Java Code Examples for ucar.nc2.Variable#findDimensionIndex()
The following examples show how to use
ucar.nc2.Variable#findDimensionIndex() .
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Example 1
Source File: WRFEta.java From netcdf-java with BSD 3-Clause "New" or "Revised" License | 6 votes |
/** * Extract an Array (with rank reduced by one) from the Variable * for the given time index. * * @param v variable to extract from * @param timeIndex time index * @return Array of data * @throws IOException problem getting Array */ private Array getTimeSlice(Variable v, int timeIndex) throws IOException { // ADD: this would make a good utility method // ADD: use Array.slice? int[] shape = v.getShape(); int[] origin = new int[v.getRank()]; if (getTimeDimension() != null) { int dimIndex = v.findDimensionIndex(getTimeDimension().getShortName()); if (dimIndex >= 0) { shape[dimIndex] = 1; origin[dimIndex] = timeIndex; } } try { return v.read(origin, shape).reduce(); } catch (InvalidRangeException e) { throw new IOException(e); } }
Example 2
Source File: CFRadialAdapter.java From netcdf-java with BSD 3-Clause "New" or "Revised" License | 6 votes |
private CFRadial2Variable(NetcdfDataset nds, Variable v0) { super(v0.getShortName(), v0); sweeps = new ArrayList<>(); int[] shape = v0.getShape(); int ngates = shape[v0.getRank() - 1]; flattened = v0.findDimensionIndex("n_points") == 0; for (int i = 0; i < nsweeps; i++) { // For flattened (1D stored data) find max number of gates if (flattened) { ngates = ray_n_gates[rayStartIdx[i]]; for (int ray = rayStartIdx[i]; ray <= rayEndIdx[i]; ++ray) ngates = ray_n_gates[ray] > ngates ? ray_n_gates[ray] : ngates; } sweeps.add(new CFRadial2Sweep(v0, i, ngates, rayStartIdx[i], rayEndIdx[i])); } }
Example 3
Source File: CFRadialAdapter.java From netcdf-java with BSD 3-Clause "New" or "Revised" License | 5 votes |
protected void addRadialVariable(NetcdfDataset nds, Variable var) { RadialVariable rsvar = null; int tIdx = var.findDimensionIndex("time"); int rIdx = var.findDimensionIndex("range"); int ptsIdx = var.findDimensionIndex("n_points"); if (((tIdx == 0) && (rIdx == 1)) || (ptsIdx == 0)) { rsvar = makeRadialVariable(nds, var); } if (rsvar != null) { dataVariables.add(rsvar); } }
Example 4
Source File: NetcdfUtils.java From OpenDA with GNU Lesser General Public License v3.0 | 5 votes |
/** * Creates and returns an IGeometryInfo object for the given variable in the given netcdfFile. * If no geometry info available, then returns null. * * @param variable * @param netcdfFile * @return geometryInfo or null. */ public static IArrayGeometryInfo createGeometryInfo(Variable variable, NetcdfFile netcdfFile) { Variable latitudeVariable = findLatitudeVariableForVariable(variable, netcdfFile); Variable longitudeVariable = findLongitudeVariableForVariable(variable, netcdfFile); //currently only 2D grids are supported. if (latitudeVariable == null || longitudeVariable == null) {//if data does not depend on space. return null; } //if 2D grid. IQuantityInfo latitudeQuantityInfo = new QuantityInfo(LATITUDE_STANDARD_NAME, latitudeVariable.getUnitsString()); IQuantityInfo longitudeQuantityInfo = new QuantityInfo(LONGITUDE_STANDARD_NAME, longitudeVariable.getUnitsString()); List<Dimension> latitudeVariableDimensions = latitudeVariable.getDimensions(); int[] latitudeValueIndices = new int[latitudeVariableDimensions.size()]; for (int n = 0; n < latitudeValueIndices.length; n++) { latitudeValueIndices[n] = variable.findDimensionIndex(latitudeVariableDimensions.get(n).getShortName()); } List<Dimension> longitudeVariableDimensions = longitudeVariable.getDimensions(); int[] longitudeValueIndices = new int[longitudeVariableDimensions.size()]; for (int n = 0; n < longitudeValueIndices.length; n++) { longitudeValueIndices[n] = variable.findDimensionIndex(longitudeVariableDimensions.get(n).getShortName()); } IArray latitudeArray = (IArray) readData(latitudeVariable); IArray longitudeArray = (IArray) readData(longitudeVariable); //the latitude and longitude coordinates are stored in the same order as in the netcdf file. ArrayGeometryInfo geometryInfo = new ArrayGeometryInfo(latitudeArray, latitudeValueIndices, latitudeQuantityInfo, longitudeArray, longitudeValueIndices, longitudeQuantityInfo,null,null,null); return geometryInfo; }
Example 5
Source File: NetcdfUtils.java From OpenDA with GNU Lesser General Public License v3.0 | 5 votes |
public static int getLatitudeDimensionIndexForVariable(Variable variable, NetcdfFile netcdfFile) { Variable latitudeVariable = NetcdfUtils.findLatitudeVariableForVariable(variable, netcdfFile); if (latitudeVariable == null) { return -1; } List<Dimension> latitudeVariableDimensions = latitudeVariable.getDimensions(); return variable.findDimensionIndex(latitudeVariableDimensions.get(0).getShortName()); }
Example 6
Source File: NetcdfD3dMapDataObject.java From OpenDA with GNU Lesser General Public License v3.0 | 4 votes |
private void readNetCdfVariables() { for (Variable variable : this.netcdfFile.getVariables()) { if (Arrays.asList(keyVariables).contains(variable.getShortName())) { Variable timeVariable = NetcdfUtils.findTimeVariableForVariable(variable, this.netcdfFile); if (timeVariable == null) { throw new RuntimeException("NetcdfD3dMapDataObject: no time axis for " + variable.getShortName() + ", file: " + netcdfFile.getLocation()); } this.timeDimensionIndex = variable.findDimensionIndex(timeVariable.getShortName()); timeDependentVars.put(variable.getShortName(), variable); // if this is the first time dependent variable: read the times if (timesInNetcdfFile == null) { ucar.ma2.Array timesArray; try { timesArray = timeVariable.read(); } catch (IOException e) { throw new RuntimeException("NetcdfD3dMapDataObject could not read time variable " + timeVariable.getShortName() + "from netcdf file " + netcdfFile.getLocation()); } timesInNetcdfFile = (double[]) timesArray.get1DJavaArray(double.class); } // get the number of spatial dimensions // one of the dimensions was for time List<Dimension> dimensions = variable.getDimensions(); int nonTimeDimensions = dimensions.size() - 1; if (nonTimeDimensions != 4 && variable.getShortName().equalsIgnoreCase("R1")) { throw new RuntimeException("NetcdfD3dMapDataObject: #dims for R1 should be four, file: " + netcdfFile.getLocation()); } int layerCount = 0; for (int i = 0; i < dimensions.size(); i++) { Dimension dimension = dimensions.get(i); if (variable.getShortName().equalsIgnoreCase("R1")){ if (dimension.getShortName().equalsIgnoreCase("LSTSCI")) { lstsciDimensionIndex = i; if (dimension.getLength() != 1) { throw new RuntimeException("NetcdfD3dMapDataObject: #R1 != 1 is not supported (temp. or salinity), file: " + netcdfFile.getLocation()); } } } if (!variable.getShortName().equalsIgnoreCase("S1")) { if (dimension.getShortName().equalsIgnoreCase("KMAXOUT_RESTR")) { if (variable.getShortName().equalsIgnoreCase("R1")) { kmaxOutRestrDimensionIndex = i; } else if (variable.getShortName().equalsIgnoreCase("U1") || variable.getShortName().equalsIgnoreCase("V1")) { kmaxOutRestrDimensionIndexVelocity = i; } if (dimension.getLength() < 0) { throw new RuntimeException("NetcdfD3dMapDataObject: could not read number of layers, file: " + netcdfFile.getLocation()); } layerCount = dimension.getLength(); } } } if (lstsciDimensionIndex == 0 || kmaxOutRestrDimensionIndex == 0 || kmaxOutRestrDimensionIndexVelocity == 0) { throw new RuntimeException("NetcdfD3dMapDataObject: dims not available, file: " + netcdfFile.getLocation()); } ITimeInfo timeInfo = NetcdfUtils.createTimeInfo(variable, this.netcdfFile, timeInfoCache); // for memory reasons, for the time being we only keep the last time step in the exchange time // so adjust the time info double[] times = timeInfo.getTimes(); timeInfo = new TimeInfo(new double[]{times[times.length-1]}); // Extracting geometry information only once if (this.xCoords == null | this.yCoords == null | this.zCoords == null) { Variable variableX = this.netcdfFile.findVariable("XZ"); Variable variableY = this.netcdfFile.findVariable("YZ"); Variable variableZ = this.netcdfFile.findVariable("ZK_LYR"); int[] originXY = createOrigin(variableX); int[] sizeArrayXY = variableX.getShape(); int[] originZ = createOrigin(variableZ); int[] sizeArrayZ = variableZ.getShape(); this.xCoords = NetcdfUtils.readSelectedData(variableX, originXY, sizeArrayXY, -1); this.yCoords = NetcdfUtils.readSelectedData(variableY, originXY, sizeArrayXY, -1); this.zCoords = NetcdfUtils.readSelectedData(variableZ, originZ, sizeArrayZ, -1); } IGeometryInfo geometryInfo; if (variable.getShortName().equalsIgnoreCase("S1")) { geometryInfo = new NetcdfD3dMapExchangeItemGeometryInfo(this.xCoords, this.yCoords, null); } else { geometryInfo = new NetcdfD3dMapExchangeItemGeometryInfo(this.xCoords, this.yCoords, this.zCoords); } IExchangeItem exchangeItem = new NetcdfD3dMapExchangeItem(variable.getShortName(), this, timeInfo, geometryInfo); this.exchangeItems.put(exchangeItem.getId(), exchangeItem); } } }