ome-files 0.2.2

ome::files::in::OMETIFFReader Member List

This is the complete list of members for ome::files::in::OMETIFFReader, including all inherited members.

addTIFF(const boost::filesystem::path &tiff) | ome::files::in::OMETIFFReader | protected
ome::assertId(const boost::optional< boost::filesystem::path > &id, bool notNull=true) | ome::files::FormatHandler | inlinestatic
ome::files::FormatHandler::assertId(const boost::optional< boost::filesystem::path > &id, bool notNull=true) | ome::files::FormatHandler | inlinestatic
cachedMetadata | ome::files::in::OMETIFFReader | mutableprotected
cachedMetadataFile | ome::files::in::OMETIFFReader | mutableprotected
cacheMetadata(const boost::filesystem::path &id) const | ome::files::in::OMETIFFReader | protected
CAN_GROUP enum value | ome::files::FormatReader |
CANNOT_GROUP enum value | ome::files::FormatReader |
ome::checkSuffix(const boost::filesystem::path &name, const boost::filesystem::path &suffix) | ome::files::FormatHandler | inlinestatic
ome::checkSuffix(const boost::filesystem::path &name, const std::vector< boost::filesystem::path > &suffixes) | ome::files::FormatHandler | inlinestatic
ome::checkSuffix(const boost::filesystem::path &name, const std::vector< boost::filesystem::path > &suffixes, const std::vector< boost::filesystem::path > &compression_suffixes) | ome::files::FormatHandler | inlinestatic
ome::files::FormatHandler::checkSuffix(const boost::filesystem::path &name, const boost::filesystem::path &suffix) | ome::files::FormatHandler | inlinestatic
ome::files::FormatHandler::checkSuffix(const boost::filesystem::path &name, const std::vector< boost::filesystem::path > &suffixes) | ome::files::FormatHandler | inlinestatic
ome::files::FormatHandler::checkSuffix(const boost::filesystem::path &name, const std::vector< boost::filesystem::path > &suffixes, const std::vector< boost::filesystem::path > &compression_suffixes) | ome::files::FormatHandler | inlinestatic
cleanMetadata(ome::xml::meta::OMEXMLMetadata &meta) | ome::files::in::OMETIFFReader | private
close(bool fileOnly=false) | ome::files::in::OMETIFFReader | virtual
closeTIFF(const boost::filesystem::path &tiff) | ome::files::in::OMETIFFReader | protected
companionFiles | ome::files::detail::FormatReader | protected
core | ome::files::detail::FormatReader | protected
coreIndex | ome::files::detail::FormatReader | mutableprotected
coreIndexToSeries(dimension_size_type index) const | ome::files::detail::FormatReader | virtual
coremetadata_list_type typedef | ome::files::detail::FormatReader | protected
currentId | ome::files::detail::FormatReader | protected
datasetDescription | ome::files::detail::FormatReader | protected
domains | ome::files::detail::FormatReader | protected
FileGroupOption enum name | ome::files::FormatReader |
fileGroupOption(const std::string &id) | ome::files::in::OMETIFFReader | virtual
files | ome::files::in::OMETIFFReader | protected
filterMetadata | ome::files::detail::FormatReader | protected
findUsedFiles(const ome::xml::meta::OMEXMLMetadata &meta, const boost::filesystem::path &currentId, const boost::filesystem::path &currentDir, const boost::optional< std::string > &currentUUID) | ome::files::in::OMETIFFReader | private
fixDimensions(ome::xml::meta::BaseMetadata::index_type series) | ome::files::in::OMETIFFReader | private
fixOMEROMetadata(ome::xml::meta::OMEXMLMetadata &meta, ome::xml::meta::BaseMetadata::index_type series) | ome::files::in::OMETIFFReader | private
flattenedResolutions | ome::files::detail::FormatReader | protected
ome::FormatHandler() | ome::files::FormatHandler | inlineprotected
ome::files::FormatHandler::FormatHandler() | ome::files::FormatHandler | inlineprotected
FormatReader(const ReaderProperties &) | ome::files::detail::FormatReader | protected
ome::files::FormatReader::FormatReader() | ome::files::FormatReader | inlineprotected
getAcquisitionDates(const ome::xml::meta::OMEXMLMetadata &meta, std::vector< boost::optional< ome::xml::model::primitives::Timestamp > > &timestamps) | ome::files::in::OMETIFFReader | private
getAdvancedSeriesUsedFiles(bool noPixels=false) const | ome::files::detail::FormatReader | virtual
getAdvancedUsedFiles(bool noPixels=false) const | ome::files::detail::FormatReader | virtual
getBitsPerPixel() const | ome::files::detail::FormatReader | virtual
getCompressionSuffixes() const | ome::files::detail::FormatReader | virtual
getCoreIndex() const | ome::files::detail::FormatReader | virtual
getCoreMetadata(dimension_size_type index) const | ome::files::detail::FormatReader | inlineprotected
getCoreMetadata(dimension_size_type index) | ome::files::detail::FormatReader | inlineprotected
getCoreMetadataList() const | ome::files::detail::FormatReader | virtual
getCurrentFile() const | ome::files::detail::FormatReader | virtual
getDatasetStructureDescription() const | ome::files::detail::FormatReader | virtual
getDimensionOrder() const | ome::files::detail::FormatReader | virtual
getDomains() const | ome::files::in::OMETIFFReader | virtual
getEffectiveSizeC() const | ome::files::detail::FormatReader | virtual
getFormat() const | ome::files::detail::FormatReader | virtual
getFormatDescription() const | ome::files::detail::FormatReader | virtual
getGlobalMetadata() const | ome::files::detail::FormatReader | virtual
getImageCount() const | ome::files::detail::FormatReader | virtual
getIndex(dimension_size_type z, dimension_size_type c, dimension_size_type t) const | ome::files::detail::FormatReader | virtual
getIndex(dimension_size_type z, dimension_size_type c, dimension_size_type t, dimension_size_type moduloZ, dimension_size_type moduloC, dimension_size_type moduloT) const | ome::files::detail::FormatReader | virtual
getLookupTable(dimension_size_type plane, VariantPixelBuffer &buf) const | ome::files::in::OMETIFFReader | protectedvirtual
getMetadataOptions() const | ome::files::detail::FormatReader | virtual
getMetadataOptions() | ome::files::detail::FormatReader | virtual
getMetadataStore() const | ome::files::detail::FormatReader | virtual
getMetadataStore() | ome::files::detail::FormatReader | virtual
getMetadataStoreForConversion() | ome::files::in::OMETIFFReader |
getMetadataStoreForDisplay() | ome::files::in::OMETIFFReader |
getMetadataValue(const std::string &field) const | ome::files::detail::FormatReader | virtual
getModuloC() | ome::files::detail::FormatReader | virtual
getModuloC() const | ome::files::detail::FormatReader | virtual
getModuloT() | ome::files::detail::FormatReader | virtual
getModuloT() const | ome::files::detail::FormatReader | virtual
getModuloZ() | ome::files::detail::FormatReader | virtual
getModuloZ() const | ome::files::detail::FormatReader | virtual
getOptimalTileHeight(dimension_size_type channel) const | ome::files::in::OMETIFFReader | virtual
ome::files::detail::FormatReader::getOptimalTileHeight() const | ome::files::detail::FormatReader | virtual
getOptimalTileWidth(dimension_size_type channel) const | ome::files::in::OMETIFFReader | virtual
ome::files::detail::FormatReader::getOptimalTileWidth() const | ome::files::detail::FormatReader | virtual
getPixelType() const | ome::files::detail::FormatReader | virtual
getPlane() const | ome::files::detail::FormatReader | virtual
getPossibleDomains(const std::string &id) const | ome::files::detail::FormatReader | virtual
getRequiredDirectories(const std::vector< std::string > &files) const | ome::files::detail::FormatReader | virtual
getResolution() const | ome::files::detail::FormatReader | virtual
getResolutionCount() const | ome::files::detail::FormatReader | virtual
getRGBChannelCount(dimension_size_type channel) const | ome::files::detail::FormatReader | virtual
getSeries() const | ome::files::detail::FormatReader | virtual
getSeriesCount() const | ome::files::detail::FormatReader | virtual
getSeriesMetadata() const | ome::files::detail::FormatReader | virtual
getSeriesMetadataValue(const MetadataMap::key_type &field) const | ome::files::detail::FormatReader | virtual
getSeriesUsedFiles(bool noPixels) const | ome::files::in::OMETIFFReader | virtual
getSizeC() const | ome::files::detail::FormatReader | virtual
getSizeT() const | ome::files::detail::FormatReader | virtual
getSizeX() const | ome::files::detail::FormatReader | virtual
getSizeY() const | ome::files::detail::FormatReader | virtual
getSizeZ() const | ome::files::detail::FormatReader | virtual
getSuffixes() const | ome::files::detail::FormatReader | virtual
getSupportedMetadataLevels() | ome::files::detail::FormatReader | virtual
getThumbSize() const | ome::files::detail::FormatReader | protected
getThumbSizeX() const | ome::files::detail::FormatReader | virtual
getThumbSizeY() const | ome::files::detail::FormatReader | virtual
getTIFF(const boost::filesystem::path &tiff) const | ome::files::in::OMETIFFReader | protected
getTiffDataValues(const ome::xml::meta::OMEXMLMetadata &meta, ome::xml::meta::BaseMetadata::index_type series, ome::xml::meta::BaseMetadata::index_type tiffData, boost::optional< ome::xml::model::primitives::NonNegativeInteger > &tdIFD, ome::xml::model::primitives::NonNegativeInteger &numPlanes, ome::xml::model::primitives::NonNegativeInteger &firstZ, ome::xml::model::primitives::NonNegativeInteger &firstT, ome::xml::model::primitives::NonNegativeInteger &firstC) | ome::files::in::OMETIFFReader | private
getUnderlyingReaders() const | ome::files::detail::FormatReader | virtual
getUsedFiles(bool noPixels=false) const | ome::files::detail::FormatReader | virtual
getZCTCoords(dimension_size_type index) const | ome::files::detail::FormatReader | virtual
getZCTModuloCoords(dimension_size_type index) const | ome::files::detail::FormatReader | virtual
group | ome::files::detail::FormatReader | protected
hasCompanionFiles() const | ome::files::detail::FormatReader | virtual
hasFlattenedResolutions() const | ome::files::detail::FormatReader | virtual
hasSPW | ome::files::in::OMETIFFReader | protected
ifdAtIndex(dimension_size_type plane) const | ome::files::in::OMETIFFReader | protected
in | ome::files::detail::FormatReader | protected
indexedAsRGB | ome::files::detail::FormatReader | protected
initFile(const boost::filesystem::path &id) | ome::files::in::OMETIFFReader | virtual
invalid_file_map typedef | ome::files::in::OMETIFFReader | protected
invalidFiles | ome::files::in::OMETIFFReader | protected
isFalseColor() const | ome::files::detail::FormatReader | virtual
isFilenameThisTypeImpl(const boost::filesystem::path &name) const | ome::files::in::OMETIFFReader | protectedvirtual
isGroupFiles() const | ome::files::detail::FormatReader | virtual
isIndexed() const | ome::files::detail::FormatReader | virtual
isInterleaved() const | ome::files::detail::FormatReader | virtual
isInterleaved(dimension_size_type subC) const | ome::files::detail::FormatReader | virtual
isLittleEndian() const | ome::files::detail::FormatReader | virtual
isMetadataComplete() const | ome::files::detail::FormatReader | virtual
isMetadataFiltered() const | ome::files::detail::FormatReader | virtual
isNormalized() const | ome::files::detail::FormatReader | virtual
isOrderCertain() const | ome::files::detail::FormatReader | virtual
isOriginalMetadataPopulated() const | ome::files::detail::FormatReader | virtual
isRGB(dimension_size_type channel) const | ome::files::detail::FormatReader | virtual
isSingleFile(const boost::filesystem::path &id) const | ome::files::in::OMETIFFReader | virtual
isStreamThisTypeImpl(std::istream &stream) const | ome::files::detail::FormatReader | protectedvirtual
isThisType(const boost::filesystem::path &name, bool open) const | ome::files::in::OMETIFFReader | virtual
ome::files::detail::FormatReader::isThisType(const uint8_t *begin, std::size_t length) const | ome::files::detail::FormatReader | virtual
ome::files::detail::FormatReader::isThisType(const uint8_t *begin, const uint8_t *end) const | ome::files::detail::FormatReader | virtual
ome::files::detail::FormatReader::isThisType(std::istream &stream) const | ome::files::detail::FormatReader | virtual
isThumbnailSeries() const | ome::files::detail::FormatReader | virtual
isUsedFile(const boost::filesystem::path &file) | ome::files::detail::FormatReader | protectedvirtual
logger | ome::files::in::OMETIFFReader | mutableprotected
makeFilterMetadata() | ome::files::detail::FormatReader | protectedvirtual
metadata | ome::files::detail::FormatReader | protected
MetadataConfigurable() | ome::files::MetadataConfigurable | protected
metadataFile | ome::files::in::OMETIFFReader | protected
metadataOptions | ome::files::detail::FormatReader | protected
metadataStore | ome::files::detail::FormatReader | protected
MUST_GROUP enum value | ome::files::FormatReader |
normalizeData | ome::files::detail::FormatReader | protected
OMETIFFReader() | ome::files::in::OMETIFFReader |
openBytes(dimension_size_type plane, VariantPixelBuffer &buf) const | ome::files::detail::FormatReader | virtual
openBytes(dimension_size_type plane, VariantPixelBuffer &buf, dimension_size_type x, dimension_size_type y, dimension_size_type w, dimension_size_type h) const | ome::files::detail::FormatReader | virtual
openBytesImpl(dimension_size_type plane, VariantPixelBuffer &buf, dimension_size_type x, dimension_size_type y, dimension_size_type w, dimension_size_type h) const | ome::files::in::OMETIFFReader | protectedvirtual
openThumbBytes(dimension_size_type plane, VariantPixelBuffer &buf) const | ome::files::detail::FormatReader | virtual
plane | ome::files::detail::FormatReader | mutableprotected
readerProperties | ome::files::detail::FormatReader | protected
readMetadata(const ome::files::tiff::TIFF &tiff) | ome::files::in::OMETIFFReader | protected
readMetadata(const boost::filesystem::path &id) | ome::files::in::OMETIFFReader | protected
readPlane(std::istream &source, VariantPixelBuffer &dest, dimension_size_type x, dimension_size_type y, dimension_size_type w, dimension_size_type h, dimension_size_type samples) | ome::files::detail::FormatReader | protectedvirtual
readPlane(std::istream &source, VariantPixelBuffer &dest, dimension_size_type x, dimension_size_type y, dimension_size_type w, dimension_size_type h, dimension_size_type scanlinePad, dimension_size_type samples) | ome::files::detail::FormatReader | protectedvirtual
resolution | ome::files::detail::FormatReader | mutableprotected
saveOriginalMetadata | ome::files::detail::FormatReader | protected
series | ome::files::detail::FormatReader | mutableprotected
seriesFileSamplesPerPixel(const ome::xml::meta::OMEXMLMetadata &meta, ome::xml::meta::BaseMetadata::index_type series) | ome::files::in::OMETIFFReader | private
seriesIndexStart(const ome::xml::meta::OMEXMLMetadata &meta, ome::xml::meta::BaseMetadata::index_type series, boost::optional< ome::xml::model::primitives::NonNegativeInteger > &zIndexStart, boost::optional< ome::xml::model::primitives::NonNegativeInteger > &tIndexStart, boost::optional< ome::xml::model::primitives::NonNegativeInteger > &cIndexStart) | ome::files::in::OMETIFFReader | private
seriesToCoreIndex(dimension_size_type series) const | ome::files::detail::FormatReader | virtual
setCoreIndex(dimension_size_type index) const | ome::files::detail::FormatReader | virtual
setFlattenedResolutions(bool flatten) | ome::files::detail::FormatReader | virtual
setGroupFiles(bool group) | ome::files::detail::FormatReader | virtual
setId(const boost::filesystem::path &id) | ome::files::detail::FormatReader | virtual
setMetadataFiltered(bool filter) | ome::files::detail::FormatReader | virtual
setMetadataOptions(const MetadataOptions &options) | ome::files::detail::FormatReader | virtual
setMetadataStore(ome::compat::shared_ptr< ::ome::xml::meta::MetadataStore > &store) | ome::files::detail::FormatReader | virtual
setNormalized(bool normalize) | ome::files::detail::FormatReader | virtual
setOriginalMetadataPopulated(bool populate) | ome::files::detail::FormatReader | virtual
setPlane(dimension_size_type plane) const | ome::files::detail::FormatReader | virtual
setResolution(dimension_size_type resolution) const | ome::files::detail::FormatReader | virtual
setSeries(dimension_size_type series) const | ome::files::detail::FormatReader | virtual
suffixNecessary | ome::files::detail::FormatReader | protected
suffixSufficient | ome::files::detail::FormatReader | protected
tiff_map typedef | ome::files::in::OMETIFFReader | protected
tiffs | ome::files::in::OMETIFFReader | mutableprotected
usedFiles | ome::files::in::OMETIFFReader | protected
uuid_file_map typedef | ome::files::in::OMETIFFReader | protected
validTIFF(const boost::filesystem::path &tiff) const | ome::files::in::OMETIFFReader | protected
~FormatHandler() | ome::files::FormatHandler | inlinevirtual
~FormatReader() | ome::files::detail::FormatReader | virtual
~MetadataConfigurable() | ome::files::MetadataConfigurable | virtual
~OMETIFFReader() | ome::files::in::OMETIFFReader | virtual