bool SpectralLibraryManager::generateResampledLibrary(const RasterElement* pRaster)
{
VERIFY(pRaster != NULL);
// check that lib sigs are in same units as the raster element
const RasterDataDescriptor* pDesc = dynamic_cast<const RasterDataDescriptor*>(pRaster->getDataDescriptor());
VERIFY(pDesc != NULL);
const Units* pUnits = pDesc->getUnits();
if (pDesc->getUnits()->getUnitType() != mLibraryUnitType)
{
if (Service<DesktopServices>()->showMessageBox("Mismatched Units", "The data are not in the "
"same units as the spectral library.\n Do you want to continue anyway?", "Yes", "No") == 1)
{
return false;
}
}
FactoryResource<Wavelengths> pWavelengths;
pWavelengths->initializeFromDynamicObject(pRaster->getMetadata(), false);
// populate the library with the resampled signatures
PlugInResource pPlugIn("Resampler");
Resampler* pResampler = dynamic_cast<Resampler*>(pPlugIn.get());
VERIFY(pResampler != NULL);
if (pWavelengths->getNumWavelengths() != pDesc->getBandCount())
{
mpProgress->updateProgress("Wavelength information in metadata does not match the number of bands "
"in the raster element", 0, ERRORS);
return false;
}
// get resample suitable signatures - leave out signatures that don't cover the spectral range of the data
std::vector<std::vector<double> > resampledData;
resampledData.reserve(mSignatures.size());
std::vector<Signature*> resampledSignatures;
resampledSignatures.reserve(mSignatures.size());
std::vector<std::string> unsuitableSignatures;
std::vector<double> sigValues;
std::vector<double> sigWaves;
std::vector<double> rasterWaves = pWavelengths->getCenterValues();
std::vector<double> rasterFwhm = pWavelengths->getFwhm();
std::vector<double> resampledValues;
std::vector<int> bandIndex;
DataVariant data;
for (std::vector<Signature*>::const_iterator it = mSignatures.begin(); it != mSignatures.end(); ++it)
{
data = (*it)->getData(SpectralLibraryMatch::getNameSignatureWavelengthData());
VERIFY(data.isValid());
VERIFY(data.getValue(sigWaves));
resampledValues.clear();
data = (*it)->getData(SpectralLibraryMatch::getNameSignatureAmplitudeData());
VERIFY(data.isValid());
VERIFY(data.getValue(sigValues));
double scaleFactor = (*it)->getUnits(
SpectralLibraryMatch::getNameSignatureAmplitudeData())->getScaleFromStandard();
for (std::vector<double>::iterator sit = sigValues.begin(); sit != sigValues.end(); ++sit)
{
*sit *= scaleFactor;
}
std::string msg;
if (pResampler->execute(sigValues, resampledValues, sigWaves, rasterWaves, rasterFwhm, bandIndex, msg) == false
|| resampledValues.size() != rasterWaves.size())
{
unsuitableSignatures.push_back((*it)->getName());
continue;
}
resampledData.push_back(resampledValues);
resampledSignatures.push_back(*it);
}
if (resampledSignatures.empty())
{
std::string errMsg = "None of the signatures in the library cover the spectral range of the data.";
if (mpProgress != NULL)
{
mpProgress->updateProgress(errMsg, 0, ERRORS);
return false;
}
}
if (unsuitableSignatures.empty() == false)
{
std::string warningMsg = "The following library signatures do not cover the spectral range of the data:\n";
for (std::vector<std::string>::iterator it = unsuitableSignatures.begin();
it != unsuitableSignatures.end(); ++it)
{
warningMsg += *it + "\n";
}
warningMsg += "These signatures will not be searched for in the data.";
Service<DesktopServices>()->showMessageBox("SpectralLibraryManager", warningMsg);
StepResource pStep("Spectral LibraryManager", "spectral", "64B6C87A-A6C3-4378-9B6E-221D89D8707B");
pStep->finalize(Message::Unresolved, warningMsg);
}
std::string libName = "Resampled Spectral Library";
// Try to get the resampled lib element in case session was restored. If NULL, create a new raster element with
// num rows = num valid signatures, num cols = 1, num bands = pRaster num bands
RasterElement* pLib = dynamic_cast<RasterElement*>(Service<ModelServices>()->getElement(libName,
TypeConverter::toString<RasterElement>(), pRaster));
if (pLib != NULL)
{
// check that pLib has same number of sigs as SpectralLibraryManager
RasterDataDescriptor* pLibDesc = dynamic_cast<RasterDataDescriptor*>(pLib->getDataDescriptor());
VERIFY(pLibDesc != NULL);
if (pLibDesc->getRowCount() != mSignatures.size())
{
mpProgress->updateProgress("An error occurred during session restore and some signatures were not restored."
" Check the spectral library before using.", 0, ERRORS);
Service<ModelServices>()->destroyElement(pLib);
pLib = NULL;
}
}
bool isNewElement(false);
if (pLib == NULL)
{
pLib = RasterUtilities::createRasterElement(libName,
static_cast<unsigned int>(resampledData.size()), 1, pDesc->getBandCount(), FLT8BYTES, BIP,
true, const_cast<RasterElement*>(pRaster));
isNewElement = true;
}
if (pLib == NULL)
{
mpProgress->updateProgress("Error occurred while trying to create the resampled spectral library", 0, ERRORS);
return false;
}
RasterDataDescriptor* pLibDesc = dynamic_cast<RasterDataDescriptor*>(pLib->getDataDescriptor());
VERIFY(pLibDesc != NULL);
// copy resampled data into new element
if (isNewElement)
{
FactoryResource<DataRequest> pRequest;
pRequest->setWritable(true);
pRequest->setRows(pLibDesc->getActiveRow(0), pLibDesc->getActiveRow(pLibDesc->getRowCount()-1), 1);
DataAccessor acc = pLib->getDataAccessor(pRequest.release());
for (std::vector<std::vector<double> >::iterator sit = resampledData.begin(); sit != resampledData.end(); ++sit)
{
VERIFY(acc->isValid());
void* pData = acc->getColumn();
memcpy(acc->getColumn(), &(sit->begin()[0]), pLibDesc->getBandCount() * sizeof(double));
acc->nextRow();
}
// set wavelength info in resampled library
pWavelengths->applyToDynamicObject(pLib->getMetadata());
FactoryResource<Units> libUnits;
libUnits->setUnitType(mLibraryUnitType);
libUnits->setUnitName(StringUtilities::toDisplayString<UnitType>(mLibraryUnitType));
pLibDesc->setUnits(libUnits.get());
}
pLib->attach(SIGNAL_NAME(Subject, Deleted), Slot(this, &SpectralLibraryManager::resampledElementDeleted));
mLibraries[pRaster] = pLib;
mResampledSignatures[pLib] = resampledSignatures;
const_cast<RasterElement*>(pRaster)->attach(SIGNAL_NAME(Subject, Deleted),
Slot(this, &SpectralLibraryManager::elementDeleted));
return true;
}
bool ImporterShell::validate(const DataDescriptor* pDescriptor, string& errorMessage) const
{
mValidationError = ValidationTest();
// Check for no validation
int validationTest = getValidationTest(pDescriptor);
if (validationTest == NO_VALIDATION)
{
return true;
}
// Always validate the data descriptor and file descriptor
if (pDescriptor == NULL)
{
errorMessage = "The data set information is invalid.";
return false;
}
const FileDescriptor* pFileDescriptor = pDescriptor->getFileDescriptor();
if (pFileDescriptor == NULL)
{
errorMessage = "The data set does not contain valid file information.";
return false;
}
// Existing file
const string& filename = pFileDescriptor->getFilename();
if (validationTest & EXISTING_FILE)
{
// Valid filename
if (filename.empty() == true)
{
errorMessage = "The filename is invalid.";
mValidationError = EXISTING_FILE;
return false;
}
// Existing file
LargeFileResource file(true);
if (!file.open(filename.c_str(), O_RDONLY | O_BINARY, S_IREAD))
{
errorMessage = "The file: " + filename + " does not exist.";
mValidationError = EXISTING_FILE;
return false;
}
}
// Existing data element
if (validationTest & NO_EXISTING_DATA_ELEMENT)
{
const string& name = pDescriptor->getName();
const string& type = pDescriptor->getType();
DataElement* pParent = pDescriptor->getParent();
Service<ModelServices> pModel;
if (pModel->getElement(name, type, pParent) != NULL)
{
errorMessage = "The data set currently exists. It may have already been imported.";
mValidationError = NO_EXISTING_DATA_ELEMENT;
return false;
}
}
// Valid classification
Service<UtilityServices> pUtilities;
if (validationTest & VALID_CLASSIFICATION)
{
// Existing Classification object
const Classification* pClassification = pDescriptor->getClassification();
if (pClassification == NULL)
{
errorMessage = "The required classification does not exist.";
mValidationError = VALID_CLASSIFICATION;
return false;
}
// Unauthorized classification level on the system - warn the user, but continue to load the file
FactoryResource<Classification> pSystemClassification;
pSystemClassification->setLevel(pUtilities->getDefaultClassification());
if (pClassification->hasGreaterLevel(pSystemClassification.get()) == true)
{
errorMessage = "THIS FILE CONTAINS CLASSIFIED INFORMATION WHICH SHOULD NOT BE PROCESSED ON THIS SYSTEM!\n"
"THIS MAY CONSTITUTE A SECURITY VIOLATION WHICH SHOULD BE REPORTED TO YOUR SECURITY OFFICER!\n";
StepResource pStep("Validate", "app", "1A881267-6A96-4eb2-A9D3-7D30334B0A0B", errorMessage);
}
}
// Valid metadata
if (validationTest & VALID_METADATA)
{
if (pDescriptor->getMetadata() == NULL)
{
errorMessage = "The required metadata does not exist.";
mValidationError = VALID_METADATA;
return false;
}
}
// Processing location
if (validationTest & VALID_PROCESSING_LOCATION)
{
if (isProcessingLocationSupported(pDescriptor->getProcessingLocation()) == false)
{
errorMessage = "The specified processing location is not supported.";
mValidationError = VALID_PROCESSING_LOCATION;
return false;
}
}
// If no RasterDataDescriptor or RasterFileDescriptor tests are performed, end here
if (validationTest < RASTER_SIZE)
{
return true;
}
// Since raster tests have been specified, always validate the raster data descriptor and raster file descriptor
const RasterDataDescriptor* pRasterDescriptor = dynamic_cast<const RasterDataDescriptor*>(pDescriptor);
if (pRasterDescriptor == NULL)
{
errorMessage = "The data set does not contain raster information.";
return false;
}
const RasterFileDescriptor* pRasterFileDescriptor =
dynamic_cast<const RasterFileDescriptor*>(pRasterDescriptor->getFileDescriptor());
if (pRasterFileDescriptor == NULL)
{
errorMessage = "The file does not contain valid raster data.";
return false;
}
// Raster size
if (validationTest & RASTER_SIZE)
{
// Data set size
unsigned int loadedRows = pRasterDescriptor->getRowCount();
unsigned int loadedColumns = pRasterDescriptor->getColumnCount();
unsigned int loadedBands = pRasterDescriptor->getBandCount();
if ((loadedRows == 0) || (loadedColumns == 0) || (loadedBands == 0))
{
errorMessage = "The data set is empty. Check the size of the rows, columns, and bands.";
mValidationError = RASTER_SIZE;
return false;
}
// Pixel size
if (pRasterFileDescriptor->getBitsPerElement() == 0)
{
errorMessage = "The number of bits per element is invalid.";
mValidationError = RASTER_SIZE;
return false;
}
}
// Data type
if (validationTest & VALID_DATA_TYPE)
{
const std::vector<EncodingType>& dataTypes = pRasterDescriptor->getValidDataTypes();
if (std::find(dataTypes.begin(), dataTypes.end(), pRasterDescriptor->getDataType()) == dataTypes.end())
{
errorMessage = "The data type is not valid for this data set.";
mValidationError = VALID_DATA_TYPE;
return false;
}
}
// Header bytes
if (validationTest & NO_HEADER_BYTES)
{
if (pRasterFileDescriptor->getHeaderBytes() > 0)
{
errorMessage = "The file has an invalid number of header bytes.";
mValidationError = NO_HEADER_BYTES;
return false;
}
}
// Preline and postline bytes
if (validationTest & NO_PRE_POST_LINE_BYTES)
{
if ((pRasterFileDescriptor->getPrelineBytes() > 0) || (pRasterFileDescriptor->getPostlineBytes() > 0))
{
errorMessage = "The file has an invalid number of preline and/or postline bytes.";
mValidationError = NO_PRE_POST_LINE_BYTES;
return false;
}
}
// Preband and postband bytes
if (validationTest & NO_PRE_POST_BAND_BYTES)
{
if ((pRasterFileDescriptor->getPrebandBytes() > 0) || (pRasterFileDescriptor->getPostbandBytes() > 0))
{
errorMessage = "The file has an invalid number of preband and/or postband bytes.";
mValidationError = NO_PRE_POST_BAND_BYTES;
return false;
}
}
// Trailer bytes
if (validationTest & NO_TRAILER_BYTES)
{
if (pRasterFileDescriptor->getTrailerBytes() > 0)
{
errorMessage = "The file has an invalid number of trailer bytes.";
mValidationError = NO_TRAILER_BYTES;
return false;
}
}
// File size
int64_t requiredSize = RasterUtilities::calculateFileSize(pRasterFileDescriptor);
if ((validationTest & FILE_SIZE) == FILE_SIZE)
{
// Existing file
LargeFileResource file;
VERIFY(file.open(filename, O_RDONLY | O_BINARY, S_IREAD) == true);
// File size
if (requiredSize < 0)
{
errorMessage = "Unable to determine the required file size.";
mValidationError = FILE_SIZE;
return false;
}
if (file.fileLength() < requiredSize)
{
errorMessage = "The size of the file does not match the current parameters.";
mValidationError = FILE_SIZE;
return false;
}
}
// Band files
const vector<const Filename*>& bandFiles = pRasterFileDescriptor->getBandFiles();
if (validationTest & NO_BAND_FILES)
{
if (bandFiles.empty() == false)
{
errorMessage = "This data set cannot have band data in multiple files.";
mValidationError = NO_BAND_FILES;
return false;
}
}
// Existing band files and band file sizes
if (validationTest & EXISTING_BAND_FILES)
{
// Enough band files for all bands
unsigned int numBands = pRasterFileDescriptor->getBandCount();
if (bandFiles.size() < numBands)
{
errorMessage = "The number of band files specified is less than the total number of bands to be loaded.";
mValidationError = EXISTING_BAND_FILES;
return false;
}
// Invalid file for imported bands
for (vector<const Filename*>::size_type i = 0; i < bandFiles.size(); ++i)
{
const Filename* pFilename = bandFiles[i];
if (pFilename == NULL)
{
stringstream streamMessage;
streamMessage << "Band filename " << i + 1 << " is missing.";
errorMessage = streamMessage.str();
mValidationError = EXISTING_BAND_FILES;
return false;
}
// Invalid filename
string bandFilename = pFilename->getFullPathAndName();
if (bandFilename.empty() == true)
{
stringstream streamMessage;
streamMessage << "Band filename " << i + 1 << " is invalid.";
errorMessage = streamMessage.str();
mValidationError = EXISTING_BAND_FILES;
return false;
}
// Existing file
LargeFileResource bandFile;
if (!bandFile.open(bandFilename, O_RDONLY | O_BINARY, S_IREAD))
{
stringstream streamMessage;
streamMessage << "Band file " << i + 1 << " does not exist.";
errorMessage = streamMessage.str();
mValidationError = EXISTING_BAND_FILES;
return false;
}
// File size
if ((validationTest & BAND_FILE_SIZES) == BAND_FILE_SIZES)
{
if (requiredSize < 0)
{
errorMessage = "Unable to determine the required band file size.";
mValidationError = BAND_FILE_SIZES;
return false;
}
if (bandFile.fileLength() < requiredSize)
{
stringstream streamMessage;
streamMessage << "The size of band file " << i + 1 << " does not match the required size "
"for the current parameters.";
errorMessage = streamMessage.str();
mValidationError = BAND_FILE_SIZES;
return false;
}
}
}
}
// Band names
const DynamicObject* pMetadata = pRasterDescriptor->getMetadata();
if ((validationTest & VALID_BAND_NAMES) == VALID_BAND_NAMES)
{
VERIFY(pMetadata != NULL);
string namesPath[] = { SPECIAL_METADATA_NAME, BAND_METADATA_NAME, NAMES_METADATA_NAME, END_METADATA_NAME };
// If band names are present in the metadata, check the number of names against the number of bands
// If band names are not present in the metadata, then succeed
const vector<string>* pBandNames = dv_cast<vector<string> >(&pMetadata->getAttributeByPath(namesPath));
if (pBandNames != NULL)
{
if (pBandNames->size() != pRasterFileDescriptor->getBandCount())
{
errorMessage = "The number of band names in the metadata does not match the number of bands.";
mValidationError = VALID_BAND_NAMES;
return false;
}
}
}
// Wavelengths
if ((validationTest & VALID_WAVELENGTHS) == VALID_WAVELENGTHS)
{
VERIFY(pMetadata != NULL);
// If wavelengths are present in the metadata, check the number of wavelengths against the number of bands
// If wavelengths are not present in the metadata, then succeed
FactoryResource<Wavelengths> pWavelengths;
if (pWavelengths->initializeFromDynamicObject(pMetadata, false) == true)
{
if (pWavelengths->getNumWavelengths() != pRasterFileDescriptor->getBandCount())
{
errorMessage = "The number of wavelengths in the metadata does not match the number of bands.";
mValidationError = VALID_WAVELENGTHS;
return false;
}
}
}
// Interleave conversions
if (validationTest & NO_INTERLEAVE_CONVERSIONS)
{
InterleaveFormatType dataInterleave = pRasterDescriptor->getInterleaveFormat();
InterleaveFormatType fileInterleave = pRasterFileDescriptor->getInterleaveFormat();
if ((pRasterFileDescriptor->getBandCount() > 1) && (dataInterleave != fileInterleave))
{
errorMessage = "Interleave format conversions are not supported.";
mValidationError = NO_INTERLEAVE_CONVERSIONS;
return false;
}
}
// Skip factors
if (validationTest & NO_ROW_SKIP_FACTOR)
{
if (pRasterDescriptor->getRowSkipFactor() > 0)
{
errorMessage = "Row skip factors are not supported.";
mValidationError = NO_ROW_SKIP_FACTOR;
return false;
}
}
if (validationTest & NO_COLUMN_SKIP_FACTOR)
{
if (pRasterDescriptor->getColumnSkipFactor() > 0)
{
errorMessage = "Column skip factors are not supported.";
mValidationError = NO_COLUMN_SKIP_FACTOR;
return false;
}
}
// Subsets
if (validationTest & NO_ROW_SUBSETS)
{
if (pRasterDescriptor->getRowCount() != pRasterFileDescriptor->getRowCount())
{
errorMessage = "Row subsets are not supported.";
mValidationError = NO_ROW_SUBSETS;
return false;
}
}
if (validationTest & NO_COLUMN_SUBSETS)
{
if (pRasterDescriptor->getColumnCount() != pRasterFileDescriptor->getColumnCount())
{
errorMessage = "Column subsets are not supported.";
mValidationError = NO_COLUMN_SUBSETS;
return false;
}
}
if (validationTest & NO_BAND_SUBSETS)
{
if (pRasterDescriptor->getBandCount() != pRasterFileDescriptor->getBandCount())
{
errorMessage = "Band subsets are not supported.";
mValidationError = NO_BAND_SUBSETS;
return false;
}
}
// Available memory
if (validationTest & AVAILABLE_MEMORY)
{
unsigned int loadedRows = pRasterDescriptor->getRowCount();
unsigned int loadedColumns = pRasterDescriptor->getColumnCount();
unsigned int loadedBands = pRasterDescriptor->getBandCount();
unsigned int bytesPerElement = pRasterDescriptor->getBytesPerElement();
uint64_t dataSize = loadedRows * loadedColumns * loadedBands * bytesPerElement;
uint64_t maxMemoryAvail = pUtilities->getMaxMemoryBlockSize();
#if PTR_SIZE > 4
uint64_t totalRam = pUtilities->getTotalPhysicalMemory();
if (totalRam < maxMemoryAvail)
{
maxMemoryAvail = totalRam;
}
#endif
if (dataSize > maxMemoryAvail)
{
errorMessage = "The data set cannot be loaded into memory. Use a different "
"processing location or specify a subset.";
mValidationError = AVAILABLE_MEMORY;
return false;
}
}
return true;
}
