ucar.nc2.dt.grid.GridDataset Maven / Gradle / Ivy
/*
* Copyright 1998-2009 University Corporation for Atmospheric Research/Unidata
*
* Portions of this software were developed by the Unidata Program at the
* University Corporation for Atmospheric Research.
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package ucar.nc2.dt.grid;
import ucar.nc2.dataset.*;
import ucar.nc2.dt.GridDatatype;
import ucar.nc2.dt.GridCoordSystem;
import ucar.nc2.Attribute;
import ucar.nc2.VariableSimpleIF;
import ucar.nc2.NetcdfFile;
import ucar.nc2.Variable;
import ucar.nc2.util.cache.FileCache;
import ucar.nc2.constants.FeatureType;
import ucar.nc2.units.DateRange;
import ucar.unidata.geoloc.LatLonRect;
import ucar.ma2.IndexIterator;
import ucar.ma2.Array;
import java.util.*;
import java.io.IOException;
/**
* Make a NetcdfDataset into a collection of GeoGrids with Georeferencing coordinate systems.
*
*
* A variable will be made into a GeoGrid if it has a Georeferencing coordinate system,
* using GridCoordSys.isGridCoordSys(), and it has no extra dimensions, ie
* GridCoordSys.isComplete( var) is true.
* If it has multiple Georeferencing coordinate systems, any one that is a product set will be given preference.
*
* Example:
*
*
* GridDataset gridDs = GridDataset.open (uriString);
* List grids = gridDs.getGrids();
* for (int i=0; i<grids.size(); i++) {
* GeoGrid grid = (Geogrid) grids.get(i);
* }
*
*
* @author caron
*/
public class GridDataset implements ucar.nc2.dt.GridDataset, ucar.nc2.ft.FeatureDataset {
private NetcdfDataset ds;
private ArrayList grids = new ArrayList();
private Map gridsetHash = new HashMap();
/**
* Open a netcdf dataset, using NetcdfDataset.defaultEnhanceMode plus CoordSystems
* and turn into a GridDataset.
*
* @param location netcdf dataset to open, using NetcdfDataset.acquireDataset().
* @return GridDataset
* @throws java.io.IOException on read error
* @see ucar.nc2.dataset.NetcdfDataset#acquireDataset
*/
static public GridDataset open(String location) throws java.io.IOException {
return open(location, NetcdfDataset.getDefaultEnhanceMode());
}
/**
* Open a netcdf dataset, using NetcdfDataset.defaultEnhanceMode plus CoordSystems
* and turn into a GridDataset.
*
* @param location netcdf dataset to open, using NetcdfDataset.acquireDataset().
* @param enhanceMode open netcdf dataset with this enhanceMode
* @return GridDataset
* @throws java.io.IOException on read error
* @see ucar.nc2.dataset.NetcdfDataset#acquireDataset
*/
static public GridDataset open(String location, Set enhanceMode) throws java.io.IOException {
NetcdfDataset ds = ucar.nc2.dataset.NetcdfDataset.acquireDataset(null, location, enhanceMode, -1, null, null);
return new GridDataset(ds);
}
/**
* Create a GridDataset from a NetcdfDataset.
*
* @param ds underlying NetcdfDataset, will do Enhance.CoordSystems if not already done.
* @throws java.io.IOException on read error
*/
public GridDataset(NetcdfDataset ds) throws IOException {
this(ds, null);
}
/**
* Create a GridDataset from a NetcdfDataset.
*
* @param ds underlying NetcdfDataset, will do Enhance.CoordSystems if not already done.
* @param parseInfo put parse info here, may be null
* @throws java.io.IOException on read error
*/
public GridDataset(NetcdfDataset ds, Formatter parseInfo) throws IOException {
this.ds = ds;
// ds.enhance(EnumSet.of(NetcdfDataset.Enhance.CoordSystems));
ds.enhance(NetcdfDataset.getDefaultEnhanceMode());
// look for geoGrids
if (parseInfo != null) parseInfo.format("GridDataset look for GeoGrids\n");
List vars = ds.getVariables();
for (Variable var : vars) {
VariableEnhanced varDS = (VariableEnhanced) var;
constructCoordinateSystems(ds, varDS, parseInfo);
}
}
private void constructCoordinateSystems(NetcdfDataset ds, VariableEnhanced v, Formatter parseInfo) {
if (v instanceof StructureDS) {
StructureDS s = (StructureDS) v;
List members = s.getVariables();
for (Variable nested : members) {
// LOOK flatten here ??
constructCoordinateSystems(ds, (VariableEnhanced) nested, parseInfo);
}
} else {
// see if it has a GridCS
// LOOK: should add geogrid it multiple times if there are multiple geoCS ??
GridCoordSys gcs = null;
List csys = v.getCoordinateSystems();
for (CoordinateSystem cs : csys) {
GridCoordSys gcsTry = GridCoordSys.makeGridCoordSys(parseInfo, cs, v);
if (gcsTry != null) {
gcs = gcsTry;
if (gcsTry.isProductSet()) break;
}
}
if (gcs != null)
addGeoGrid((VariableDS) v, gcs, parseInfo);
}
}
private LatLonRect llbbMax = null;
private DateRange dateRangeMax = null;
private void makeRanges() {
for (ucar.nc2.dt.GridDataset.Gridset gset : getGridsets()) {
GridCoordSystem gcs = gset.getGeoCoordSystem();
LatLonRect llbb = gcs.getLatLonBoundingBox();
if (llbbMax == null)
llbbMax = llbb;
else
llbbMax.extend(llbb);
DateRange dateRange = gcs.getDateRange();
if (dateRange != null) {
if (dateRangeMax == null)
dateRangeMax = dateRange;
else
dateRangeMax.extend(dateRange);
}
}
}
// stuff to satisfy ucar.nc2.dt.TypedDataset
public String getTitle() {
String title = ds.findAttValueIgnoreCase(null, "title", null);
return (title == null) ? getName() : title;
}
public String getDescription() {
String desc = ds.findAttValueIgnoreCase(null, "description", null);
if (desc == null)
desc = ds.findAttValueIgnoreCase(null, "history", null);
return (desc == null) ? getName() : desc;
}
public String getLocation() {
return ds.getLocation();
}
public String getLocationURI() {
return ds.getLocation();
}
public Date getStartDate() {
if (dateRangeMax == null) makeRanges();
return (dateRangeMax == null) ? null : dateRangeMax.getStart().getDate();
}
public Date getEndDate() {
if (dateRangeMax == null) makeRanges();
return (dateRangeMax == null) ? null : dateRangeMax.getEnd().getDate();
}
public LatLonRect getBoundingBox() {
if (llbbMax == null) makeRanges();
return llbbMax;
}
public void calcBounds() throws java.io.IOException {
// not needed
}
public List getGlobalAttributes() {
return ds.getGlobalAttributes();
}
public Attribute findGlobalAttributeIgnoreCase(String name) {
return ds.findGlobalAttributeIgnoreCase(name);
}
public List getDataVariables() {
List result = new ArrayList( grids.size());
for (GridDatatype grid : getGrids()) {
if (grid.getVariable() != null) // LOOK could make Adaptor if no variable
result.add( grid.getVariable());
}
return result;
}
public VariableSimpleIF getDataVariable(String shortName) {
return ds.findTopVariable(shortName);
}
public NetcdfFile getNetcdfFile() {
return ds;
}
private void addGeoGrid(VariableDS varDS, GridCoordSys gcs, Formatter parseInfo) {
Gridset gridset;
if (null == (gridset = gridsetHash.get(gcs.getName()))) {
gridset = new Gridset(gcs);
gridsetHash.put(gcs.getName(), gridset);
if (parseInfo != null) parseInfo.format(" -make new GridCoordSys= %s\n",gcs.getName());
gcs.makeVerticalTransform(this, parseInfo); // delayed until now
}
GeoGrid geogrid = new GeoGrid(this, varDS, gridset.gcc);
grids.add(geogrid);
gridset.add(geogrid);
}
/**
* @return the name of the dataset
*/
public String getName() {
return ds.getLocation();
}
/**
* @return the underlying NetcdfDataset
*/
public NetcdfDataset getNetcdfDataset() {
return ds;
}
/**
* @return the list of GeoGrid objects contained in this dataset.
*/
public List getGrids() {
return new ArrayList(grids);
}
public GridDatatype findGridDatatype(String name) {
return findGridByName(name);
}
/**
* Return GridDatatype objects grouped by GridCoordSys. All GridDatatype in a Gridset
* have the same GridCoordSystem.
*
* @return List of type ucar.nc2.dt.GridDataset.Gridset
*/
public List getGridsets() {
return new ArrayList(gridsetHash.values());
}
/**
* find the named GeoGrid.
*
* @param name find this GeoGrid by name
* @return the named GeoGrid, or null if not found
*/
public GeoGrid findGridByName(String name) {
for (GeoGrid ggi : grids) {
if (name.equals(ggi.getName()))
return ggi;
}
return null;
}
/**
* Get Details about the dataset.
*/
public String getDetailInfo() {
Formatter buff = new Formatter();
getDetailInfo(buff);
return buff.toString();
}
public void getDetailInfo(Formatter buff) {
getInfo(buff);
buff.format("\n\n----------------------------------------------------\n");
NetcdfDatasetInfo info = null;
try {
info = new NetcdfDatasetInfo( ds.getLocation());
buff.format("%s", info.getParseInfo());
} catch (IOException e) {
buff.format("NetcdfDatasetInfo failed");
} finally {
if (info != null) try { info.close(); } catch (IOException ee) {} // do nothing
}
buff.format("\n\n----------------------------------------------------\n");
buff.format("%s", ds.toString());
buff.format("\n\n----------------------------------------------------\n");
}
/**
* Show Grids and coordinate systems.
* @param buf put info here
*/
private void getInfo(Formatter buf) {
int countGridset = 0;
for (Gridset gs : gridsetHash.values()) {
GridCoordSystem gcs = gs.getGeoCoordSystem();
buf.format("%nGridset %d coordSys=%s", countGridset, gcs);
buf.format(" LLbb=%s ", gcs.getLatLonBoundingBox());
if ((gcs.getProjection() != null) && !gcs.getProjection().isLatLon())
buf.format(" bb= %s", gcs.getBoundingBox());
buf.format("%n");
buf.format("Name__________________________Unit__________________________hasMissing_Description%n");
for (GridDatatype grid : gs.getGrids()) {
buf.format("%s%n", grid.getInfo());
}
countGridset++;
buf.format("%n");
}
buf.format("\nGeoReferencing Coordinate Axes\n");
buf.format("Name__________________________Units_______________Type______Description\n");
for (CoordinateAxis axis : ds.getCoordinateAxes()) {
if (axis.getAxisType() == null) continue;
axis.getInfo(buf);
buf.format("\n");
}
}
/**
* This is a set of GeoGrids with the same GeoCoordSys.
*/
public class Gridset implements ucar.nc2.dt.GridDataset.Gridset {
private GridCoordSys gcc;
private List grids = new ArrayList();
private Gridset(GridCoordSys gcc) {
this.gcc = gcc;
}
private void add(GeoGrid grid) {
grids.add(grid);
}
/**
* Get list of GeoGrid objects
*/
public List getGrids() {
return grids;
}
/**
* all GridDatatype point to this GridCoordSystem
*/
public GridCoordSystem getGeoCoordSystem() {
return gcc;
}
/**
* all GeoGrids point to this GeoCoordSysImpl.
*
* @deprecated use getGeoCoordSystem() if possible.
*/
public GridCoordSys getGeoCoordSys() {
return gcc;
}
}
////////////////////////////
// for ucar.nc2.ft.FeatureDataset
public FeatureType getFeatureType() {
return FeatureType.GRID;
}
public DateRange getDateRange() {
if (dateRangeMax == null) makeRanges();
return dateRangeMax;
}
public String getImplementationName() {
return ds.getConventionUsed();
}
//////////////////////////////////////////////////
// FileCacheable
public synchronized void close() throws java.io.IOException {
if (fileCache != null) {
fileCache.release(this);
} else {
try {
if (ds != null) ds.close();
} finally {
ds = null;
}
}
}
public boolean sync() throws IOException {
return (ds != null) ? ds.sync() : false;
}
protected FileCache fileCache;
public void setFileCache(FileCache fileCache) {
this.fileCache = fileCache;
}
/////////////////////////////
// deprecated
/**
* Open a netcdf dataset, parse Conventions, find all the geoGrids, return a GridDataset.
*
* @deprecated : use GridDataset.open().
*/
static public GridDataset factory(String netcdfFileURI) throws java.io.IOException {
return open(netcdfFileURI);
}
/////////////////////////////////////////////////////////////////////////////////////////////
// test dataset handler
static private ucar.nc2.dt.grid.GridDataset openGridDataset(String filename) throws IOException {
// fetch it as a NetcdfFile; this deals with possible NcML
NetcdfFile ncfile = NetcdfDataset.acquireFile(filename, null);
if (ncfile == null) return null;
NetcdfDataset ncd;
if (ncfile instanceof NetcdfDataset) {
ncd = (NetcdfDataset) ncfile;
//if (ncd.getEnhanceMode() == NetcdfDataset.EnhanceMode.None) // LOOK
ncd.enhance();
} else {
ncd = new NetcdfDataset(ncfile, true);
}
// convert to a GridDataset
return new ucar.nc2.dt.grid.GridDataset(ncd);
}
/**
* testing
*/
public static void main(String arg[]) {
String defaultFilename = "R:/testdata/grid/netcdf/cf/mississippi.nc";
String filename = (arg.length > 0) ? arg[0] : defaultFilename;
try {
GridDataset gridDs = openGridDataset(filename);
//GridDataset gridDs = GridDataset.open(filename);
//System.out.println(gridDs.getDetailInfo());
String outFilename = "C:/data/writeGrid.nc";
GeoGrid gg = gridDs.findGridByName("latent");
assert gg != null;
gg.writeFile(outFilename);
gridDs = GridDataset.open(outFilename);
System.out.println(gridDs.getDetailInfo());
} catch (Exception ioe) {
ioe.printStackTrace();
}
}
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