Examples of ucar.nc2.Dimension

ucar.nc2.iosp.IOServiceProvider
A Dimension is used to define the array shape of a Variable. It may be shared among Variables, which provides a simple yet powerful way of associating Variables. When a Dimension is shared, it has a unique name within its Group. It may have a coordinate Variable, which gives each index a coordinate value. A private Dimension cannot have a coordinate Variable, so use shared dimensions with coordinates when possible. The Dimension length must be > 0, except for an unlimited dimension which may have length = 0, and a vlen Dimension has length = -1.
Immutable if setImmutable() was called, except for an Unlimited Dimension, whose size can change. @author caron


    Section total = new Section( totalRanges);
    Array result = Array.factory(inner.getDataType(), total.getShape());


    // must be a Structure
    Structure outer = (Structure) cer.v;
    Structure outerSubset = outer.select( cer.child.v.getShortName()); // allows IOSPs to optimize for  this case
    ArrayStructure outerData = (ArrayStructure) outerSubset.read(cer.section);
    extractSection( cer.child, outerData, result.getIndexIterator());


    result.setUnsigned(cer.v.isUnsigned());
    return result;
  }

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        List<GradsVariable>  vars  = gradsDDF.getVariables();
        List<GradsAttribute> attrs = gradsDDF.getAttributes();
        //TODO: ensembles
        List<GradsDimension>       dims = gradsDDF.getDimensions();
        Variable                   v;
        int                        numZ  = 0;
        HashMap<String, Dimension> zDims = new HashMap<String, Dimension>();
        for (GradsDimension dim : dims) {
            String    name  = getVarName(dim);
            int       size  = dim.getSize();
            Dimension ncDim = new Dimension(name, size, true);
            ncFile.addDimension(null, ncDim);
            if (name.equals(ENS_VAR)) {
                v = new Variable(ncFile, null, null, name, DataType.STRING,
                                 name);
                v.addAttribute(new Attribute("standard_name", "ensemble"));
                v.addAttribute(new Attribute(_Coordinate.AxisType,
                                             AxisType.Ensemble.toString()));
                List<String> names =
                    gradsDDF.getEnsembleDimension().getEnsembleNames();
                String[] nameArray = new String[names.size()];
                for (int i = 0; i < nameArray.length; i++) {
                    nameArray[i] = names.get(i);
                }
                Array dataArray = Array.factory(DataType.STRING,
                                      new int[] { nameArray.length },
                                      nameArray);
                v.setCachedData(dataArray, false);
            } else {
                double[] vals = dim.getValues();
                v = new Variable(ncFile, null, null, name, DataType.DOUBLE,
                                 name);
                v.addAttribute(new Attribute("units", dim.getUnit()));
                if (name.equals(Y_VAR)) {
                    v.addAttribute(new Attribute("long_name", "latitude"));
                    v.addAttribute(new Attribute("standard_name",
                            "latitude"));
                    v.addAttribute(new Attribute("axis", "Y"));
                    sizeY = dim.getSize();
                    v.addAttribute(new Attribute(_Coordinate.AxisType,
                            AxisType.Lat.toString()));
                } else if (name.equals(X_VAR)) {
                    v.addAttribute(new Attribute("long_name", "longitude"));
                    v.addAttribute(new Attribute("standard_name",
                            "longitude"));
                    v.addAttribute(new Attribute("axis", "X"));
                    v.addAttribute(new Attribute(_Coordinate.AxisType,
                            AxisType.Lon.toString()));
                    sizeX = dim.getSize();
                } else if (name.equals(Z_VAR)) {
                    numZ = size;
                    zDims.put(name, ncDim);
                    v.addAttribute(new Attribute("long_name", "level"));
                    addZAttributes(dim, v);
                } else if (name.equals(TIME_VAR)) {
                    v.addAttribute(new Attribute("long_name", "time"));
                    v.addAttribute(new Attribute(_Coordinate.AxisType,
                            AxisType.Time.toString()));
                }
                ArrayDouble.D1 varArray = new ArrayDouble.D1(size);
                for (int i = 0; i < vals.length; i++) {
                    varArray.set(i, vals[i]);
                }
                v.setCachedData(varArray, false);
            }
            ncFile.addVariable(null, v);
        }
        if (numZ > 0) {
            GradsDimension zDim = gradsDDF.getZDimension();
            double[]       vals = zDim.getValues();
            for (GradsVariable var : vars) {
                int nl = var.getNumLevels();
                if ((nl > 0) && (nl != numZ)) {
                    String name = Z_VAR + nl;
                    if (zDims.get(name) == null) {
                        Dimension ncDim = new Dimension(name, nl, true);
                        ncFile.addDimension(null, ncDim);
                        Variable vz = new Variable(ncFile, null, null, name,
                                          DataType.DOUBLE, name);
                        vz.addAttribute(new Attribute("long_name", name));
                        vz.addAttribute(new Attribute("units",
                                zDim.getUnit()));
                        addZAttributes(zDim, vz);
                        ArrayDouble.D1 varArray = new ArrayDouble.D1(nl);
                        for (int i = 0; i < nl; i++) {
                            varArray.set(i, vals[i]);
                        }
                        vz.setCachedData(varArray, false);
                        ncFile.addVariable(null, vz);
                        zDims.put(name, ncDim);
                    }
                }
            }
        }
        zDims = null;
        for (GradsVariable var : vars) {
            String coords = "latitude longitude";
            int    nl     = var.getNumLevels();
            if (nl > 0) {
                if (nl == numZ) {
                    coords = "level " + coords;
                } else {
                    coords = Z_VAR + nl + " " + coords;
                }
            }
            coords = "time " + coords;
            if (gradsDDF.getEnsembleDimension() != null) {
                coords = "ensemble " + coords;
            }
            v = new Variable(ncFile, null, null, var.getName(),
                             DataType.FLOAT, coords);
            v.addAttribute(new Attribute("long_name", var.getDescription()));
            if (var.getUnitName() != null) {
                v.addAttribute(new Attribute("units", var.getUnitName()));
            }

View Full Code Here

   * @param ncfile the NetcdfFile to test
   * @return true if we think this is a Zebra file.
   */
  public static boolean isMine(NetcdfFile ncfile) {


    Variable v = ncfile.findVariable("time_offset");
    if (v == null || !v.isCoordinateVariable()) return false;
    String desc = v.getDescription();
    if (desc == null || !desc.equals("Time delta from start_time")) return false;


    if (null == ncfile.findGlobalAttribute( "start_date")) return false;
    if (null == ncfile.findGlobalAttribute( "start_time")) return false;

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      start = df.parse(start_date);
    } catch (ParseException e) {
      throw new RuntimeException("Cant read start_date="+start_date);
    }


    Variable v = ds.findVariable("time_offset");
    v.addAttribute(new Attribute( "units", "seconds since "+dfo.toDateTimeString(start)));


    Group root = ds.getRootGroup();
    root.addAttribute(new Attribute( "Convention", "Suomi-Station-CDM"));    
    ds.finish();
  }

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    return 0;
  }


  // section reading for member data
  static public ucar.ma2.Array readSection(ParsedSectionSpec cer) throws IOException, InvalidRangeException {
    Variable inner = null;
    List<Range> totalRanges = new ArrayList<Range>();
    ParsedSectionSpec current = cer;
    while (current != null) {
      totalRanges.addAll( current.section.getRanges());
      inner = current.v;
      current = current.child;
    }


    Section total = new Section( totalRanges);
    Array result = Array.factory(inner.getDataType(), total.getShape());


    // must be a Structure
    Structure outer = (Structure) cer.v;
    Structure outerSubset = outer.select( cer.child.v.getShortName()); // allows IOSPs to optimize for  this case
    ArrayStructure outerData = (ArrayStructure) outerSubset.read(cer.section);

View Full Code Here

    super.findCoordinateAxes(ds);
  }


  protected AxisType getAxisType( NetcdfDataset ncd, VariableEnhanced v) {


    AxisType atype = super.getAxisType(ncd, v);
    if (atype != null) return atype;


    String unit = v.getUnitsString();
    if (unit == null)
      return null;

View Full Code Here


  private static void mergeOverwriteDataType( ThreddsMetadataBuilder first,
                                              ThreddsMetadataBuilder second,
                                              ThreddsMetadataBuilder mergedThreddsMetadata )
  {
    FeatureType dataType = second.getDataType() != null ? second.getDataType() : first.getDataType();
    if ( dataType != null )
      mergedThreddsMetadata.setDataType( dataType );
  }

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  private VerticalCT makeWRFEtaVerticalCoordinateTransform(NetcdfDataset ds, CoordinateSystem cs) {
    if ((null == ds.findVariable("PH")) || (null == ds.findVariable("PHB")) ||
        (null == ds.findVariable("P")) || (null == ds.findVariable("PB")))
      return null;


    WRFEtaTransformBuilder builder = new WRFEtaTransformBuilder(cs);
    return (VerticalCT) builder.makeCoordinateTransform(ds, null);
  }

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    try
    {
      File dir = new File( getDiskCache().getRootDirectory() );
      File ncFile = File.createTempFile( "WCS", ".nc", dir );


      NetcdfCFWriter writer = new NetcdfCFWriter();
      writer.makeFile( ncFile.getPath(), dataset,
                       Collections.singletonList( identifier ), null, null,
  //                     Collections.singletonList( req.getCoverage() ),
  //                     req.getBoundingBox(), dateRange,
                       true, 1, 1, 1 );
      return ncFile;

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     * @param args filename
     *
     * @throws IOException  problem reading file
     */
    public static void main(String[] args) throws IOException {
        IOServiceProvider mciosp = new McIDASGridServiceProvider();
        RandomAccessFile  rf     = new RandomAccessFile(args[0], "r", 2048);
        NetcdfFile ncfile = new MakeNetcdfFile(mciosp, rf, args[0], null);
    }

View Full Code Here

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