  IOException {
    System.out.println("testEnhanceEquals");
    NetcdfDataset ncml = NcMLReader.readNcML(ncmlLocation, null);
    NetcdfDataset ncmlEnhanced = new NetcdfDataset(ncml, true);


    String locref  = ncml.getReferencedFile().getLocation();
    NetcdfDataset ncdrefEnhanced = NetcdfDataset.openDataset(locref, true, null);


    CompareNetcdf.compareFiles(ncmlEnhanced, ncdrefEnhanced, false, true, false);


    ncml.close();
    ncdrefEnhanced.close();
  }

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    List<VariableSimpleIF> dataVars = new ArrayList<VariableSimpleIF>();
    ucar.nc2.NetcdfFile ncfile = pfDataset.getNetcdfFile();
    if ((ncfile == null) || !(ncfile instanceof NetcdfDataset))  {
      dataVars.addAll(pfDataset.getDataVariables());
    } else {
      NetcdfDataset ncd = (NetcdfDataset) ncfile;
      for (VariableSimpleIF vs : pfDataset.getDataVariables()) {
        if (ncd.findCoordinateAxis(vs.getShortName()) == null)
          dataVars.add(vs);
      }
    }


    int count = 0;

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    long start = System.currentTimeMillis();


    // do it in memory for speed
    NetcdfFile ncfile = inMemory ? NetcdfFile.openInMemory(fileIn) : NetcdfFile.open(fileIn);
    NetcdfDataset ncd = new NetcdfDataset(ncfile);


    StringBuilder errlog = new StringBuilder();
    PointObsDataset pobsDataset = (PointObsDataset) TypedDatasetFactory.open(FeatureType.POINT, ncd, null, errlog);


    FileOutputStream fos = new FileOutputStream(fileOut);

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    long start = System.currentTimeMillis();


    // do it in memory for speed
    NetcdfFile ncfile = inMemory ? NetcdfFile.openInMemory(fileIn) : NetcdfFile.open(fileIn);
    NetcdfDataset ncd = new NetcdfDataset(ncfile);


    StringBuilder errlog = new StringBuilder();
    PointObsDataset pobsDataset = (PointObsDataset) TypedDatasetFactory.open(FeatureType.POINT, ncd, null, errlog);
    if (pobsDataset == null) return false;

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    long start = System.currentTimeMillis();


    // do it in memory for speed
    NetcdfFile ncfile = inMemory ? NetcdfFile.openInMemory(fileIn) : NetcdfFile.open(fileIn);
    NetcdfDataset ncd = new NetcdfDataset(ncfile);


    Formatter errlog = new Formatter();
    FeatureDataset fd = FeatureDatasetFactoryManager.wrap(FeatureType.ANY_POINT, ncd, null, errlog);
    if (fd == null) return false;

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  }




  public void testDatasetAddRecord() throws InvalidRangeException, IOException {
    NetcdfDataset nc = NetcdfDataset.openDataset(TestLocal.cdmTestDataDir + "testWriteRecord.nc", NetcdfDataset.getDefaultEnhanceMode(),
        -1, null, NetcdfFile.IOSP_MESSAGE_ADD_RECORD_STRUCTURE);


    // record variable
    Variable record = nc.findVariable("record");
    assert record instanceof StructureDS;
    StructureDS rs = (StructureDS) record;
    assert rs.getRank() == 1;
    assert rs.getDimension(0).getLength() == 2;


    /* Read a record */
    Array rsValues = rs.read("1:1:2");
    assert (rsValues instanceof ArrayStructure);
    assert rsValues.getRank() == 1;
    assert rsValues.getShape()[0] == 1;


    StructureData sdata = (StructureData) rsValues.getObject(rsValues.getIndex());
    Array gdata = sdata.getArray("time");
    assert gdata instanceof ArrayInt.D0 : gdata.getClass().getName();
    ArrayInt.D0 tdata = (ArrayInt.D0) gdata;
    int t = tdata.get();
    assert t == 18;


    int t2 = sdata.getScalarInt("time");
    assert t2 == 18;


    /* Read the times: unlimited dimension */
    Variable time = rs.findVariable("time");
    assert time != null;
    Array timeValues = time.read();
    assert (timeValues instanceof ArrayInt.D0);
    ArrayInt.D0 ta = (ArrayInt.D0) timeValues;
    assert (ta.get() == 6) : ta.get();


    nc.close();
  }

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