@Test
public void testNetCDFWithDifferentTimeDimensions() throws MalformedURLException, IOException {
// Selection of the input file
final File workDir = new File(TestData.file(this, "."), "times");
if (!workDir.mkdir()) {
FileUtils.deleteDirectory(workDir);
assertTrue("Unable to create workdir:" + workDir, workDir.mkdir());
}
FileUtils.copyFile(TestData.file(this, "times.zip"), new File(workDir, "times.zip"));
TestData.unzipFile(this, "times/times.zip");
final File inputFile = TestData.file(this, "times/times.nc");
// Get format
final AbstractGridFormat format =
(AbstractGridFormat) GridFormatFinder.findFormat(inputFile.toURI().toURL(), null);
final NetCDFReader reader = new NetCDFReader(inputFile, null);
Assert.assertNotNull(format);
Assert.assertNotNull(reader);
try {
// Selection of all the Coverage names
String[] names = reader.getGridCoverageNames();
assertNotNull(names);
assertEquals(2, names.length);
// Parsing metadata values
assertEquals("true", reader.getMetadataValue(names[0], "HAS_TIME_DOMAIN"));
List<DimensionDescriptor> descriptors = reader.getDimensionDescriptors(names[0]);
assertEquals(1, descriptors.size());
DimensionDescriptor descriptor = descriptors.get(0);
assertEquals("time", descriptor.getStartAttribute());
assertEquals("TIME", descriptor.getName());
descriptors = reader.getDimensionDescriptors(names[1]);
assertEquals(1, descriptors.size());
descriptor = descriptors.get(0);
assertEquals("time1", descriptor.getStartAttribute());
assertEquals("TIME", descriptor.getName());
assertEquals("true", reader.getMetadataValue(names[1], "HAS_TIME_DOMAIN"));
} finally {
if (reader != null) {
try {
reader.dispose();
} catch (Throwable t) {
// Does nothing
}
}
FileUtils.deleteDirectory(TestData.file(this, "times"));
}
}
/**
* Collects features domain to be exposed as metadata
*
* @param filePath
* @param aggregate
* @param firstFeature
* @return
*/
private Map<String, Object> computeGroupMetadata(
String filePath, boolean aggregate, SimpleFeature firstFeature) {
Map<String, Object> metadataMap = null;
List<DimensionDescriptor> dimensionDescriptors = rasterManager.getDimensionDescriptors();
// extract metadata for the available domains
if (dimensionDescriptors != null && !dimensionDescriptors.isEmpty()) {
Filter filter = FF.equals(FF.property("location"), FF.literal(filePath));
metadataMap = new HashMap<String, Object>();
try {
// scan dimensions
for (DimensionDescriptor descriptor : dimensionDescriptors) {
String attribute = descriptor.getStartAttribute();
String name = descriptor.getName();
Comparable max = null;
Comparable min = null;
if (aggregate) {
Query query = new Query(typeName);
query.setFilter(filter);
query.setPropertyNames(Arrays.asList(attribute));
// Repeat the queries to avoid using a in-Memory
// featureCollection
// We may consider caching the features in case
// the collection size isn't too big
final MaxVisitor maxVisitor = new MaxVisitor(attribute);
granuleCatalog.computeAggregateFunction(query, maxVisitor);
max = maxVisitor.getMax();
MinVisitor minVisitor = new MinVisitor(attribute);
granuleCatalog.computeAggregateFunction(query, minVisitor);
min = minVisitor.getMin();
} else {
max = min = (Comparable) firstFeature.getAttribute(attribute);
}
addMetadaElement(name, min, max, metadataMap);
}
addBBOX(aggregate, filter, firstFeature, metadataMap);
} catch (IOException e) {
throw new RuntimeException("Exception occurred while parsing the feature domains", e);
}
}
return metadataMap;
}
@Test
public void testImageReaderPolyphemunsComplex2() throws Exception {
File file = null;
try {
file = TestData.file(this, "polyphemus_20130301.nc");
} catch (IOException e) {
LOGGER.warning("Unable to find file polyphemus_20130301.nc");
return;
}
if (!file.exists()) {
LOGGER.warning("Unable to find file polyphemus_20130301.nc");
return;
}
FileUtils.copyFile(file, new File(TestData.file(this, null), "polyphemus.nc"));
file = TestData.file(this, "polyphemus.nc");
final NetCDFImageReaderSpi unidataImageReaderSpi = new NetCDFImageReaderSpi();
assertTrue(unidataImageReaderSpi.canDecodeInput(file));
NetCDFImageReader reader = null;
try {
reader = (NetCDFImageReader) unidataImageReaderSpi.createReaderInstance();
reader.setInput(file);
int numImages = reader.getNumImages(true);
assertEquals(1008, numImages);
for (int i = 0; i < numImages; i++) {
Slice2DIndex sliceIndex = reader.getSlice2DIndex(i);
assertNotNull(sliceIndex);
spitOutSliceInformation(i, sliceIndex);
}
// check dimensions
CoverageSourceDescriptor cd = reader.getCoverageDescriptor(new NameImpl("NO2"));
final List<AdditionalDomain> additionalDomains = cd.getAdditionalDomains();
assertNull(additionalDomains);
final List<DimensionDescriptor> dimensions = cd.getDimensionDescriptors();
assertNotNull(dimensions);
assertTrue(!dimensions.isEmpty());
assertEquals("wrong dimensions", 2, dimensions.size());
DimensionDescriptor dim = dimensions.get(0);
assertTrue(dim.getName().equals("TIME"));
assertTrue(dim.getStartAttribute().equals("time"));
dim = dimensions.get(1);
assertTrue(dim.getName().equals("ELEVATION"));
assertTrue(dim.getStartAttribute().equals("z"));
// check coverage names
final List<Name> names = reader.getCoveragesNames();
assertNotNull(names);
assertTrue(!names.isEmpty());
assertTrue(3 == names.size());
assertTrue(names.contains(new NameImpl("NO2")));
assertTrue(names.contains(new NameImpl("O3")));
assertTrue(names.contains(new NameImpl("V")));
// checking slice catalog
final CoverageSlicesCatalog cs = reader.getCatalog();
assertNotNull(cs);
// get typenames
final String[] typeNames = cs.getTypeNames();
for (String typeName : typeNames) {
final List<CoverageSlice> granules = cs.getGranules(new Query(typeName, Filter.INCLUDE));
assertNotNull(granules);
assertFalse(granules.isEmpty());
for (CoverageSlice slice : granules) {
final SimpleFeature sf = slice.getOriginator();
if (TestData.isInteractiveTest()) {
LOGGER.info(DataUtilities.encodeFeature(sf));
}
// checks
for (Property p : sf.getProperties()) {
assertNotNull("Property " + p.getName() + " had a null value!", p.getValue());
}
}
}
} finally {
// close reader
if (reader != null) {
try {
reader.dispose();
} catch (Throwable t) {
// Does nothing
}
}
// specific clean up
FileUtils.deleteDirectory(TestData.file(this, ".polyphemus"));
}
}
@Test
public void NetCDFTestOn4Dcoverages()
throws NoSuchAuthorityCodeException, FactoryException, IOException, ParseException {
File mosaic = new File(TestData.file(this, "."), "NetCDFTestOn4Dcoverages");
if (mosaic.exists()) {
FileUtils.deleteDirectory(mosaic);
}
assertTrue(mosaic.mkdirs());
File file = TestData.file(this, "O3-NO2.nc");
FileUtils.copyFileToDirectory(file, mosaic);
file = new File(mosaic, "O3-NO2.nc");
final Hints hints =
new Hints(Hints.DEFAULT_COORDINATE_REFERENCE_SYSTEM, CRS.decode("EPSG:4326", true));
// Get format
final AbstractGridFormat format =
(AbstractGridFormat) GridFormatFinder.findFormat(file.toURI().toURL(), hints);
final NetCDFReader reader = (NetCDFReader) format.getReader(file.toURI().toURL(), hints);
assertNotNull(format);
try {
String[] names = reader.getGridCoverageNames();
names = new String[] {names[1]};
for (String coverageName : names) {
final String[] metadataNames = reader.getMetadataNames(coverageName);
assertNotNull(metadataNames);
assertEquals(metadataNames.length, 12);
// Parsing metadata values
assertEquals("true", reader.getMetadataValue(coverageName, "HAS_TIME_DOMAIN"));
final String timeMetadata = reader.getMetadataValue(coverageName, "TIME_DOMAIN");
assertEquals(
"2012-04-01T00:00:00.000Z/2012-04-01T00:00:00.000Z,2012-04-01T01:00:00.000Z/2012-04-01T01:00:00.000Z",
timeMetadata);
assertNotNull(timeMetadata);
assertEquals(
"2012-04-01T00:00:00.000Z",
reader.getMetadataValue(coverageName, "TIME_DOMAIN_MINIMUM"));
assertEquals(
"2012-04-01T01:00:00.000Z",
reader.getMetadataValue(coverageName, "TIME_DOMAIN_MAXIMUM"));
assertEquals("true", reader.getMetadataValue(coverageName, "HAS_ELEVATION_DOMAIN"));
final String elevationMetadata = reader.getMetadataValue(coverageName, "ELEVATION_DOMAIN");
assertNotNull(elevationMetadata);
assertEquals("10.0/10.0,450.0/450.0", elevationMetadata);
assertEquals(2, elevationMetadata.split(",").length);
assertEquals("10.0", reader.getMetadataValue(coverageName, "ELEVATION_DOMAIN_MINIMUM"));
assertEquals("450.0", reader.getMetadataValue(coverageName, "ELEVATION_DOMAIN_MAXIMUM"));
List<DimensionDescriptor> descriptors =
((StructuredGridCoverage2DReader) reader).getDimensionDescriptors(coverageName);
assertNotNull(descriptors);
assertEquals(2, descriptors.size());
DimensionDescriptor descriptor = descriptors.get(0);
assertEquals("TIME", descriptor.getName());
assertEquals("time", descriptor.getStartAttribute());
assertNull(descriptor.getEndAttribute());
assertEquals(CoverageUtilities.UCUM.TIME_UNITS.getName(), descriptor.getUnits());
assertEquals(CoverageUtilities.UCUM.TIME_UNITS.getSymbol(), descriptor.getUnitSymbol());
descriptor = descriptors.get(1);
assertEquals("ELEVATION", descriptor.getName());
assertEquals("z", descriptor.getStartAttribute());
assertNull(descriptor.getEndAttribute());
assertEquals("meters", descriptor.getUnits());
assertEquals(
CoverageUtilities.UCUM.ELEVATION_UNITS.getSymbol(), descriptor.getUnitSymbol());
// subsetting the envelope
final ParameterValue<GridGeometry2D> gg =
AbstractGridFormat.READ_GRIDGEOMETRY2D.createValue();
final GeneralEnvelope originalEnvelope = reader.getOriginalEnvelope(coverageName);
final GeneralEnvelope reducedEnvelope =
new GeneralEnvelope(
new double[] {
originalEnvelope.getLowerCorner().getOrdinate(0),
originalEnvelope.getLowerCorner().getOrdinate(1)
},
new double[] {
originalEnvelope.getMedian().getOrdinate(0),
originalEnvelope.getMedian().getOrdinate(1)
});
reducedEnvelope.setCoordinateReferenceSystem(
reader.getCoordinateReferenceSystem(coverageName));
// Selecting bigger gridRange for a zoomed result
final Dimension dim = new Dimension();
GridEnvelope gridRange = reader.getOriginalGridRange(coverageName);
dim.setSize(gridRange.getSpan(0) * 4.0, gridRange.getSpan(1) * 2.0);
final Rectangle rasterArea = ((GridEnvelope2D) gridRange);
rasterArea.setSize(dim);
final GridEnvelope2D range = new GridEnvelope2D(rasterArea);
gg.setValue(new GridGeometry2D(range, reducedEnvelope));
final ParameterValue<List> time = ImageMosaicFormat.TIME.createValue();
final SimpleDateFormat formatD = new SimpleDateFormat("yyyy-MM-dd'T'HH:mm:ss.SSS'Z'");
formatD.setTimeZone(TimeZone.getTimeZone("GMT"));
final Date timeD = formatD.parse("2012-04-01T00:00:00.000Z");
time.setValue(
new ArrayList() {
{
add(timeD);
}
});
final ParameterValue<List> elevation = ImageMosaicFormat.ELEVATION.createValue();
elevation.setValue(
new ArrayList() {
{
add(450d); // Elevation
}
});
GeneralParameterValue[] values = new GeneralParameterValue[] {gg, time, elevation};
GridCoverage2D coverage = reader.read(coverageName, values);
assertNotNull(coverage);
if (TestData.isInteractiveTest()) {
coverage.show();
} else {
PlanarImage.wrapRenderedImage(coverage.getRenderedImage()).getTiles();
}
}
} catch (Throwable t) {
throw new RuntimeException(t);
} finally {
if (reader != null) {
try {
reader.dispose();
} catch (Throwable t) {
// Does nothing
}
}
}
}