private static void readCalibrationLUT(
final File file, final String lutName, final MetadataElement root, final boolean flipLUT)
throws IOException {
if (!file.exists()) return;
final org.jdom.Document xmlDoc = XMLSupport.LoadXML(file.getAbsolutePath());
final Element rootElement = xmlDoc.getRootElement();
final Element offsetElem = rootElement.getChild("offset");
final double offset = Double.parseDouble(offsetElem.getValue());
final Element gainsElem = rootElement.getChild("gains");
double[] gainsArray = StringUtils.toDoubleArray(gainsElem.getValue().trim(), " ");
if (flipLUT) {
double tmp;
for (int i = 0; i < gainsArray.length / 2; i++) {
tmp = gainsArray[i];
gainsArray[i] = gainsArray[gainsArray.length - i - 1];
gainsArray[gainsArray.length - i - 1] = tmp;
}
}
final MetadataElement lut = new MetadataElement(lutName);
root.addElement(lut);
final MetadataAttribute offsetAttrib =
new MetadataAttribute("offset", ProductData.TYPE_FLOAT64);
offsetAttrib.getData().setElemDouble(offset);
lut.addAttribute(offsetAttrib);
final MetadataAttribute gainsAttrib =
new MetadataAttribute("gains", ProductData.TYPE_FLOAT64, gainsArray.length);
gainsAttrib.getData().setElems(gainsArray);
lut.addAttribute(gainsAttrib);
}
private void handleMetadataGroup(Group group, MetadataElement metadataElement)
throws ProductIOException {
List<Variable> variables = group.getVariables();
for (Variable variable : variables) {
final String name = variable.getShortName();
final int dataType = getProductDataType(variable);
Array array;
try {
array = variable.read();
} catch (IOException e) {
throw new ProductIOException(e.getMessage());
}
final ProductData data = ProductData.createInstance(dataType, array.getStorage());
final MetadataAttribute attribute = new MetadataAttribute("data", data, true);
final MetadataElement sdsElement = new MetadataElement(name);
sdsElement.addAttribute(attribute);
metadataElement.addElement(sdsElement);
final List<Attribute> list = variable.getAttributes();
for (Attribute hdfAttribute : list) {
final String attribName = hdfAttribute.getShortName();
if ("units".equals(attribName)) {
attribute.setUnit(hdfAttribute.getStringValue());
} else if ("long_name".equals(attribName)) {
attribute.setDescription(hdfAttribute.getStringValue());
} else {
addAttributeToElement(sdsElement, hdfAttribute);
}
}
}
}
public void addBandMetadata(Product product) throws ProductIOException {
Group group = ncFile.findGroup("Geophysical_Data");
if (productReader.getProductType() == SeadasProductReader.ProductType.Level2_Aquarius) {
group = ncFile.findGroup("Aquarius_Data");
}
if (productReader.getProductType() == SeadasProductReader.ProductType.Level1B_HICO) {
group = ncFile.findGroup("products");
}
if (group != null) {
final MetadataElement bandAttributes = new MetadataElement("Band_Attributes");
List<Variable> variables = group.getVariables();
for (Variable variable : variables) {
final String name = variable.getShortName();
final MetadataElement sdsElement = new MetadataElement(name + ".attributes");
final int dataType = getProductDataType(variable);
final MetadataAttribute prodtypeattr = new MetadataAttribute("data_type", dataType);
sdsElement.addAttribute(prodtypeattr);
bandAttributes.addElement(sdsElement);
final List<Attribute> list = variable.getAttributes();
for (Attribute varAttribute : list) {
addAttributeToElement(sdsElement, varAttribute);
}
}
final MetadataElement metadataRoot = product.getMetadataRoot();
metadataRoot.addElement(bandAttributes);
}
}
public void addInputParamMetadata(Product product) throws ProductIOException {
Variable inputParams = ncFile.findVariable("Input_Parameters");
if (inputParams != null) {
final MetadataElement inputParamsMeta = new MetadataElement("Input_Parameters");
Array array;
try {
array = inputParams.read();
} catch (IOException e) {
throw new ProductIOException(e.getMessage());
}
String[] lines = array.toString().split("\n");
for (String line : lines) {
String[] parts = line.split("=");
if (parts.length == 2) {
final String name = parts[0].trim();
final String value = parts[1].trim();
final ProductData data = ProductData.createInstance(ProductData.TYPE_ASCII, value);
final MetadataAttribute attribute = new MetadataAttribute(name, data, true);
inputParamsMeta.addAttribute(attribute);
}
}
final MetadataElement metadataRoot = product.getMetadataRoot();
metadataRoot.addElement(inputParamsMeta);
}
}
/** Creates Metadata nodes for all the necessary information. */
protected MetadataElement[] getMetadata() {
MetadataElement[] metadata = new MetadataElement[2];
MetadataElement fileList = new MetadataElement("Input_Products");
final String[] productList = context.getProcessedProducts();
String keyString;
for (int n = 0; n < productList.length; n++) {
keyString = "Product." + n;
fileList.addAttribute(
new MetadataAttribute(keyString, ProductData.createInstance(productList[n]), true));
}
metadata[0] = fileList;
MetadataElement binParams = new MetadataElement("Binning_Parameter");
binParams.addAttribute(
new MetadataAttribute(
"Resampling_Type", ProductData.createInstance(context.getResamplingType()), true));
final String cellSizeName;
if (L3Constants.RESAMPLING_TYPE_VALUE_BINNING.equals(context.getResamplingType())) {
cellSizeName = "Bin_Size_In_Km";
} else {
cellSizeName = "Bins_Per_Degree";
}
binParams.addAttribute(
new MetadataAttribute(
cellSizeName,
ProductData.createInstance(new float[] {context.getGridCellSize()}),
true));
final L3Context.BandDefinition[] bandDefs = context.getBandDefinitions();
for (int bandIndex = 0; bandIndex < bandDefs.length; bandIndex++) {
final L3Context.BandDefinition bandDef = bandDefs[bandIndex];
binParams.addAttribute(
new MetadataAttribute(
"Geophysical_Parameter_" + bandIndex,
ProductData.createInstance(bandDef.getBandName()),
true));
binParams.addAttribute(
new MetadataAttribute(
"Bitmask_" + bandIndex, ProductData.createInstance(bandDef.getBitmaskExp()), true));
binParams.addAttribute(
new MetadataAttribute(
"Algorithm_" + bandIndex,
ProductData.createInstance(bandDef.getAlgorithm().getTypeString()),
true));
}
metadata[1] = binParams;
return metadata;
}
public void addSmiMetadata(final Product product) {
// Variable l3mvar = ncFile.findVariable("l3m_data");
final MetadataElement bandAttributes = new MetadataElement("Band_Attributes");
List<Variable> variables = ncFile.getVariables();
for (Variable variable : variables) {
final String name = variable.getShortName();
final MetadataElement sdsElement = new MetadataElement(name);
final int dataType = getProductDataType(variable);
final MetadataAttribute prodtypeattr = new MetadataAttribute("data_type", dataType);
sdsElement.addAttribute(prodtypeattr);
bandAttributes.addElement(sdsElement);
final List<Attribute> list = variable.getAttributes();
for (Attribute varAttribute : list) {
addAttributeToElement(sdsElement, varAttribute);
}
}
final MetadataElement metadataRoot = product.getMetadataRoot();
metadataRoot.addElement(bandAttributes);
}
public MetadataElement getAsMetadataElement(CompoundData compoundData) throws IOException {
CompoundType type = compoundData.getType();
final int memberCount = type.getMemberCount();
MetadataElement metadataElement = new MetadataElement(type.getName());
for (int i = 0; i < memberCount; i++) {
String typeName = type.getMemberName(i);
CompoundMember member = type.getMember(i);
FormatMetadata formatMetadata = (FormatMetadata) member.getMetadata();
if (typeName.equals("fill")) {
// ignore
} else if (formatMetadata != null && formatMetadata.getType().equals("string")) {
String stringValue = getAsString(compoundData.getSequence(i));
Map<Object, String> map = getMetaData(member).getItemMap();
if (map != null) {
stringValue = map.get(stringValue);
}
ProductData data = ProductData.createInstance(stringValue);
MetadataAttribute attribute = new MetadataAttribute(typeName, data, true);
attribute.setDescription(getDescription(member));
attribute.setUnit(getUnits(member));
metadataElement.addAttribute(attribute);
} else if (member.getType().getName().equals("DATE")) {
CompoundData dateCompound = compoundData.getCompound(i);
ProductData data = createDate(dateCompound);
MetadataAttribute attribute = new MetadataAttribute(typeName, data, true);
attribute.setDescription(getDescription(member));
attribute.setUnit(getUnits(member));
metadataElement.addAttribute(attribute);
} else if (member.getType().isSequenceType()) {
SequenceData sequence = compoundData.getSequence(i);
for (int j = 0; j < sequence.getType().getElementCount(); j++) {
CompoundData compound = sequence.getCompound(j);
metadataElement.addElement(getAsMetadataElement(compound));
}
} else if (member.getType().isCompoundType()) {
metadataElement.addElement(getAsMetadataElement(compoundData.getCompound(i)));
} else if (member.getType().isSimpleType()) {
int intValue = compoundData.getInt(i);
Map<Object, String> map = getMetaData(member).getItemMap();
ProductData data;
if (map != null) {
String stringValue = map.get(intValue);
data = ProductData.createInstance(stringValue);
} else {
double scalingFactor = getMetaData(member).getScalingFactor();
if (scalingFactor == 1.0) {
data = ProductData.createInstance(new int[] {intValue});
} else {
data = ProductData.createInstance(new double[] {intValue * scalingFactor});
}
}
MetadataAttribute attribute = new MetadataAttribute(typeName, data, true);
attribute.setDescription(getDescription(member));
attribute.setUnit(getUnits(member));
metadataElement.addAttribute(attribute);
} else {
System.out.println("not handled: name=" + typeName);
System.out.println("member = " + member.getType());
}
}
return metadataElement;
}
protected void addAttributeToElement(final MetadataElement element, final Attribute attribute) {
final MetadataAttribute metadataAttribute = attributeToMetadata(attribute);
element.addAttribute(metadataAttribute);
}
