Uses of Class org.anchoranalysis.image.io.ImageIOException (anchor-image-io 0.2.1 API)

Packages that use ImageIOException
Package	Description
org.anchoranalysis.image.io.bean.stack.metadata.reader	Bean classes for reading `ImageMetadata` from the file-system.
org.anchoranalysis.image.io.bean.stack.reader	Bean classes for reading raster-files from the filesystem.
org.anchoranalysis.image.io.bean.stack.writer	Bean classes for writing raster-files to the filesystem.
org.anchoranalysis.image.io.channel.input	Non-bean classes for reading a `Channel` from the filesystem.
org.anchoranalysis.image.io.channel.map	Non-bean classes for a mapping of names to `Channel`s.
org.anchoranalysis.image.io.stack	Non-bean classes for reading / writing a `Stack` from and to the filesystem.
org.anchoranalysis.image.io.stack.input	Non-bean classes for reading a `Stack` from the filesystem.
org.anchoranalysis.image.io.stack.output.generator	Base classes for generators that ultimately write a `Stack` to the filesystem.

Uses of ImageIOException in org.anchoranalysis.image.io.bean.stack.metadata.reader

Methods in org.anchoranalysis.image.io.bean.stack.metadata.reader that throw ImageIOException
Modifier and Type	Method	Description
`ImageMetadata`	FromStackReader.`openFile(Path path, StackReader defaultStackReader, OperationContext context)`
`abstract ImageMetadata`	ImageMetadataReader.`openFile(Path path, StackReader defaultStackReader, OperationContext context)`	Opens a file containing one or more images but does not read an image.

Uses of ImageIOException in org.anchoranalysis.image.io.bean.stack.reader

Methods in org.anchoranalysis.image.io.bean.stack.reader that throw ImageIOException
Modifier and Type	Method	Description
`abstract OpenedImageFile`	StackReader.`openFile(Path path, ExecutionTimeRecorder executionTimeRecorder)`	Opens a file containing one or more images.
`abstract OpenedImageFile`	StackReaderOrientationCorrection.`openFile(Path path, CalculateOrientationChange orientationCorrection, ExecutionTimeRecorder executionTimeRecorder)`	Opens a file containing one or more images but does not read an image.
`Stack`	StackReader.`readStack(Path path, OperationContext context)`	Opens a file at `path` that should contain only a single-stack.

Uses of ImageIOException in org.anchoranalysis.image.io.bean.stack.writer

Methods in org.anchoranalysis.image.io.bean.stack.writer that return ImageIOException
Modifier and Type	Method	Description
`static <T extends StackWriter> ImageIOException`	WriterErrorMessageHelper.`generalWriteException(Class<T> writerClass, Path path, Exception cause)`	Creates a `ImageIOException` with an error message that image-writing failed.

Methods in org.anchoranalysis.image.io.bean.stack.writer that throw ImageIOException
Modifier and Type	Method	Description
`ImageFileFormat`	OneOrThreeChannelsWriter.`fileFormat(StackWriteOptions writeOptions)`
`abstract ImageFileFormat`	StackWriter.`fileFormat(StackWriteOptions writeOptions)`	The file format that will be written by the generator.
`ImageFileFormat`	StackWriter.`fileFormatWarnUnexpected(StackWriteOptions writeOptions, Optional<Logger> logger)`	The file format that will be written by the generator, warning with a log message if different to suggestion.
`void`	OneOrThreeChannelsWriter.`writeStack(Stack stack, Path filePath, StackWriteOptions options)`
`abstract void`	StackWriter.`writeStack(Stack stack, Path filePath, StackWriteOptions options)`	Writes a stack to the filesystem at a particular path.
`protected abstract void`	OneOrThreeChannelsWriter.`writeStackAfterCheck(Stack stack, Path filePath)`	Writes the `Stack` to the file-system, after a check has already occurred that the correct number of channels exist.
`Path`	StackWriter.`writeStackWithExtension(Stack stack, Path filePath, StackWriteOptions options)`	Writes a stack to the filesystem at a particular path with an extension appended to the path.

Uses of ImageIOException in org.anchoranalysis.image.io.channel.input

Methods in org.anchoranalysis.image.io.channel.input that throw ImageIOException
Modifier and Type	Method	Description
`abstract int`	NamedChannelsInput.`bitDepth(Logger logger)`	Bit-depth of image.
`abstract NamedChannelsMap`	NamedChannelsInput.`createChannelsForSeries(int seriesIndex, Logger logger)`	Creates a `NamedChannelsMap` representing the channels for a particular series in this input.
`abstract Dimensions`	NamedChannelsInput.`dimensions(int seriesIndex, Logger logger)`	Dimensions of a particular series.
`abstract ImageMetadata`	NamedChannelsInput.`metadata(int seriesIndex, Logger logger)`	The image-metadata associated with a particular series.
`abstract int`	NamedChannelsInput.`numberChannels(Logger logger)`	Number of channels.
`abstract int`	NamedChannelsInput.`numberSeries()`	Number of series that exist.

Uses of ImageIOException in org.anchoranalysis.image.io.channel.map

Methods in org.anchoranalysis.image.io.channel.map that throw ImageIOException
Modifier and Type	Method	Description
`Dimensions`	NamedChannelsConcatenate.`dimensions(Logger logger)`
`Dimensions`	NamedChannelsMap.`dimensions(Logger logger)`	The dimensions of each `Channel`.
`Dimensions`	OpenedNamedChannels.`dimensions(Logger logger)`
`boolean`	NamedChannelsConcatenate.`isRGB(Logger logger)`
`boolean`	NamedChannelsMap.`isRGB(Logger logger)`	Whether the channels describe an RGB image.
`boolean`	OpenedNamedChannels.`isRGB(Logger logger)`
`int`	NamedChannelsConcatenate.`sizeT(Logger logger)`
`int`	NamedChannelsMap.`sizeT(Logger logger)`	The number of frames along the time-axis.
`int`	OpenedNamedChannels.`sizeT(Logger logger)`

Uses of ImageIOException in org.anchoranalysis.image.io.stack

Methods in org.anchoranalysis.image.io.stack that throw ImageIOException
Modifier and Type	Method	Description
`OrientationChange`	CalculateOrientationChange.`calculateOrientationChange(Logger logger)`	Calculates any needed orientation change.

Uses of ImageIOException in org.anchoranalysis.image.io.stack.input

Methods in org.anchoranalysis.image.io.stack.input that throw ImageIOException
Modifier and Type	Method	Description
`int`	OpenedImageFile.`bitDepth(Logger logger)`	The bit-depth of the image voxels e.g.
`Optional<List<String>>`	OpenedImageFile.`channelNames(Logger logger)`	The names of each channel, if they are known.
`void`	OpenedImageFile.`close()`	Closes the opened image-file, removing any intermediate data-structures.
`TimeSeries`	StackSequenceInput.`createStackSequenceForSeries(int seriesIndex, Logger logger)`	Creates a supplier of a `TimeSeries` of stacks for a particular series number.
`Dimensions`	OpenedImageFile.`dimensionsForSeries(int seriesIndex, Logger logger)`	The `Dimensions` associated with a particular series.
`boolean`	OpenedImageFile.`isRGB(Logger logger)`	Whether the image-file has RGB encoded voxels.
`ImageMetadata`	ImageMetadataInput.`metadata()`	The associated image metadata.
`default ImageMetadata`	OpenedImageFile.`metadata(int seriesIndex, Logger logger)`	Extracts metadata about the image.
`int`	OpenedImageFile.`numberChannels(Logger logger)`	The number of channels in the image-file e.g.
`int`	OpenedImageFile.`numberFrames(Logger logger)`	The number of frames in the image-file i.e.
`TimeSeries`	OpenedImageFile.`open(int seriesIndex, Logger logger)`	Open when we don't have a specific-type.
`default TimeSeries`	OpenedImageFile.`open(Logger logger)`	Open the first series when we don't have a specific-type.
`default TimeSeries`	OpenedImageFile.`openCheckType(int seriesIndex, org.anchoranalysis.image.voxel.datatype.VoxelDataType channelDataType, Logger logger)`	Opens a time-series, and checks that it is a particular type.
`static Mask`	MaskReader.`openMask(StackReader stackReader, Path path, org.anchoranalysis.image.voxel.binary.values.BinaryValuesInt binaryValues, OperationContext context)`	Utility functions for opening a single-channeled stack as a `Mask`.
`Optional<ImagePyramidMetadata>`	OpenedImageFile.`pyramid()`	Metadata to describe an image-pyramid, if it exists for this opened-image.
`ImageTimestampsAttributes`	OpenedImageFile.`timestamps()`	The timestamps and file-attributes associated with the image.

Constructor parameters in org.anchoranalysis.image.io.stack.input with type arguments of type ImageIOException
Constructor	Description
`ImageMetadataInput(NamedFile file, CheckedSupplier<ImageMetadata,ImageIOException> metadata)`	Create for a particular file and metadata.

Uses of ImageIOException in org.anchoranalysis.image.io.stack.output.generator

Methods in org.anchoranalysis.image.io.stack.output.generator that throw ImageIOException
Modifier and Type	Method	Description
`static String`	GeneratorOutputter.`fileExtensionWriter(OutputWriteSettings settings, StackWriteOptions writeOptions, Optional<Logger> logger)`	The file extension to use for the default `StackWriter`, as returned by `GeneratorOutputter.writer(OutputWriteSettings)`.
`static StackWriter`	GeneratorOutputter.`writer(OutputWriteSettings settings)`	Gets the default `StackWriter`.