External interfaces, classes, functions and structs are found in the namespace "libCZI". More...

Classes
struct	AddAttachmentInfo
	This struct describes an attachment to be added to a CZI-file. More...

struct	AddSubBlockInfo

struct	AddSubBlockInfoBase
	Information about a subblock. More...

struct	AddSubBlockInfoLinewiseBitmap

struct	AddSubBlockInfoMemPtr

struct	AddSubBlockInfoStridedBitmap

struct	AttachmentInfo
	Information about an attachment. More...

struct	BitmapLockInfo
	Information about a locked bitmap - allowing direct access to the image data in memory. More...

struct	BoundingBoxes
	This structure gathers the bounding-boxes determined from all sub-blocks and only be those on pyramid-layer 0. More...

struct	BuildInformation

class	CCziReaderWriterInfo
	An implementation of the ICziReaderWriterInfo-interface. More...

class	CCziWriterInfo
	An implementation of the ICziWriterInfo-interface. More...

class	CDimBase
	Base class containing some commonly used methods. More...

class	CDimBounds
	Implementation of a class representing an interval (and implementing the `libCZI::IDimBounds`-interface). More...

class	CDimCoordinate
	Implementation of a class representing a coordinate (and implementing the `IDimCoordinate`-interface). More...

struct	ChannelDisplaySettingsPOD

class	Compositors
	Composition operations are found in this class: multi-tile compositor and multi-channel compositor. More...

struct	CompressParameter
	Simple variant type used for the compression-parameters-property-bag. More...

class	CompressParametersOnMap

struct	CustomValueVariant
	Variant for CustomValue. More...

struct	CZIWriterOptions

struct	DblRect
	A rectangle (with double coordinates). More...

struct	DimensionAndStartSize
	A structure combining a dimension and an interval (defined by a start value and the size). More...

struct	DimensionAndValue
	A structure combining a dimension and a value. More...

struct	DirectorySubBlockInfo

struct	DisplaySettingsPOD

struct	FileHeaderInfo
	Global information about the CZI-file (from the CZI-fileheader-segment). More...

struct	GeneralDocumentInfo
	General document information - corresponding to Information/Document. More...

struct	GUID
	Represents a globally unique identifier (GUID) consisting of four unsigned 32-bit integers. More...

class	IAccessor
	The base interface (all accessor-interface must derive from this). More...

class	IAttachment
	Representation of an attachment. An attachment is a binary blob, its inner structure is opaque. More...

class	IAttachmentRepository
	Interface for the attachment repository. This interface is used to access the attachments in a CZI-file. More...

class	IAttributeId
	This interface is used for all elements that contain an 'id' (as XML-attribute). More...

class	IAttributeName
	This interface is used for all elements that contain a 'name' (as XML-attribute). More...

class	IBitmapData

class	IChannelDisplaySetting
	The display-settings for a channel. More...

class	ICompressParameters

class	ICziMetadata
	Representation of the CZI-metadata. More...

class	ICziMetadataBuilder
	A utility class intended for constructing CZI-metadata. More...

class	ICziMultiDimensionDocumentInfo
	The top-level interface for the CZI-metadata object. More...

class	ICZIReader

class	ICziReaderWriter

class	ICziReaderWriterInfo
	Options for the CziReaderWriter. More...

class	ICziWriter

class	ICziWriterInfo
	The options for the CZI-writer. More...

class	IDecoder
	The interface used for operating image decoder. That is the simplest possible interface at this point... More...

class	IDimBounds
	Interface used to represent an interval (for several dimensions). More...

class	IDimCoordinate
	Interface used to represent a coordinate (in the space of the dimensions identified by `DimensionIndex`). More...

class	IDimensionChannelAiryscanSettings
	The airy scan settings. More...

class	IDimensionChannelDetectorSettings
	The detector settings. More...

class	IDimensionChannelInfo
	Information about the dimension "channel". More...

class	IDimensionChannelLaserScanInfo
	Information about the laser scan. More...

class	IDimensionChannelLightPath
	The light path information. More...

class	IDimensionChannelLightSourcesSetting
	The light sources settings. More...

class	IDimensionChannelLightSourcesSettings
	The light sources settings keyed by channel index. More...

class	IDimensionChannelPolarizingSettings
	The polarizer settings. More...

class	IDimensionChannelRatio
	Information about the channel ratio. More...

class	IDimensionChannelSIMSettings
	The SIM (Structured Illumination Microscopy) settings. More...

class	IDimensionChannelSPIMDetectionSettings
	The SPIM detection settings. More...

class	IDimensionChannelSPIMIlluminationSettings
	The SPIM illumination settings. More...

class	IDimensionInfo
	Base class for information about the dimension. More...

class	IDimensionsChannelsInfo
	Information about the set of channels. More...

class	IDimensionTInfo
	This structure defines the information for the "T-dimension". It resembles the ZEN-metadata-structure "Dimensions/T". More...

class	IDimensionZInfo
	This structure defines the information for the "Z-dimension". It resembles the ZEN-metadata-structure "Dimensions/Z". More...

class	IDisplaySettings
	The display settings. More...

class	IFastAiryScanSettings
	The fast airy scan settings. More...

class	IIndexSet

class	IInputOutputStream
	Interface for a read-write-stream. More...

class	IInstrumentObjectiveSettings
	The objective settings. More...

class	IMemoryBlock
	Interface representing a "block of memory". It is used to hold the result of a compression-operation. More...

class	IMetadataSegment
	Interface representing the metadata-segment. More...

struct	IntPoint
	A point (with integer coordinates). More...

struct	IntPointAndFrameOfReference
	This structure combines a point with a specification of the frame of reference. More...

struct	IntRect
	A rectangle (with integer coordinates). More...

struct	IntRectAndFrameOfReference
	This structure combines a rectangle with a specification of the frame of reference. More...

struct	IntSize
	A structure representing a size (width and height) in integers. More...

class	IOutputStream

class	ISingleChannelPyramidLayerTileAccessor

class	ISingleChannelScalingTileAccessor

class	ISingleChannelTileAccessor

class	ISite

class	ISPIMIlluminationGalvoScannerSettings
	The settings of the SPIM galvo scanner. More...

class	ISPIMIlluminationResonanceScannerSettings
	The SPIM illumination resonance scanner settings. More...

class	IStream

class	ISubBlock

class	ISubBlockCache

class	ISubBlockCacheControl
	This interface defines the global operations on the cache. It is used to control the memory usage of the cache. More...

class	ISubBlockCacheOperation
	This interface defines the operations of adding and querying an element to/from the cache. More...

class	ISubBlockCacheStatistics
	This interface defines how status information about the cache-state can be queried. More...

class	ISubBlockRepository
	Interface for sub-block repository. This interface is used to access the sub-blocks in a CZI-file. More...

class	ISubBlockRepositoryEx
	Additional functionality for the subblock-repository, providing some specialized and not commonly used functionality. More...

class	IXmlNodeRead
	This interface provides read-only access to an XML-node. More...

class	IXmlNodeRw
	This interface combines read- and write-access for an XML-node. More...

class	IXmlNodeWrite
	This interface provides write access to an XML-node. More...

class	JxrLibCompress

class	LibCZIAccessorException
	Exception for signaling errors specific for accessors. More...

struct	LibCZICZIParseException
	Exception for signaling errors parsing the CZI-stream. More...

class	LibCZIException
	Base class for all libCZI-specific exceptions. More...

struct	LibCZIInvalidPlaneCoordinateException
	Exception for signaling an incorrect plane-coordinate object. More...

class	LibCZIIOException

class	LibCZIMetadataBuilderException
	Exception for signaling errors when using the Czi-metadata-builder-object. More...

class	LibCZIMetadataException
	Exception for signaling errors when accessing the XML-metadata (. More...

class	LibCZIReaderWriteException
	Exception for signaling errors when using the CziReaderWriter-object. More...

struct	LibCZISegmentNotPresent

class	LibCZIStringParseException
	Exception for signaling that a string did not parse correctly. More...

class	LibCZIWriteException
	Exception for signaling errors when using the CziWriter-object. More...

class	LibCZIXmlParseException
	Exception for signaling errors when parsing the XML-metadata. More...

class	MetadataUtils
	Helper functions useful for constructing CZI-metadata. More...

struct	PrepareMetadataInfo
	Information which is used to construct the metadata-preparation. More...

struct	PyramidStatistics
	Statistics about the pyramid-layers. More...

struct	RangeOrSingleValue
	This struct represents either a single value or a range. More...

struct	Rgb8Color
	A structure representing an R-G-B-color triple (as bytes). More...

struct	RgbFloatColor
	A structure representing an R-G-B-color triple (as floats). More...

struct	ScalingInfo
	Scaling information - gives the size of a pixel. More...

struct	ScalingInfoEx

class	ScopedBitmapLocker

struct	SpectrumCharacteristics
	Structure used to describe the spectral characteristic of light. More...

class	StreamsFactory

struct	SubBlockInfo
	Information about a sub-block. More...

struct	SubBlockStatistics
	Statistics about all sub-blocks found in a CZI-document. More...

class	Utils
	A bunch of utility functions. More...

struct	WriteMetadataInfo
	This struct defines the data to be added as metadata-segment. Unused entries (e. g. no attachment) must have a size of 0. More...

struct	XmlDateTime
	This structure specifies the information in an XSD-DateTime field (cf. https://www.w3schools.com/XML/schema_dtypes_date.asp). More...

class	ZstdCompress

Typedefs
typedef ScopedBitmapLocker< IBitmapData * >	ScopedBitmapLockerP
	Defines an alias representing the scoped bitmap locker for use with libCZI::IBitmapData.

typedef ScopedBitmapLocker< std::shared_ptr< IBitmapData > >	ScopedBitmapLockerSP
	Defines an alias representing the scoped bitmap locker for use with a shared_ptr of type libCZI::IBitmapData.

Enumerations
enum class	SiteObjectType { Default , WithJxrDecoder , WithWICDecoder }

enum class	AccessorType : std::uint8_t { SingleChannelTileAccessor , SingleChannelPyramidLayerTileAccessor , SingleChannelScalingTileAccessor }
	Values that represent the accessor types. More...

enum class	DimensionIndex : std::uint8_t { invalid = 0 , MinDim = 1 , Z = 1 , C = 2 , T = 3 , R = 4 , S = 5 , I = 6 , H = 7 , V = 8 , B = 9 , MaxDim = 9 }
	Values that represent dimension indexes. More...

enum class	DimensionChannelChannelType : std::uint8_t { Heightmap , PalHR , PalWidefield , SimHR , SimWidefield , SimDWF , AiryScanSum , AiryScanRawSr , AiryScanRaw , AiryScanSr , AiryScanVp , AiryScanMb , AiryScanRingSheppardSum , OnlineUnmixing , Unspecified }

enum class	DimensionChannelAcquisitionMode : std::uint8_t { WideField , LaserScanningConfocalMicroscopy , SpinningDiskConfocal , SlitScanConfocal , MultiPhotonMicroscopy , StructuredIllumination , SingleMoleculeImaging , TotalInternalReflection , FluorescenceLifetime , SpectralImaging , FluorescenceCorrelationSpectroscopy , NearFieldScanningOpticalMicroscopy , SecondHarmonicGenerationImaging , PALM , STORM , STED , TIRF , FSM , LCM , SPIM , SEM , FIB , FIB_SEM , ApertureCorrelation , Other }

enum class	DimensionChannelIlluminationType : std::uint8_t { Transmitted , Epifluorescence , Oblique , NonLinear , Other }
	Values that represent the method of illumination used to acquire the channel. More...

enum class	DimensionChannelContrastMethod : std::uint8_t { Brightfield , Phase , DIC , HoffmanModulation , ObliqueIllumination , PolarizedLight , Darkfield , Fluorescence , MultiPhotonFluorescence , Other }
	Values that represent a contrast method, a technique used to achieve contrast, for the images in a channel. More...

enum class	DimensionChannelPinholeGeometry : std::uint8_t { Circular , Rectangular , Other }
	Values that represent the pinhole geometry. More...

enum class	ChannelDetectorSettingsBinning : std::uint8_t { _1x1 , _2x2 , _4x4 , _8x8 , Other }
	Values that represent the binning mode of a detector. More...

enum class	ChannelDetectorSettingsShutter : std::uint8_t { Rolling , Global , Other }
	Values that represent the behavior of the shutter. More...

enum class	ChannelDetectorCameraProcessingMode : std::uint8_t { None , Widefield , Sectioned , RawDataMode }
	Values that represent the detector processing mode. More...

enum class	DimensionChannelLaserScanScanningMode : std::uint8_t { Frame , FastFrame , LineSequential , Line , Spot , Other }
	Values that represent the laser scanning mode. More...

enum class	DimensionChannelLaserScanScanDirection : std::uint8_t { Bidirectional , Unidirectional }
	Values that represent the laser scan direction. More...

enum class	DimensionChannelLaserScanAveragingMethod : std::uint8_t { Mean , Sum , Other }
	Values that represent the laser scan averaging methods. More...

enum class	DimensionChannelLaserScanAveragingMode : std::uint8_t { Frame , Line , Other }
	Values that represent the laser scan averaging mode. More...

enum class	DimensionChannelLaserScanLaserAttenuatorState : std::uint8_t { On , Off }
	Values that represent the channel laser scan laser attenuator state. More...

enum class	DimensionChannelSPIMIlluminationSettingsBeamType : std::uint8_t { Gauss , Bessel , Other }
	Values that represent the beam type for SPIM illumination. More...

enum class	CZIFrameOfReference : std::uint8_t { Invalid , Default , RawSubBlockCoordinateSystem , PixelCoordinateSystem }
	Values that represent different frame of reference. More...

enum class	PixelType : std::uint8_t { Invalid = 0xff , Gray8 = 0 , Gray16 = 1 , Gray32Float = 2 , Bgr24 = 3 , Bgr48 = 4 , Bgr96Float = 8 , Bgra32 = 9 , Gray64ComplexFloat = 10 , Bgr192ComplexFloat = 11 , Gray32 = 12 , Gray64Float = 13 }
	An enum representing a pixel-type. More...

enum class	CompressionMode : std::uint8_t { Invalid = 0xff , UnCompressed = 0 , Jpg = 1 , JpgXr = 4 , Zstd0 = 5 , Zstd1 = 6 }
	An enum specifying the compression method. More...

enum class	SubBlockPyramidType : std::uint8_t { Invalid = 0xff , None = 0 , SingleSubBlock = 1 , MultiSubBlock = 2 }

enum class	ImageDecoderType { JPXR_JxrLib , ZStd0 , ZStd1 }

enum class	CompressionParameterKey { ZSTD_RAWCOMPRESSIONLEVEL = 1 , ZSTD_PREPROCESS_DOLOHIBYTEPACKING = 2 , JXRLIB_QUALITY = 3 }

Functions
LIBCZI_API ISite *	GetDefaultSiteObject (libCZI::SiteObjectType type)

LIBCZI_API void	SetSiteObject (libCZI::ISite *pSite)

LIBCZI_API void	GetLibCZIVersion (int pMajor, int pMinor=nullptr, int pPatch=nullptr, int pTweak=nullptr)

LIBCZI_API void	GetLibCZIBuildInformation (BuildInformation &info)

LIBCZI_API std::shared_ptr< ICZIReader >	CreateCZIReader ()

LIBCZI_API std::shared_ptr< ICziWriter >	CreateCZIWriter (const CZIWriterOptions *options=nullptr)

LIBCZI_API std::shared_ptr< ICziReaderWriter >	CreateCZIReaderWriter ()

LIBCZI_API std::shared_ptr< IBitmapData >	CreateBitmapFromSubBlock (ISubBlock *subBlk)

LIBCZI_API std::shared_ptr< ICziMetadata >	CreateMetaFromMetadataSegment (IMetadataSegment *metadataSegment)

LIBCZI_API std::shared_ptr< IAccessor >	CreateAccesor (std::shared_ptr< ISubBlockRepository > repository, AccessorType accessorType)

LIBCZI_API std::shared_ptr< IStream >	CreateStreamFromFile (const wchar_t *szFilename)

LIBCZI_API std::shared_ptr< IStream >	CreateStreamFromMemory (std::shared_ptr< const void > ptr, size_t dataSize)

LIBCZI_API std::shared_ptr< IStream >	CreateStreamFromMemory (IAttachment *attachment)

LIBCZI_API std::shared_ptr< IOutputStream >	CreateOutputStreamForFile (const wchar_t *szFilename, bool overwriteExisting)

LIBCZI_API std::shared_ptr< IInputOutputStream >	CreateInputOutputStreamForFile (const wchar_t *szFilename)

LIBCZI_API std::shared_ptr< ICziMetadataBuilder >	CreateMetadataBuilder ()

LIBCZI_API std::shared_ptr< ISubBlockCache >	CreateSubBlockCache ()

LIBCZI_API std::shared_ptr< ICziMetadataBuilder >	CreateMetadataBuilderFromXml (const std::string &xml)

std::ostream &	operator<< (std::ostream &os, const IntRect &rect)

std::ostream &	operator<< (std::ostream &os, const IntSize &size)

Variables
const int	LOGLEVEL_CATASTROPHICERROR = 0
	Identifies a catastrophic error (i. e. the program cannot continue).

const int	LOGLEVEL_ERROR = 1
	Identifies a non-recoverable error.

const int	LOGLEVEL_SEVEREWARNING = 2
	Identifies that a severe problem has occured. Proper operation of the module is not ensured.

const int	LOGLEVEL_WARNING = 3
	Identifies that a problem has been identified. It is likely that proper operation can be kept up.

const int	LOGLEVEL_INFORMATION = 4
	Identifies an informational output. It has no impact on the proper operation.

const int	LOGLEVEL_CHATTYINFORMATION = 5
	Identifies an informational output which has no impact on proper operation. Use this for output which may occur with high frequency.

Detailed Description

External interfaces, classes, functions and structs are found in the namespace "libCZI".

Enumeration Type Documentation

◆ AccessorType

enum class libCZI::AccessorType : std::uint8_t

strong

Values that represent the accessor types.

Enumerator
SingleChannelTileAccessor	The single-channel-tile accessor (associated interface: ISingleChannelTileAccessor).
SingleChannelPyramidLayerTileAccessor	The single-channel-pyramid-layer-tile accessor (associated interface: ISingleChannelPyramidLayerTileAccessor).
SingleChannelScalingTileAccessor	The scaling-single-channel-tile accessor (associated interface: ISingleChannelScalingTileAccessor).

◆ ChannelDetectorCameraProcessingMode

enum class libCZI::ChannelDetectorCameraProcessingMode : std::uint8_t

strong

Values that represent the detector processing mode.

Enumerator
None	No camera processing was used.
Widefield	Widefield processing mode was used.
Sectioned	Sectioned processing mode was used.
RawDataMode	Raw data mode was used.

◆ ChannelDetectorSettingsBinning

enum class libCZI::ChannelDetectorSettingsBinning : std::uint8_t

strong

Values that represent the binning mode of a detector.

Enumerator
_1x1	1x1 pixels are used (i.e. no binning).
_2x2	2x2 pixels are used.
_4x4	4x4 pixels are used.
_8x8	8x8 pixels are used.
Other	Some other binning was used.

◆ ChannelDetectorSettingsShutter

enum class libCZI::ChannelDetectorSettingsShutter : std::uint8_t

strong

Values that represent the behavior of the shutter.

Enumerator
Rolling	A rolling shutter mode was used.
Global	A global shutter mode was used.
Other	Some other shutter mode was used.

◆ CompressionMode

enum class libCZI::CompressionMode : std::uint8_t

strong

An enum specifying the compression method.

Enumerator
Invalid	Invalid compression type.
UnCompressed	The data is uncompressed.
Jpg	The data is JPG-compressed.
JpgXr	The data is JPG-XR-compressed.
Zstd0	The data is compressed with zstd.
Zstd1	The data contains a header, followed by a zstd-compressed block.

◆ CompressionParameterKey

enum class libCZI::CompressionParameterKey

strong

Values that represent well-known keys for the compression-parameters property bag. Note that the property-bag API is modeled with an int as key, which is by intention in order to allow for private keys.

Enumerator
ZSTD_RAWCOMPRESSIONLEVEL	This gives the "raw" zstd compression level aka "ExplicitLevel" (type: int32). If value is out-of-range, it will be clipped. This parameter is used with "zstd0" and "zstd1" compression schemes.
ZSTD_PREPROCESS_DOLOHIBYTEPACKING	Whether to do the "lo-hi-byte-packing" preprocessing (type: boolean). This parameter is used with the "zstd1" compression scheme only.
JXRLIB_QUALITY	The quality parameter for the jxrlib encoder (type: uint32). The range is from 0 to 1000, where 1000 gives the best quality (i.e. loss-less compression). This parameter is used with the "jxrlib" compression scheme only. If value is out-of-range, it will be clipped.

◆ CZIFrameOfReference

enum class libCZI::CZIFrameOfReference : std::uint8_t

strong

Values that represent different frame of reference.

Enumerator
Invalid	Invalid frame of reference.
Default	The default frame of reference.
RawSubBlockCoordinateSystem	The raw sub-block coordinate system.
PixelCoordinateSystem	The pixel coordinate system.

◆ DimensionChannelAcquisitionMode

enum class libCZI::DimensionChannelAcquisitionMode : std::uint8_t

strong

Values that represent the acquisition mode of a channel. The acquisition mode describes the type of microscopy performed for each channel.

Enumerator
WideField	The channel contains images from wide field microscopy.
LaserScanningConfocalMicroscopy	The channel contains images from laser-scanning-confocal microscopy.
SpinningDiskConfocal	The channel contains images from a confocal spinning-disk system.
SlitScanConfocal	Unknown denotation.
MultiPhotonMicroscopy	The channel contains images an image from a multi-photon-microscopy system.
StructuredIllumination	The channel contains images from structured-illumination microscopy system.
SingleMoleculeImaging	meaning unknown
TotalInternalReflection	The channel contains images from a TIRF microscopy system.
FluorescenceLifetime	Unknown denotation.
SpectralImaging	Unknown denotation.
FluorescenceCorrelationSpectroscopy	Unknown denotation.
NearFieldScanningOpticalMicroscopy	Unknown denotation.
SecondHarmonicGenerationImaging	The channel contains images from Second harmonic imaging microscopy (SHIM).
PALM	The channel contains images from photo-activation localization microscopy.
STORM	The channel contains images from stochastic optical reconstruction microscopy.
STED	The channel contains images from stimulated emission depletion microscopy.
TIRF	The channel contains images from total internal reflection fluorescence (TIRFM).
FSM	The channel contains images from Fluorescence speckle microscopy.
LCM	The channel contains images from laser capture micro dissection.
SPIM	The channel contains images from selective-plane-illumination microscopy.
SEM	The channel contains images from scanning electron microscopy.
FIB	The channel contains images from focus ion beam microscopy.
FIB_SEM	The channel contains images from focus ion beam and scanning electron microscopy.
ApertureCorrelation	The channel contains image from aperture correlation (a specific application of Structured Illumination).
Other	Some other type of image formation.

◆ DimensionChannelChannelType

enum class libCZI::DimensionChannelChannelType : std::uint8_t

strong

Values that represent the type of a channel. This field (in a sense) has the highest precedence when determining/assigning the microscopy method how a channel was acquired. Usually, the AcquisitionMode-field is used to give an indication which microscopy method was used. But if this field "ChannelType" is present, it has higher precedence - i.e. it should be checked first.

Enumerator
Heightmap	This channel represents a heightmap. Note that additional restrictions apply when declaring a channel as heightmap.
PalHR	Unknown denotation.
PalWidefield	Unknown denotation.
SimHR	Unknown denotation.
SimWidefield	Unknown denotation.
SimDWF	Unknown denotation.
AiryScanSum	This channel contains a processed (combined) super-resolution from an Airy-scan-acquisition in draft quality.
AiryScanRawSr	This channel contains the images of all sensors in the Airy-Scan-sensor-array.
AiryScanRaw	This channel contains the images of all sensors in the Airy-Scan-sensor-array.
AiryScanSr	This channel contains the (processed) super-resolution image.
AiryScanVp	This channel contains the (processed) "virtual pinhole" image.
AiryScanMb	This channel contains the (processed) "multi-beam" image.
AiryScanRingSheppardSum	This channel contains the Sheppard-sum created from 4 fiber-rings.
OnlineUnmixing	This channel contains the result of an online unmixing acquisition with a laser-scanning microscope.
Unspecified	Unspecified type.

◆ DimensionChannelContrastMethod

enum class libCZI::DimensionChannelContrastMethod : std::uint8_t

strong

Values that represent a contrast method, a technique used to achieve contrast, for the images in a channel.

Enumerator
Brightfield	Bright filed micrsocopy was used.
Phase	Unknown denotation.
DIC	Differential Interference Contrast was used.
HoffmanModulation	Hoffman Modulation Contrast (HMC) was used.
ObliqueIllumination	Oblique illumination was used.
PolarizedLight	Polarization microscopy was used.
Darkfield	Dark Field Imaging was used.
Fluorescence	Fluorescence microscopy was used.
MultiPhotonFluorescence	Multi-photon excitation was employed.
Other	Some other contrast method was used.

◆ DimensionChannelIlluminationType

enum class libCZI::DimensionChannelIlluminationType : std::uint8_t

strong

Values that represent the method of illumination used to acquire the channel.

Enumerator
Transmitted	Transmitted light was used.
Epifluorescence	Objective was used to bring light to the specimen.
Oblique	Oblique light was used.
NonLinear	Unknown denotation.
Other	Some other type of illumination was used.

◆ DimensionChannelLaserScanAveragingMethod

enum class libCZI::DimensionChannelLaserScanAveragingMethod : std::uint8_t

strong

Values that represent the laser scan averaging methods.

Enumerator
Mean	An enum constant representing the mean laser scan averaging method.
Sum	An enum constant representing the sum laser scan averaging method.
Other	An enum constant representing that some other averaging method was used.

◆ DimensionChannelLaserScanAveragingMode

enum class libCZI::DimensionChannelLaserScanAveragingMode : std::uint8_t

strong

Values that represent the laser scan averaging mode.

Enumerator
Frame	An enum constant representing the frame laser scan averaging mode.
Line	An enum constant representing the line laser scan averaging mode.
Other	An enum constant representing that some other line laser scan averaging mode was used.

◆ DimensionChannelLaserScanLaserAttenuatorState

enum class libCZI::DimensionChannelLaserScanLaserAttenuatorState : std::uint8_t

strong

Values that represent the channel laser scan laser attenuator state.

Enumerator
On	An enum constant representing the on option.
Off	An enum constant representing the off option.

◆ DimensionChannelLaserScanScanDirection

enum class libCZI::DimensionChannelLaserScanScanDirection : std::uint8_t

strong

Values that represent the laser scan direction.

Enumerator
Bidirectional	An enum constant representing the bidirectional scan direction.
Unidirectional	An enum constant representing the unidirectional scan direction.

◆ DimensionChannelLaserScanScanningMode

enum class libCZI::DimensionChannelLaserScanScanningMode : std::uint8_t

strong

Values that represent the laser scanning mode.

Enumerator
Frame	An enum constant representing the frame scanning mode.
FastFrame	An enum constant representing the fast frame scanning mode.
LineSequential	An enum constant representing the line sequential scanning mode.
Line	An enum constant representing the line scanning mode.
Spot	An enum constant representing the spot scanning mode.
Other	An enum constant representing some other scanning mode was used.

◆ DimensionChannelPinholeGeometry

enum class libCZI::DimensionChannelPinholeGeometry : std::uint8_t

strong

Values that represent the pinhole geometry.

Enumerator
Circular	An enum constant representing a circular pinhole.
Rectangular	An enum constant representing a rectangular pinhole.
Other	An enum constant representing "some other geometry".

◆ DimensionChannelSPIMIlluminationSettingsBeamType

enum class libCZI::DimensionChannelSPIMIlluminationSettingsBeamType : std::uint8_t

strong

Values that represent the beam type for SPIM illumination.

Enumerator
Gauss	An enum constant representing the Gauss beam type.
Bessel	An enum constant representing the Bessel beam type.
Other	An enum constant representing some other beam type.

◆ DimensionIndex

enum class libCZI::DimensionIndex : std::uint8_t

strong

Values that represent dimension indexes.

Enumerator
invalid	Invalid dimension index.
MinDim	This enum must be have the value of the lowest (valid) dimension index.
Z	The Z-dimension.
C	The C-dimension ("channel").
T	The T-dimension ("time").
R	The R-dimension ("rotation").
S	The S-dimension ("scene").
I	The I-dimension ("illumination").
H	The H-dimension ("phase").
V	The V-dimension ("view").
B	The B-dimension ("block") - its use is deprecated.
MaxDim	This enum must be have the value of the highest (valid) dimension index.

◆ ImageDecoderType

enum class libCZI::ImageDecoderType

strong

Values that represent image decoder types - used for distinguishing decoder objects created by ISite::GetDecoder.

Enumerator
JPXR_JxrLib	Identifies an decoder capable of decoding a JPG-XR compressed image.
ZStd0	Identifies a decoder capable of decoding a zstd compressed image (type "zstd0").
ZStd1	Identifies a decoder capable of decoding a zstd compressed image (type "zstd1").

◆ PixelType

enum class libCZI::PixelType : std::uint8_t

strong

An enum representing a pixel-type.

Enumerator
Invalid	Invalid pixel type.
Gray8	Grayscale 8-bit unsigned.
Gray16	Grayscale 16-bit unsigned.
Gray32Float	Grayscale 4 byte float.
Bgr24	BGR-color 8-bytes triples (memory order B, G, R).
Bgr48	BGR-color 16-bytes triples (memory order B, G, R).
Bgr96Float	BGR-color 4 byte float triples (memory order B, G, R).
Bgra32	Currently not supported in libCZI.
Gray64ComplexFloat	Currently not supported in libCZI.
Bgr192ComplexFloat	Currently not supported in libCZI.
Gray32	Currently not supported in libCZI.
Gray64Float	Currently not supported in libCZI.

◆ SiteObjectType

enum class libCZI::SiteObjectType

strong

Values that represent site-object-types. On Windows, we provide one Site-object that uses the WIC-codec and one that uses an internal JPEG-XR decoder (JXRLib).

Enumerator
Default	An enum constant representing the default option (which is JXRLib)
WithJxrDecoder	An enum constant representing a Site-object using the internal JXRLib.
WithWICDecoder	An enum constant representing a Site-object using the Windows WIC-codec. Note that this option is only available on Windows.

◆ SubBlockPyramidType

enum class libCZI::SubBlockPyramidType : std::uint8_t

strong

This enum is used in the context of a subblock to describe which "type of pyramid" is represented by the subblock. The significance and importance of this enum is not yet fully understood, and seems questionable. It is not recommended to make use of it at this point for any purposes.

Enumerator
Invalid	Invalid pyramid type.
None	No pyramid (indicating that the subblock is not a pyramid subblock, but a layer-0 subblock).
SingleSubBlock	The subblock is a pyramid subblock, and it covers a single subblock of the lower layer (or: it is a minification of a single lower-layer-subblock).
MultiSubBlock	The subblock is a pyramid subblock, and it covers multiple subblocks of the lower layer.

Function Documentation

◆ CreateAccesor()

LIBCZI_API std::shared_ptr< IAccessor > libCZI::CreateAccesor	(	std::shared_ptr< ISubBlockRepository >	repository,
		AccessorType	accessorType
	)

Creates an accessor of the specified type which uses the specified sub-block repository.

Parameters

repository	The sub-block repository.
accessorType	Type of the accessor.

Returns: The newly created accessor object.

◆ CreateBitmapFromSubBlock()

LIBCZI_API std::shared_ptr< IBitmapData > libCZI::CreateBitmapFromSubBlock ( ISubBlock * subBlk )

Creates bitmap from sub block.

Parameters

[in] subBlk The sub-block.

Returns: The newly allocated bitmap containing the image from the sub-block.

◆ CreateCZIReader()

LIBCZI_API std::shared_ptr< ICZIReader > libCZI::CreateCZIReader ( )

Creates a new instance of the CZI-reader class.

Returns: The newly created CZI-reader.

◆ CreateCZIReaderWriter()

LIBCZI_API std::shared_ptr< ICziReaderWriter > libCZI::CreateCZIReaderWriter ( )

Creates a new instance of the CZI-reader-writer class.

Returns: The newly created CZI-reader-writer.

◆ CreateCZIWriter()

LIBCZI_API std::shared_ptr< ICziWriter > libCZI::CreateCZIWriter ( const CZIWriterOptions * options = nullptr )

Creates a new instance of the CZI-writer class.

Parameters

options (Optional) Options for controlling the operation. This argument may be null, in which case default options are used.

Returns: The newly created CZI-writer.

◆ CreateInputOutputStreamForFile()

LIBCZI_API std::shared_ptr< IInputOutputStream > libCZI::CreateInputOutputStreamForFile ( const wchar_t * szFilename )

Creates an input-output-stream for the specified filename. A stock-implementation of a stream-object (for modifying a file from disk) is provided here. For a more specialized and tuned version, libCZI-users should consider implementing the interface "IInputOutputStream" in their own code.

Parameters

szFilename Filename of the file.

Returns: The newly created input-output-stream object for the file if successful.

◆ CreateMetadataBuilder()

LIBCZI_API std::shared_ptr< ICziMetadataBuilder > libCZI::CreateMetadataBuilder ( )

Creates a metadata-builder-object.

Returns: The newly created metadata-builder-object.

◆ CreateMetadataBuilderFromXml()

LIBCZI_API std::shared_ptr< ICziMetadataBuilder > libCZI::CreateMetadataBuilderFromXml ( const std::string & xml )

Creates metadata builder object from the specified UTF8-encoded XML-string. If the XML is invalid or if the root-node "ImageDocument" is not present, then an exception is thrown.

Parameters

xml	The UTF8-encoded XML string.

Returns: The newly created metadata-builder-object.

◆ CreateMetaFromMetadataSegment()

LIBCZI_API std::shared_ptr< ICziMetadata > libCZI::CreateMetaFromMetadataSegment ( IMetadataSegment * metadataSegment )

Creates metadata-object from a metadata segment.

Parameters

[in] metadataSegment The metadata segment object.

Returns: The newly created metadata object.

◆ CreateOutputStreamForFile()

LIBCZI_API std::shared_ptr< IOutputStream > libCZI::CreateOutputStreamForFile	(	const wchar_t *	szFilename,
		bool	overwriteExisting
	)

Creates an output-stream-object for the specified filename. A stock-implementation of a stream-object (for writing a file from disk) is provided here. For a more specialized and tuned version, libCZI-users should consider implementing the interface "IOutputStream" in their own code.

Parameters

szFilename	Filename of the file.
overwriteExisting	True if an existing file should be overwritten, false otherwise.

Returns: The new output-stream object.

◆ CreateStreamFromFile()

LIBCZI_API std::shared_ptr< IStream > libCZI::CreateStreamFromFile ( const wchar_t * szFilename )

Creates a stream-object for the specified file. A stock-implementation of a stream-object (for reading a file from disk) is provided here.

Parameters

szFilename Filename of the file.

Returns: The new stream object.

◆ CreateStreamFromMemory() [1/2]

LIBCZI_API std::shared_ptr< IStream > libCZI::CreateStreamFromMemory ( IAttachment * attachment )

Creates a stream-object on the memory-block in an attachment.

Parameters

attachment Pointer to attachment.

Returns: The new stream object.

◆ CreateStreamFromMemory() [2/2]

LIBCZI_API std::shared_ptr< IStream > libCZI::CreateStreamFromMemory	(	std::shared_ptr< const void >	ptr,
		size_t	dataSize
	)

Creates a stream-object on a memory-block.

Parameters

ptr	Shared pointer to a memory-block.
dataSize	Size of the memory-block.

Returns: The new stream object.

◆ CreateSubBlockCache()

LIBCZI_API std::shared_ptr< ISubBlockCache > libCZI::CreateSubBlockCache ( )

Creates a sub block cache object.

Returns: The newly created sub block cache.

◆ GetDefaultSiteObject()

LIBCZI_API ISite * libCZI::GetDefaultSiteObject ( libCZI::SiteObjectType type )

Gets one of the available Site-objects. The objects returned are static objects with an unbounded lifetime.

Parameters

type	The Site-object type.

Returns: nullptr if it fails, else the default site object (of the specified type).

◆ GetLibCZIBuildInformation()

LIBCZI_API void libCZI::GetLibCZIBuildInformation ( BuildInformation & info )

Gets information about the libCZI-library - e.g. how it was built.

Parameters

[out] info The information.

◆ GetLibCZIVersion()

LIBCZI_API void libCZI::GetLibCZIVersion	(	int *	pMajor,
		int *	pMinor = `nullptr`,
		int *	pPatch = `nullptr`,
		int *	pTweak = `nullptr`
	)

Gets the version of the library. For versioning libCZI, SemVer2 (https://semver.org/) is used. Note that the value of the tweak version number does not have a meaning (as far as SemVer2 is concerned).

Parameters

[out]	pMajor	If non-null, will receive the major version number.
[out]	pMinor	If non-null, will receive the minor version number.
[out]	pPatch	If non-null, will receive the patch version number.
[out]	pTweak	If non-null, will receive the tweak version number.

◆ operator<<() [1/2]

std::ostream & libCZI::operator<<	(	std::ostream &	os,
		const IntRect &	rect
	)

inline

Stream insertion operator for the libCZI::IntRect type. A string of the form '(x,y,width,height)' is output to the stream.

Parameters

[in]	os	The stream to output the rect to.
	rect	The rectangle.

Returns: The ostream object os.

◆ operator<<() [2/2]

std::ostream & libCZI::operator<<	(	std::ostream &	os,
		const IntSize &	size
	)

inline

Stream insertion operator for the libCZI::IntSize type. A string of the form '(width,height)' is output to the stream.

Parameters

[in]	os	The stream to output the size to.
	size	The size structure.

Returns: The ostream object os.

◆ SetSiteObject()

LIBCZI_API void libCZI::SetSiteObject ( libCZI::ISite * pSite )

Sets the global Site-object. This function must only be called once and before any other function in this library is called. The object passed in here must have a lifetime greater than any usage of the library. If no Site-object is set, then at first usage a default Site-object is created and used.

Parameters

[in] pSite The Site-object to use. It must not be nullptr.

Classes

Typedefs

Enumerations

Functions

Variables

Detailed Description

Enumeration Type Documentation

◆ AccessorType

◆ ChannelDetectorCameraProcessingMode

◆ ChannelDetectorSettingsBinning

◆ ChannelDetectorSettingsShutter

◆ CompressionMode

◆ CompressionParameterKey

◆ CZIFrameOfReference

◆ DimensionChannelAcquisitionMode

◆ DimensionChannelChannelType

◆ DimensionChannelContrastMethod

◆ DimensionChannelIlluminationType

◆ DimensionChannelLaserScanAveragingMethod

◆ DimensionChannelLaserScanAveragingMode

◆ DimensionChannelLaserScanLaserAttenuatorState

◆ DimensionChannelLaserScanScanDirection

◆ DimensionChannelLaserScanScanningMode

◆ DimensionChannelPinholeGeometry

◆ DimensionChannelSPIMIlluminationSettingsBeamType

◆ DimensionIndex

◆ ImageDecoderType

◆ PixelType

◆ SiteObjectType

◆ SubBlockPyramidType

Function Documentation

◆ CreateAccesor()

◆ CreateBitmapFromSubBlock()

◆ CreateCZIReader()

◆ CreateCZIReaderWriter()

◆ CreateCZIWriter()

◆ CreateInputOutputStreamForFile()

◆ CreateMetadataBuilder()

◆ CreateMetadataBuilderFromXml()

◆ CreateMetaFromMetadataSegment()

◆ CreateOutputStreamForFile()

◆ CreateStreamFromFile()

◆ CreateStreamFromMemory() [1/2]

◆ CreateStreamFromMemory() [2/2]

◆ CreateSubBlockCache()

◆ GetDefaultSiteObject()

◆ GetLibCZIBuildInformation()

◆ GetLibCZIVersion()

◆ operator<<() [1/2]

◆ operator<<() [2/2]

◆ SetSiteObject()