Uses of Class
org.anchoranalysis.spatial.box.Extent

Packages that use Extent

Package	Description
org.anchoranalysis.annotation.io.assignment	A pairing of objects from two collections (bipartite matching).
org.anchoranalysis.feature.energy	A particular stack used in feature-calculations called a EnergyStack together with related classes.
org.anchoranalysis.image.bean.nonbean.spatial.arrange	Non-beans to specify how to form a single-image by spatially combining other images.
org.anchoranalysis.image.bean.spatial	Beans to define entities or operate that consider Euclidian space.
org.anchoranalysis.image.bean.spatial.arrange	Beans to specify how to form a single-image by spatially combining other images.
org.anchoranalysis.image.bean.spatial.arrange.align	Aligning a BoundingBox to fit inside another BoundingBox.
org.anchoranalysis.image.bean.spatial.arrange.fill	Montages images together to completely fill the available space, while preserving aspect ratio.
org.anchoranalysis.image.bean.spatial.arrange.overlay	Combining other images through overlaying.
org.anchoranalysis.image.bean.spatial.arrange.tile	Combining other images through tiling.
org.anchoranalysis.image.core.bufferedimage	Conversions and operations involving Java AWT's BufferedImage.
org.anchoranalysis.image.core.channel	The Channel core data-class and related operations and converters.
org.anchoranalysis.image.core.dimensions	Classes to describe the size of images or components of images both in voxels and physically.
org.anchoranalysis.image.core.dimensions.size.suggestion	Suggestions on a size for an image.
org.anchoranalysis.image.core.mask	An image with only two permissible states.
org.anchoranalysis.image.core.object.scale	Scaling object-collections, or lists of elements with object-representations.
org.anchoranalysis.image.core.stack	Defines the key data object, Stack, and related classes.
org.anchoranalysis.image.inference.bean.reduce	Beans to reduce the number of results that are returned from inference, by removing overlaping entities etc.
org.anchoranalysis.image.inference.bean.segment.reduce	Non-bean classes to reduce the number of results that are returned from inference, by removing overlapping entities etc.
org.anchoranalysis.image.inference.segment	Non-beans pertaining to segmentation of images via model inference.
org.anchoranalysis.image.io.bean.stack.combine	Beans to combine multiple stacks into a single stack before outputting.
org.anchoranalysis.image.io.stack.output.box	Base classes for generators that ultimately write only a bounding-box portion of a Stack to the filesystem.
org.anchoranalysis.image.voxel	Data-structures to store and manipulate image raster-data or voxels.
org.anchoranalysis.image.voxel.arithmetic	Arithmetic operations for Voxels.
org.anchoranalysis.image.voxel.binary	The BinaryVoxels class and related operations.
org.anchoranalysis.image.voxel.buffer	A buffer of voxel-values, usually corresponding to a single z-slice in Voxels.
org.anchoranalysis.image.voxel.buffer.slice	A container with voxel-buffers for each z-slice.
org.anchoranalysis.image.voxel.convert.imglib2	Converts anchor data-structures to those used by ImgLib2.
org.anchoranalysis.image.voxel.factory	Creates new instances of Voxels and VoxelsUntyped with specific data-types.
org.anchoranalysis.image.voxel.iterator	Utilities to iterate over voxel-locations in images and sub-regions of images.
org.anchoranalysis.image.voxel.iterator.neighbor	Iterating over a point's neighboring voxels.
org.anchoranalysis.image.voxel.kernel	Applying a kernel via convolution to voxels.
org.anchoranalysis.image.voxel.neighborhood	A region in proximity to a voxel, encompassing this voxel as well as others.
org.anchoranalysis.image.voxel.object	The fundamental data class that is an ObjectMask and related structures.
org.anchoranalysis.image.voxel.object.morphological	Morphological operations applied to ObjectMasks.
org.anchoranalysis.image.voxel.projection	Classes for calculating differnet kind of projections of voxel values across multiple buffers.
org.anchoranalysis.image.voxel.projection.extrema	Classes for performing both a Maximum Intensity Projection and a minimum projection.
org.anchoranalysis.image.voxel.resizer	Different interpolator methods to use when scaling voxels.
org.anchoranalysis.io.bioformats.copyconvert	Converts the byte stream opened by Bioformats into channels of particular data-type.
org.anchoranalysis.io.bioformats.metadata	Reading metadata information from files using EXIF and/or other metadata headers.
org.anchoranalysis.io.imagej.convert	Converts to and from ImageJ data-structures for images.
org.anchoranalysis.io.imagej.resizer	Image interpolation when scaling using ImageJ.
org.anchoranalysis.plugin.image.bean.channel.aggregator	Implementations of ConvertChannelTo and ConvertChannelToWithHistogram.
org.anchoranalysis.plugin.image.bean.object.provider.morphological	Implementations of ObjectCollectionProvider involving morphological operations.
org.anchoranalysis.plugin.image.bean.object.segment.reduce	Strategies for reducing the number of elements with a list by merging/removing lower-confidence elements that overlap.
org.anchoranalysis.plugin.image.feature.bean.object.single.border	Implementations of FeatureSingleObject that determine if an object lies at the border of an image.
org.anchoranalysis.plugin.image.feature.object.calculation.single	Implementations of CalculationPart that that process a single ObjectMask.
org.anchoranalysis.plugin.image.feature.object.calculation.single.morphological	Implementations of CalculationPart that that process a single ObjectMask - with morphological operations.
org.anchoranalysis.plugin.image.segment.watershed.encoding	Encoding voxels in a watershed-transformation implementation.
org.anchoranalysis.plugin.image.task.size	Non-bean classes pertaining to determining the size of an image.
org.anchoranalysis.plugin.image.task.slice	Non-bean classes pertaining to combining stacks into a single stack.
org.anchoranalysis.plugin.io.multifile	Non-bean classes to help use multiple files to represent a single Stack.
org.anchoranalysis.plugin.opencv.bean.feature	Extracting features using OpenCV.
org.anchoranalysis.plugin.opencv.convert	Conversion to/from OpenCV data-structures.
org.anchoranalysis.plugin.opencv.resizer	Interpolation non-beans that use OpenCV.
org.anchoranalysis.spatial.box	Axis-aligned bounding-boxes and related operations.
org.anchoranalysis.spatial.scale	How to much to scale an entity in Cartesian space by.
org.anchoranalysis.test.image	Testing utilities and fixtures with no greater downstream dependency than anchor-image-io or anchor-io-bioformats or anchor-imagej.
org.anchoranalysis.test.image.object	Fixtures for creating object-masks.

Uses of Extent in org.anchoranalysis.annotation.io.assignment

Methods in org.anchoranalysis.annotation.io.assignment with parameters of type Extent

Modifier and Type	Method	Description
void	OverlappingObjects.removeTouchingBorderXY(Extent extent)	Removes any objects from the assignment if they touch the X or Y scene border.

Uses of Extent in org.anchoranalysis.feature.energy

Methods in org.anchoranalysis.feature.energy that return Extent

Modifier and Type	Method	Description
Extent	EnergyStack.extent()	The width and height and depth of all Channels in the stack.
Extent	EnergyStackWithoutParameters.extent()	The width and height and depth of all Channels in the stack.

Uses of Extent in org.anchoranalysis.image.bean.nonbean.spatial.arrange

Methods in org.anchoranalysis.image.bean.nonbean.spatial.arrange that return Extent

Modifier and Type	Method	Description
Extent	StackArrangement.extent()	The size of the larger image in which all the BoundingBoxes in list must fully reside.

Constructors in org.anchoranalysis.image.bean.nonbean.spatial.arrange with parameters of type Extent

Modifier	Constructor	Description
	StackArrangement(Extent extent)	Create with the overall Extent and no boxes.
	StackArrangement(Extent extent, List<BoundingBoxEnclosed> boxes)	Creates a new StackArrangement instance.
	StackArrangement(Extent extent, BoundingBox box)	Create with a single BoundingBox.

Uses of Extent in org.anchoranalysis.image.bean.spatial

Methods in org.anchoranalysis.image.bean.spatial that return Extent

Modifier and Type	Method	Description
Extent	SizeXY.asExtent()	Creates an extent with identical width and height and depth (z-extent) of 1.
Extent	SizeXY.asExtent(int depth)	Creates an extent with identical width and height and a specific depth (z-extent).

Constructors in org.anchoranalysis.image.bean.spatial with parameters of type Extent

Modifier	Constructor	Description
	SizeXY(Extent extent)	Create form an Extent.

Uses of Extent in org.anchoranalysis.image.bean.spatial.arrange

Method parameters in org.anchoranalysis.image.bean.spatial.arrange with type arguments of type Extent

Modifier and Type	Method	Description
StackArrangement	Single.arrangeStacks(Iterator<Extent> extents, OperationContext context)
abstract StackArrangement	StackArranger.arrangeStacks(Iterator<Extent> extents, OperationContext context)	Arranges stacks to that they fit together in a single raster.

Uses of Extent in org.anchoranalysis.image.bean.spatial.arrange.align

Methods in org.anchoranalysis.image.bean.spatial.arrange.align with parameters of type Extent

Modifier and Type	Method	Description
BoundingBox	BoxAligner.align(Extent smaller, BoundingBox larger)	Determines a BoundingBox to use for a smaller Extent so that it fits inside larger BoundingBox.
BoundingBox	BoxAligner.align(Extent smaller, Extent larger)	Determines a BoundingBox to use for a smaller Extent so that it fits inside larger Extent.
protected BoundingBox	Align.alignAfterCheck(Extent smaller, BoundingBox larger)
protected BoundingBox	Align.alignAfterCheck(Extent smaller, Extent larger)
protected abstract BoundingBox	BoxAligner.alignAfterCheck(Extent smaller, BoundingBox larger)	Determines a BoundingBox to use for smaller Extent so that it fits inside larger BoundingBox.
protected abstract BoundingBox	BoxAligner.alignAfterCheck(Extent smaller, Extent larger)	Determines a BoundingBox to use for smaller Extent so that it fits inside larger Extent.
protected BoundingBox	Grow.alignAfterCheck(Extent smaller, BoundingBox larger)
protected BoundingBox	Grow.alignAfterCheck(Extent smaller, Extent larger)
Point3i	Align.alignCorner(BoundingBox smaller, Extent larger)	The minimum corner at which the entity should be locate after alignment, ignoring the space to the left.

Uses of Extent in org.anchoranalysis.image.bean.spatial.arrange.fill

Methods in org.anchoranalysis.image.bean.spatial.arrange.fill that return Extent

Modifier and Type	Method	Description
Extent	ExtentToArrange.getExtent()	The Extent.
static Extent	FitCombinedScaler.scaleToWidth(List<List<ExtentToArrange>> partitions, boolean permitPartialFinalRow, int width)	Calculates the size of the combined image to use for the montage, and scales the associated Extent each to match.

Method parameters in org.anchoranalysis.image.bean.spatial.arrange.fill with type arguments of type Extent

Modifier and Type	Method	Description
StackArrangement	Fill.arrangeStacks(Iterator<Extent> extents, OperationContext context)

Constructors in org.anchoranalysis.image.bean.spatial.arrange.fill with parameters of type Extent

Modifier	Constructor	Description
	ExtentToArrange(int index, Extent extent)	Create with a particular index and size.

Uses of Extent in org.anchoranalysis.image.bean.spatial.arrange.overlay

Method parameters in org.anchoranalysis.image.bean.spatial.arrange.overlay with type arguments of type Extent

Modifier and Type	Method	Description
StackArrangement	Overlay.arrangeStacks(Iterator<Extent> extents, OperationContext context)

Uses of Extent in org.anchoranalysis.image.bean.spatial.arrange.tile

Method parameters in org.anchoranalysis.image.bean.spatial.arrange.tile with type arguments of type Extent

Modifier and Type	Method	Description
StackArrangement	Tile.arrangeStacks(Iterator<Extent> extents, OperationContext context)

Uses of Extent in org.anchoranalysis.image.core.bufferedimage

Methods in org.anchoranalysis.image.core.bufferedimage with parameters of type Extent

Modifier and Type	Method	Description
static BufferedImage	BufferedImageFromStack.createRGB(Voxels<UnsignedByteBuffer> red, Voxels<UnsignedByteBuffer> green, Voxels<UnsignedByteBuffer> blue, Extent extent)	Creates a BufferedImage from three Voxels<UnsignedByteBuffer> representing respectively, red, green, blue color components.

Uses of Extent in org.anchoranalysis.image.core.channel

Methods in org.anchoranalysis.image.core.channel that return Extent

Modifier and Type	Method	Description
Extent	Channel.extent()	The size of the voxels across three dimensions.

Methods in org.anchoranalysis.image.core.channel with parameters of type Extent

Modifier and Type	Method	Description
Channel	Channel.resizeXY(Extent extentToAssign, VoxelsResizer resizer)	Resizes the dimensions of the channel, interpolating the existing voxel values to match.

Uses of Extent in org.anchoranalysis.image.core.dimensions

Methods in org.anchoranalysis.image.core.dimensions that return Extent

Modifier and Type	Method	Description
Extent	Dimensions.extent()	The width and height and depth of the image.
abstract Extent	OrientationChange.extent(Extent extent)	A Extent that describes extent after the orientation change.

Methods in org.anchoranalysis.image.core.dimensions with parameters of type Extent

Modifier and Type	Method	Description
Dimensions	Dimensions.duplicateChangeExtent(Extent extentToAssign)	Deep-copies the current object, but assigns a different Extent.
abstract Extent	OrientationChange.extent(Extent extent)	A Extent that describes extent after the orientation change.
abstract int	OrientationChange.index(int existingIndex, int x, int y, Extent extent)	Like {#link determineOutputIndex(int,int,Extent)} but also accepts an index.
abstract int	OrientationChange.index(int x, int y, Extent extent)	Determines the index in a output-array to put an element after applying the orientation-change.

Constructors in org.anchoranalysis.image.core.dimensions with parameters of type Extent

Modifier	Constructor	Description
	Dimensions(Extent extent)	Construct with an explicit extent and no resolution.
	Dimensions(Extent extent, Optional<Resolution> resolution)	Creates a new Dimensions instance.

Uses of Extent in org.anchoranalysis.image.core.dimensions.size.suggestion

Method parameters in org.anchoranalysis.image.core.dimensions.size.suggestion with type arguments of type Extent

Modifier and Type	Method	Description
ScaleFactor	ImageSizeSuggestion.calculateScaleFactor(Optional<Extent> extentToBeScaled)	Calculates the scaling factor.

Uses of Extent in org.anchoranalysis.image.core.mask

Methods in org.anchoranalysis.image.core.mask that return Extent

Modifier and Type	Method	Description
Extent	Mask.extent()	The size of the voxels across three dimensions.

Uses of Extent in org.anchoranalysis.image.core.object.scale

Methods in org.anchoranalysis.image.core.object.scale with parameters of type Extent

Modifier and Type	Method	Description
T	AccessObjectMask.clipTo(T element, Extent extent)	Ensures the element lies within a certain extent.
ObjectMask	AccessObjectMaskSimple.clipTo(ObjectMask element, Extent extent)
static <T> ScaledElements<T>	Scaler.scaleElements(List<T> elements, ScaleFactor factor, boolean overlappingObjects, Extent clipTo, AccessObjectMask<T> access)	Scales every element in a list collectively, ensuring the results remain inside a particular region.
static ScaledElements<ObjectMask>	Scaler.scaleObjects(ObjectCollection objects, ScaleFactor factor, boolean overlappingObjects, Extent clipTo)	Scales every object-mask in a collection collectively, ensuring the results remain inside a particular region.

Uses of Extent in org.anchoranalysis.image.core.stack

Methods in org.anchoranalysis.image.core.stack that return Extent

Modifier and Type	Method	Description
Extent	DisplayStack.extent()	The width and height and depth of all channels in the Stack.
Extent	RGBStack.extent()	The width and height and depth of the image.
Extent	Stack.extent()	The width and height and depth of the image.

Constructors in org.anchoranalysis.image.core.stack with parameters of type Extent

Modifier	Constructor	Description
	RGBStack(Extent extent)	Creates a particularly-sized stack with unsigned byte voxel data type, with all voxels initialized to 0.
	RGBStack(Extent extent, Color color)	Creates a particularly-sized stack with unsigned byte voxel data type, with all voxels initialized to a specific Color.
	RGBStack(Extent extent, RGBColor color)	Creates a particularly-sized stack with unsigned byte voxel data type, with all voxels initialized to a specific RGBColor.
	RGBStack(Extent extent, ChannelFactorySingleType factory)	Creates a particularly-sized stack with all channels initialized to 0.
	Stack(Extent extent)	Creates a Stack with a single unsigned-byte channel of size channel.

Uses of Extent in org.anchoranalysis.image.inference.bean.reduce

Methods in org.anchoranalysis.image.inference.bean.reduce with parameters of type Extent

Modifier and Type	Method	Description
ReductionOutcome<LabelledWithConfidence<ObjectMask>>	ReduceElementsGreedy.reduce(List<LabelledWithConfidence<ObjectMask>> elements, Extent extent, ExecutionTimeRecorder executionTimeRecorder)

Uses of Extent in org.anchoranalysis.image.inference.bean.segment.reduce

Methods in org.anchoranalysis.image.inference.bean.segment.reduce with parameters of type Extent

Modifier and Type	Method	Description
abstract ReductionOutcome<LabelledWithConfidence<T>>	ReduceElements.reduce(List<LabelledWithConfidence<T>> elements, Extent extent, ExecutionTimeRecorder executionTimeRecorder)	Reduce a list of elements (each with a confidence score and a label) to a smaller-list.

Uses of Extent in org.anchoranalysis.image.inference.segment

Methods in org.anchoranalysis.image.inference.segment that return Extent

Modifier and Type	Method	Description
Extent	SegmentedObjectsAtScale.extent()	The width and height and depth of the background image, associated with the objects.

Methods in org.anchoranalysis.image.inference.segment with parameters of type Extent

Modifier and Type	Method	Description
static BinaryVoxels<UnsignedByteBuffer>	ScaleAndThresholdVoxels.scaleAndThreshold(Voxels<FloatBuffer> voxels, Extent targetSize, VoxelsResizer resizer, float maskMinValue)	Scales voxels representing a mask to a target size, and then thresholds.

Uses of Extent in org.anchoranalysis.image.io.bean.stack.combine

Methods in org.anchoranalysis.image.io.bean.stack.combine with parameters of type Extent

Modifier and Type	Method	Description
void	TextStyle.drawText(String textToDraw, BufferedImage image, Extent extent)	Draws text on a BufferedImage.

Uses of Extent in org.anchoranalysis.image.io.stack.output.box

Methods in org.anchoranalysis.image.io.stack.output.box that return Extent

Modifier and Type	Method	Description
Extent	ScaleableBackground.sizeAfterAnyScaling()	The size of the background after any scaling has occurred.

Uses of Extent in org.anchoranalysis.image.voxel

Fields in org.anchoranalysis.image.voxel declared as Extent

Modifier and Type	Field	Description
static final Extent	Voxels.MAX_IN_TO_STRING	The maximum number of rows/columns/slices to show in Voxels.toString().

Methods in org.anchoranalysis.image.voxel that return Extent

Modifier and Type	Method	Description
Extent	BoundedVoxels.extent()	The size of the voxels across three dimensions, and also the size of the associated bounding-box.
Extent	Voxels.extent()	The size of the voxels across three dimensions.
Extent	VoxelsUntyped.extent()	The size of the voxels across three dimensions.

Method parameters in org.anchoranalysis.image.voxel with type arguments of type Extent

Modifier and Type	Method	Description
BoundingBox	BoundedVoxels.dilate(boolean do3D, Optional<Extent> clipRegion)	Grow bounding-box by 1 pixel in all directions.
BoundedVoxels<T>	BoundedVoxels.growBuffer(Point3i growthNegative, Point3i growthPositive, Optional<Extent> clipRegion, VoxelsFactoryTypeBound<T> factory)	Grows the voxel buffer in the positive and negative directions by a certain amount.
BoundedVoxels<T>	BoundedVoxels.scale(ScaleFactor scaleFactor, VoxelsResizer resizer, Optional<Extent> clipTo)	Creates a scaled-version (in XY dimensions only) of the current bounding-box.

Uses of Extent in org.anchoranalysis.image.voxel.arithmetic

Methods in org.anchoranalysis.image.voxel.arithmetic with parameters of type Extent

Modifier and Type	Method	Description
static VoxelsArithmetic	VoxelsArithmeticFactory.createFloat(Extent extent, IntFunction<FloatBuffer> bufferForSlice)	Create a VoxelsArithmetic for FloatBuffer.
static VoxelsArithmetic	VoxelsArithmeticFactory.createUnsignedByte(Extent extent, IntFunction<UnsignedByteBuffer> bufferForSlice)	Create a VoxelsArithmetic for UnsignedByteBuffer.
static VoxelsArithmetic	VoxelsArithmeticFactory.createUnsignedInt(Extent extent, IntFunction<UnsignedIntBuffer> bufferForSlice)	Create a VoxelsArithmetic for UnsignedIntBuffer.
static VoxelsArithmetic	VoxelsArithmeticFactory.createUnsignedShort(Extent extent, IntFunction<UnsignedShortBuffer> bufferForSlice)	Create a VoxelsArithmetic for UnsignedShortBuffer.

Uses of Extent in org.anchoranalysis.image.voxel.binary

Methods in org.anchoranalysis.image.voxel.binary that return Extent

Modifier and Type	Method	Description
Extent	BinaryVoxels.extent()	The size of the voxels across three dimensions.

Methods in org.anchoranalysis.image.voxel.binary with parameters of type Extent

Modifier and Type	Method	Description
static BinaryVoxels<UnsignedByteBuffer>	BinaryVoxelsFactory.createEmptyOff(Extent extent)	Creates binary-voxels using unsigned 8-bit byte type and with all voxels set to off (0).
static BinaryVoxels<?>	BinaryVoxelsFactory.createEmptyOff(Extent extent, VoxelDataType dataType)	Creates an empty binary-voxels of a particular data-type with all voxels initialized to off. (0).
static BinaryVoxels<UnsignedByteBuffer>	BinaryVoxelsFactory.createEmptyOn(Extent extent)	Creates binary-voxels using unsigned 8-bit byte type and with all voxels set to on (255).

Uses of Extent in org.anchoranalysis.image.voxel.buffer

Methods in org.anchoranalysis.image.voxel.buffer that return Extent

Modifier and Type	Method	Description
Extent	SlidingBuffer.extent()	The size of the voxels across three dimensions.

Uses of Extent in org.anchoranalysis.image.voxel.buffer.slice

Methods in org.anchoranalysis.image.voxel.buffer.slice that return Extent

Modifier and Type	Method	Description
Extent	FromByte.extent()
Extent	FromFloat.extent()
Extent	FromInt.extent()
Extent	FromShort.extent()
Extent	SliceBufferIndex.extent()	The size of each buffer.

Methods in org.anchoranalysis.image.voxel.buffer.slice with parameters of type Extent

Modifier and Type	Method	Description
static SliceBufferIndex<UnsignedByteBuffer>	FromByte.createInitialized(Extent extent)	Create a buffer of a particular size, that has been initialized.
static SliceBufferIndex<FloatBuffer>	FromFloat.createInitialized(Extent extent)	Create a buffer of a particular size, that has been initialized.
static SliceBufferIndex<UnsignedIntBuffer>	FromInt.createInitialized(Extent extent)	Create a buffer of a particular size, that has been initialized.
static SliceBufferIndex<UnsignedShortBuffer>	FromShort.createInitialized(Extent extent)	Create a buffer of a particular size, that has been initialized.
static SliceBufferIndex<UnsignedByteBuffer>	FromByte.createUninitialized(Extent extent)	Create a buffer of a particular size, that has not been initialized.
static SliceBufferIndex<FloatBuffer>	FromFloat.createUninitialized(Extent extent)	Create a buffer of a particular size, that has not been initialized.
static SliceBufferIndex<UnsignedIntBuffer>	FromInt.createUninitialized(Extent extent)	Create a buffer of a particular size, that has not been initialized.
static SliceBufferIndex<UnsignedShortBuffer>	FromShort.createUninitialized(Extent extent)	Create a buffer of a particular size, that has not been initialized.

Uses of Extent in org.anchoranalysis.image.voxel.convert.imglib2

Methods in org.anchoranalysis.image.voxel.convert.imglib2 with parameters of type Extent

Modifier and Type	Method	Description
static net.imglib2.img.Img<net.imglib2.type.numeric.integer.UnsignedByteType>	ConvertToImg.fromByte(VoxelBuffer<UnsignedByteBuffer> buffer, Extent extent)	Creates an Img from a VoxelBuffer with an unsigned byte data-type.
static net.imglib2.img.Img<net.imglib2.type.numeric.real.FloatType>	ConvertToImg.fromFloat(VoxelBuffer<FloatBuffer> buffer, Extent extent)	Creates an Img from a VoxelBuffer with a float data-type.
static net.imglib2.img.Img<net.imglib2.type.numeric.integer.UnsignedShortType>	ConvertToImg.fromShort(VoxelBuffer<UnsignedShortBuffer> buffer, Extent extent)	Creates an Img from a VoxelBuffer with an unsigned short data-type.

Uses of Extent in org.anchoranalysis.image.voxel.factory

Methods in org.anchoranalysis.image.voxel.factory with parameters of type Extent

Modifier and Type	Method	Description
VoxelsUntyped	VoxelsFactory.createEmpty(Extent extent, VoxelDataType dataType)	Creates empty voxels to match a particular size.
default Voxels<T>	VoxelsFactoryTypeBound.createForVoxelBuffer(VoxelBuffer<T> buffer, Extent extent)	Create a new Voxels that has been initialized with a single-slice's memory buffers.
Voxels<T>	VoxelsFactoryTypeBound.createInitialized(Extent extent)	Create a new Voxels that has been initialized with memory buffers.
Voxels<T>	VoxelsFactoryTypeBound.createUninitialized(Extent extent)	Create a new Voxels that has not yet been initialized with memory buffers.

Uses of Extent in org.anchoranalysis.image.voxel.iterator

Methods in org.anchoranalysis.image.voxel.iterator with parameters of type Extent

Modifier and Type	Method	Description
static void	IterateVoxelsAll.withPoint(Extent extent, ProcessPoint process)	Iterate over each voxel in an Extent
static void	IterateVoxelsObjectMaskOptional.withPoint(Optional<ObjectMask> objectMask, Extent extent, ProcessPoint process)	Iterate over all points that are located on a object-mask or else all points in an extent.
static void	IterateVoxelsAll.withPointAndIndex(Extent extent, ProcessPointAndIndex process)	Iterate over each voxel in an Extent.

Uses of Extent in org.anchoranalysis.image.voxel.iterator.neighbor

Methods in org.anchoranalysis.image.voxel.iterator.neighbor that return Extent

Modifier and Type	Method	Description
Extent	ProcessVoxelNeighborAbsoluteWithSlidingBuffer.extent()	The size of the associated SlidingBuffer.

Methods in org.anchoranalysis.image.voxel.iterator.neighbor with parameters of type Extent

Modifier and Type	Method	Description
static <T> ProcessVoxelNeighbor<T>	ProcessVoxelNeighborFactory.within(Optional<ObjectMask> containingMask, Extent extentFallback, ProcessVoxelNeighborAbsolute<T> process)	Creates to process neighbors that must lie within either an object-mask or an extent (as a fallback).

Uses of Extent in org.anchoranalysis.image.voxel.kernel

Methods in org.anchoranalysis.image.voxel.kernel that return Extent

Modifier and Type	Method	Description
Extent	KernelPointCursor.getExtent()	The size of the image the kernel iterates over.

Constructors in org.anchoranalysis.image.voxel.kernel with parameters of type Extent

Modifier	Constructor	Description
	KernelPointCursor(int index, Point3i point, Extent extent, BinaryValuesByte binaryValues, KernelApplicationParameters parameters)	Creates to be focused around a particular point in the image.

Uses of Extent in org.anchoranalysis.image.voxel.neighborhood

Methods in org.anchoranalysis.image.voxel.neighborhood with parameters of type Extent

Modifier and Type	Method	Description
static <V> GraphWithPayload<V,Integer>	NeighborGraph.create(List<V> vertices, Function<V,ObjectMask> vertexToObject, Extent sceneExtent, boolean preventObjectIntersection, boolean do3D)	Like NeighborGraph.create(ObjectCollection, Extent, boolean, boolean) but extracts objects from a list of elements which form the vertices.
static GraphWithPayload<ObjectMask,Integer>	NeighborGraph.create(ObjectCollection objects, Extent sceneExtent, boolean preventObjectIntersection, boolean do3D)	Create the graph with object-masks as vertices, where edges represent the number of neighboring voxels between objects.

Uses of Extent in org.anchoranalysis.image.voxel.object

Methods in org.anchoranalysis.image.voxel.object that return Extent

Modifier and Type	Method	Description
Extent	ObjectMask.extent()	The size of the object-mask's bounding-box across three dimensions.

Methods in org.anchoranalysis.image.voxel.object with parameters of type Extent

Modifier and Type	Method	Description
ObjectMask	ObjectMask.clampTo(Extent extent)	Makes sure an object fits inside an extent, removing any parts which do not.
Optional<ObjectMask>	ObjectMask.intersect(ObjectMask other, Extent extent)	Intersects this object-mask with another

Method parameters in org.anchoranalysis.image.voxel.object with type arguments of type Extent

Modifier and Type	Method	Description
ObjectMask	ObjectMask.growBuffer(Point3i growthNegative, Point3i growthPositive, Optional<Extent> clipRegion)	Grows the object-mask's voxel buffers in the positive and negative directions by a certain amount.
ObjectMask	ObjectMask.scale(ScaleFactor factor, Optional<Extent> clipTo)	Produces a scaled-version of an object-mask.

Uses of Extent in org.anchoranalysis.image.voxel.object.morphological

Method parameters in org.anchoranalysis.image.voxel.object.morphological with type arguments of type Extent

Modifier and Type	Method	Description
static ObjectMask	MorphologicalDilation.dilate(ObjectMask object, Optional<Extent> extent, boolean useZ, int iterations, boolean bigNeighborhood)	Dilates an ObjectMask, growing the bounding-box as necessary.

Uses of Extent in org.anchoranalysis.image.voxel.projection

Methods in org.anchoranalysis.image.voxel.projection with parameters of type Extent

Modifier and Type	Method	Description
<T> ProjectableBuffer<T>	Projection.create(VoxelDataType dataType, Extent extent)	Creates a buffer for the projection for a particular voxel-type and size (extent).
ProjectableBuffer<FloatBuffer>	MeanIntensityProjection.createFloat(Extent extent)
abstract ProjectableBuffer<FloatBuffer>	Projection.createFloat(Extent extent)	Creates a buffer for a maximum-intensity projection for float voxels.
ProjectableBuffer<FloatBuffer>	StandardDeviationIntensityProjection.createFloat(Extent extent)
ProjectableBuffer<UnsignedByteBuffer>	MeanIntensityProjection.createUnsignedByte(Extent extent)
abstract ProjectableBuffer<UnsignedByteBuffer>	Projection.createUnsignedByte(Extent extent)	Creates a buffer for a maximum-intensity projection for unsigned byte voxels.
ProjectableBuffer<UnsignedByteBuffer>	StandardDeviationIntensityProjection.createUnsignedByte(Extent extent)
ProjectableBuffer<UnsignedIntBuffer>	MeanIntensityProjection.createUnsignedInt(Extent extent)
abstract ProjectableBuffer<UnsignedIntBuffer>	Projection.createUnsignedInt(Extent extent)	Creates a buffer for a maximum-intensity projection for unsigned int voxels.
ProjectableBuffer<UnsignedIntBuffer>	StandardDeviationIntensityProjection.createUnsignedInt(Extent extent)
ProjectableBuffer<UnsignedShortBuffer>	MeanIntensityProjection.createUnsignedShort(Extent extent)
abstract ProjectableBuffer<UnsignedShortBuffer>	Projection.createUnsignedShort(Extent extent)	Creates a buffer for a maximum-intensity projection for unsigned short voxels.
ProjectableBuffer<UnsignedShortBuffer>	StandardDeviationIntensityProjection.createUnsignedShort(Extent extent)

Constructors in org.anchoranalysis.image.voxel.projection with parameters of type Extent

Modifier	Constructor	Description
protected	CountedProjectableBuffer(VoxelsFactoryTypeBound<T> flatType, Extent extent)	Creates with minimal parameters, as no preprocessing is necessary.

Uses of Extent in org.anchoranalysis.image.voxel.projection.extrema

Methods in org.anchoranalysis.image.voxel.projection.extrema with parameters of type Extent

Modifier and Type	Method	Description
ProjectableBuffer<FloatBuffer>	ComparisonProjection.createFloat(Extent extent)
ProjectableBuffer<UnsignedByteBuffer>	ComparisonProjection.createUnsignedByte(Extent extent)
ProjectableBuffer<UnsignedIntBuffer>	ComparisonProjection.createUnsignedInt(Extent extent)
ProjectableBuffer<UnsignedShortBuffer>	ComparisonProjection.createUnsignedShort(Extent extent)

Uses of Extent in org.anchoranalysis.image.voxel.resizer

Methods in org.anchoranalysis.image.voxel.resizer with parameters of type Extent

Modifier and Type	Method	Description
protected abstract VoxelBuffer<UnsignedByteBuffer>	VoxelsResizer.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for unsigned 8-bit buffers.
protected VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerExecutionTime.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerImgLib2.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerNone.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected abstract VoxelBuffer<FloatBuffer>	VoxelsResizer.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for float buffers.
protected VoxelBuffer<FloatBuffer>	VoxelsResizerExecutionTime.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<FloatBuffer>	VoxelsResizerImgLib2.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<FloatBuffer>	VoxelsResizerNone.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected abstract VoxelBuffer<UnsignedShortBuffer>	VoxelsResizer.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for unsigned 16-bit buffers.
protected VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerExecutionTime.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerImgLib2.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerNone.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)

Uses of Extent in org.anchoranalysis.io.bioformats.copyconvert

Fields in org.anchoranalysis.io.bioformats.copyconvert declared as Extent

Modifier and Type	Field	Description
protected Extent	ConvertTo.extent	The size of the source and destination buffers.

Uses of Extent in org.anchoranalysis.io.bioformats.metadata

Methods in org.anchoranalysis.io.bioformats.metadata that return types with arguments of type Extent

Modifier and Type	Method	Description
static Optional<Extent>	ReadMetadataUtilities.readFromWidthHeightTags(com.drew.metadata.Directory directory, int tagWidth, int tagHeight)	Reads two metadata entries, representing width and height, and use them to form a Extent.
static <T extends com.drew.metadata.Directory> Optional<Extent>	ReadMetadataUtilities.readFromWidthHeightTags(com.drew.metadata.Metadata metadata, Class<T> directoryType, int tagWidth, int tagHeight)	Reads two metadata entries, representing width and height, and use them to form a Extent.

Uses of Extent in org.anchoranalysis.io.imagej.convert

Methods in org.anchoranalysis.io.imagej.convert with parameters of type Extent

Modifier and Type	Method	Description
static ij.process.ImageProcessor	ConvertToImageProcessor.fromByte(VoxelBuffer<UnsignedByteBuffer> slice, Extent extent)	Creates a ImageProcessor from voxel-buffer (of type ByteBuffer) that is already a slice.
static ij.process.ImageProcessor	ConvertToImageProcessor.fromFloat(VoxelBuffer<FloatBuffer> slice, Extent extent)	Creates a ImageProcessor from voxel-buffer (of type FloatBuffer) that is already a slice.
static ij.process.ImageProcessor	ConvertToImageProcessor.fromShort(VoxelBuffer<UnsignedShortBuffer> slice, Extent extent)	Creates a ImageProcessor from voxel-buffer (of type ShortBuffer) that is already a slice.

Uses of Extent in org.anchoranalysis.io.imagej.resizer

Methods in org.anchoranalysis.io.imagej.resizer with parameters of type Extent

Modifier and Type	Method	Description
VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerImageJ.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<FloatBuffer>	VoxelsResizerImageJ.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerImageJ.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)

Uses of Extent in org.anchoranalysis.plugin.image.bean.channel.aggregator

Methods in org.anchoranalysis.plugin.image.bean.channel.aggregator with parameters of type Extent

Modifier and Type	Method	Description
protected ProjectableBuffer<T>	MaxProjection.create(VoxelDataType dataType, Extent extent)
protected ProjectableBuffer<T>	MeanProjection.create(VoxelDataType dataType, Extent extent)
protected ProjectableBuffer<T>	MinProjection.create(VoxelDataType dataType, Extent extent)
protected abstract ProjectableBuffer<T>	ProjectableBufferAggregator.create(VoxelDataType dataType, Extent extent)	Creates the ProjectableBuffer used for aggregation.
protected ProjectableBuffer<T>	StandardDeviationProjection.create(VoxelDataType dataType, Extent extent)

Uses of Extent in org.anchoranalysis.plugin.image.bean.object.provider.morphological

Methods in org.anchoranalysis.plugin.image.bean.object.provider.morphological that return types with arguments of type Extent

Modifier and Type	Method	Description
protected Optional<Extent>	ObjectCollectionProviderMorphological.deriveExtent()	Derives the extent from the dimensions, if available.

Method parameters in org.anchoranalysis.plugin.image.bean.object.provider.morphological with type arguments of type Extent

Modifier and Type	Method	Description
protected ObjectMask	Dilate.applyMorphologicalOperation(ObjectMask object, Optional<Extent> extent)
protected ObjectMask	Erode.applyMorphologicalOperation(ObjectMask object, Optional<Extent> extent)
protected abstract ObjectMask	ObjectCollectionProviderMorphological.applyMorphologicalOperation(ObjectMask object, Optional<Extent> extent)	Applies the morphological operation to a single ObjectMask.

Uses of Extent in org.anchoranalysis.plugin.image.bean.object.segment.reduce

Methods in org.anchoranalysis.plugin.image.bean.object.segment.reduce with parameters of type Extent

Modifier and Type	Method	Description
ReductionOutcome<LabelledWithConfidence<ObjectMask>>	ThresholdConfidence.reduce(List<LabelledWithConfidence<ObjectMask>> elements, Extent extent, ExecutionTimeRecorder executionTimeRecorder)

Uses of Extent in org.anchoranalysis.plugin.image.feature.bean.object.single.border

Methods in org.anchoranalysis.plugin.image.feature.bean.object.single.border with parameters of type Extent

Modifier and Type	Method	Description
protected abstract boolean	AtBorderBase.isBoundingBoxAtBorder(BoundingBox boundingBox, Extent extent)	Checks if the bounding box of an object is at the border of the image.
protected boolean	AtBorderXY.isBoundingBoxAtBorder(BoundingBox boundingBox, Extent extent)
protected boolean	AtBorderZ.isBoundingBoxAtBorder(BoundingBox boundingBox, Extent extent)

Uses of Extent in org.anchoranalysis.plugin.image.feature.object.calculation.single

Methods in org.anchoranalysis.plugin.image.feature.object.calculation.single with parameters of type Extent

Modifier and Type	Method	Description
protected abstract ObjectMask	CalculateIncrementalOperationMap.applyOperation(ObjectMask object, Extent extent, boolean do3D)	Applies the incremental operation to the input object.

Uses of Extent in org.anchoranalysis.plugin.image.feature.object.calculation.single.morphological

Methods in org.anchoranalysis.plugin.image.feature.object.calculation.single.morphological with parameters of type Extent

Modifier and Type	Method	Description
protected ObjectMask	CalculateDilationMap.applyOperation(ObjectMask object, Extent extent, boolean do3D)
protected ObjectMask	CalculateErosionMap.applyOperation(ObjectMask object, Extent extent, boolean do3D)

Uses of Extent in org.anchoranalysis.plugin.image.segment.watershed.encoding

Methods in org.anchoranalysis.plugin.image.segment.watershed.encoding that return Extent

Modifier and Type	Method	Description
Extent	EncodedVoxels.extent()	Gets the extent of the voxels.

Uses of Extent in org.anchoranalysis.plugin.image.task.size

Methods in org.anchoranalysis.plugin.image.task.size that return Extent

Modifier and Type	Method	Description
Extent	CommonSize.extent()	The common-size of all images.
Extent	SizeMapping.getExtent()	The size.

Methods in org.anchoranalysis.plugin.image.task.size with parameters of type Extent

Modifier and Type	Method	Description
void	SizeMapping.assignExtent(Extent extent)	Replace the existing Extent with a new value.

Constructors in org.anchoranalysis.plugin.image.task.size with parameters of type Extent

Modifier	Constructor	Description
	CommonSize(Extent extent)	Creates a new CommonSize instance.
	SizeMapping(Path path, Extent extent)	Creates a new SizeMapping instance.

Uses of Extent in org.anchoranalysis.plugin.image.task.slice

Constructors in org.anchoranalysis.plugin.image.task.slice with parameters of type Extent

Modifier	Constructor	Description
	MontageSharedState(Map<Path,BoundingBoxEnclosed> boxes, Extent sizeCombined, VoxelsResizer resizer, ExecutionTimeRecorder executionTimeRecorder)	Create with a mapping from Paths to boxes.

Uses of Extent in org.anchoranalysis.plugin.io.multifile

Methods in org.anchoranalysis.plugin.io.multifile that return Extent

Modifier and Type	Method	Description
Extent	SizeExtents.toExtent()

Uses of Extent in org.anchoranalysis.plugin.opencv.bean.feature

Methods in org.anchoranalysis.plugin.opencv.bean.feature with parameters of type Extent

Modifier and Type	Method	Description
void	HOGParameters.checkSize(Extent extent)	Throws an exception if an image of size extent cannot be described by these parameters.
org.opencv.objdetect.HOGDescriptor	HOGParameters.createDescriptor(Extent imageSize)	Creates an empty HOGDescriptor to describe an image of a particular size.
int	HOGParameters.sizeDescriptor(Extent imageSize)	Calculates the size of the descriptor will be for a given image.

Uses of Extent in org.anchoranalysis.plugin.opencv.convert

Methods in org.anchoranalysis.plugin.opencv.convert with parameters of type Extent

Modifier and Type	Method	Description
static org.opencv.core.Mat	ConvertToMat.createEmptyMat(Extent extent, int type)	Creates a Mat which contains only zero-values.
static VoxelBuffer<FloatBuffer>	VoxelBufferFromMat.floatFromMat(org.opencv.core.Mat mat, Extent extent)	Converts a Mat to a VoxelBuffer with voxel data-type FloatBuffer.
static org.opencv.core.Mat	ConvertToMat.fromVoxelBufferByte(VoxelBuffer<UnsignedByteBuffer> voxelBuffer, Extent extent)	Converts a VoxelBuffer of type UnsignedByteBuffer to a Mat.
static org.opencv.core.Mat	ConvertToMat.fromVoxelBufferFloat(VoxelBuffer<FloatBuffer> voxelBuffer, Extent extent)	Converts a VoxelBuffer of type FloatBuffer to a Mat.
static org.opencv.core.Mat	ConvertToMat.fromVoxelBufferShort(VoxelBuffer<UnsignedShortBuffer> voxelBuffer, Extent extent)	Converts a VoxelBuffer of type UnsignedShortBuffer to a Mat.
static VoxelBuffer<?>	VoxelBufferFromMat.toVoxelBuffer(org.opencv.core.Mat mat, Extent extent)	Converts a Mat to a VoxelBuffer.
static VoxelBuffer<UnsignedByteBuffer>	VoxelBufferFromMat.unsignedByteFromMat(org.opencv.core.Mat mat, Extent extent)	Converts a Mat to a VoxelBuffer with voxel data-type UnsignedByteBuffer.
static VoxelBuffer<UnsignedShortBuffer>	VoxelBufferFromMat.unsignedShortFromMat(org.opencv.core.Mat mat, Extent extent)	Converts a Mat to a VoxelBuffer with voxel data-type UnsignedShortBuffer.

Uses of Extent in org.anchoranalysis.plugin.opencv.resizer

Methods in org.anchoranalysis.plugin.opencv.resizer with parameters of type Extent

Modifier and Type	Method	Description
protected VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerOpenCV.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected VoxelBuffer<FloatBuffer>	VoxelsResizerOpenCV.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerOpenCV.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)

Uses of Extent in org.anchoranalysis.spatial.box

Methods in org.anchoranalysis.spatial.box that return Extent

Modifier and Type	Method	Description
static Extent	Extent.createFromTupleDuplicate(ReadableTuple3i tuple)	Creates from a ReadableTuple3i representing the sizes in each dimension, where the tuple is not used internally.
static Extent	Extent.createFromTupleReuse(ReadableTuple3i tuple)	Creates from a ReadableTuple3i representing the sizes in each dimension, where the tuple is used internally.
Extent	Extent.duplicateChangeX(int xToAssign)	Creates a copy of the current Extent with the value for the X-dimension changed.
Extent	Extent.duplicateChangeY(int yToAssign)	Creates a copy of the current Extent with the value for the Y-dimension changed.
Extent	Extent.duplicateChangeZ(int zToAssign)	Creates a copy of the current Extent with the value for the Z-dimension changed.
Extent	BoundingBox.extent()	Dimensions in pixels needed to represent the bounding box.
Extent	Extent.flattenZ()	Collapses the Z dimension.
Extent	Extent.growBy(int toAdd)	Creates a new Extent with toAdd size added to each dimension.
Extent	Extent.growBy(ReadableTuple3i toAdd)	Creates a new Extent with toAdd size added to each respective dimension.
Extent	Extent.intersectWith(Extent other)	Intersects this extent with another (i.e. takes the smaller value in each dimension).
Extent	Extent.minimum(Extent extent)	An extent that contains the minimum of two extents for each dimension respectively.
Extent	Extent.scaleXYBy(double scaleFactor, boolean round)	Scales all dimensions by a scaling-factor.
Extent	Extent.scaleXYBy(ScaleFactor scaleFactor, boolean round)	Scales the X- and Y- dimensions by a scaling-factor.
Extent	Extent.shrinkBy(ReadableTuple3i toSubtract)	Creates a new Extent with toSubtract size subtracted from each respective dimension.

Methods in org.anchoranalysis.spatial.box with parameters of type Extent

Modifier and Type	Method	Description
boolean	Extent.anyDimensionIsLargerThan(Extent other)	Returns true if any dimension in this extent is larger than the corresponding dimension in other extent.
boolean	BoundingBox.atBorder(Extent extent)	Does the bounding-box have an edge at the border of an image of size extent?
boolean	BoundingBox.atBorderXY(Extent extent)	Like BoundingBox.atBorder(Extent) but considers only the X- and Y- dimensions.
boolean	BoundingBox.atBorderZ(Extent extent)	Like BoundingBox.atBorder(Extent) but considers only the Z-dimension.
BoundingBox	BoundingBox.changeExtent(Extent extent)	Creates a copied BoundingBox but with a different extent.
BoundingBox	BoundingBox.clampTo(Extent extent)	Ensures that the box fits inside a Extent by reducing any values to their limits in the respective dimension.
int	Extent.compareTo(Extent other)
static BoundingBox	BoundingBox.createDuplicate(ReadableTuple3i cornerMin, Extent extent)	Creates a bounding-box from a corner and an extent - duplicating cornerMin.
static BoundingBox	BoundingBox.createReuse(ReadableTuple3i cornerMin, Extent extent)	Creates a bounding-box from a corner and an extent - reusing cornerMin internally.
boolean	Extent.equalsIgnoreZ(Extent other)	Checks for equality with another extent ignoring any differences in the Z dimension.
BoundingBox	BoundingBox.growBy(Tuple3i toAdd, Extent containingExtent)	Grow the bounding-box by toAdd amount in each dimension in both positive and negative directions.
Extent	Extent.intersectWith(Extent other)	Intersects this extent with another (i.e. takes the smaller value in each dimension).
Extent	Extent.minimum(Extent extent)	An extent that contains the minimum of two extents for each dimension respectively.
BoundingBox	BoundingBox.scale(ScaleFactor scaleFactor, Extent extentToAssign)	Scales the bounding-box corner-point, and assigns a new extent.
BoundingBox	BoundingBox.scaleClampTo(ScaleFactor scaleFactor, Extent clampTo)	Scales the bounding-box, both the corner-point and the extent - ensuring it remains inside a containing-extent.
Optional<BoundingBox>	BoundingBoxIntersection.withInside(BoundingBox other, Extent containingExtent)	Finds the intersection and clamp to a containing extent.

Method parameters in org.anchoranalysis.spatial.box with type arguments of type Extent

Modifier and Type	Method	Description
BoundingBox	BoundingBox.changeExtent(UnaryOperator<Extent> extentOperator)	Creates a copied BoundingBox but with a different extent.

Constructors in org.anchoranalysis.spatial.box with parameters of type Extent

Modifier	Constructor	Description
	BoundingBox(Extent extent)	Constructs a bounding-box to cover the entirety of a certain extent.

Uses of Extent in org.anchoranalysis.spatial.scale

Methods in org.anchoranalysis.spatial.scale that return Extent

Modifier and Type	Method	Description
Extent	ScaleFactorInt.scale(Extent extent)	Multiplies an Extent by the respective scaling-factor in each dimension.

Methods in org.anchoranalysis.spatial.scale with parameters of type Extent

Modifier and Type	Method	Description
static ScaleFactor	RelativeScaleCalculator.relativeScale(Extent source, Extent target)	Calculates a scaling factor so as to scale source to target.
static ScaleFactor	RelativeScaleCalculator.relativeScale(Extent source, Extent target, boolean preserveAspectRatio)	Multiplexes between RelativeScaleCalculator.relativeScalePreserveAspectRatio(Extent, Extent) and RelativeScaleCalculator.relativeScale(Extent, Extent).
static ScaleFactor	RelativeScaleCalculator.relativeScalePreserveAspectRatio(Extent source, Extent target)	Calculates a scaling factor so as to maximally scale source to target - while preserving the aspect ratio.
Extent	ScaleFactorInt.scale(Extent extent)	Multiplies an Extent by the respective scaling-factor in each dimension.

Uses of Extent in org.anchoranalysis.test.image

Fields in org.anchoranalysis.test.image declared as Extent

Modifier and Type	Field	Description
static final Extent	ChannelFixture.LARGE_2D	Large 2D extent for testing.
static final Extent	ChannelFixture.LARGE_3D	Large 3D extent for testing.
static final Extent	ChannelFixture.MEDIUM_2D	Medium 2D extent for testing.
static final Extent	ChannelFixture.MEDIUM_3D	Medium 3D extent for testing.
static final Extent	ChannelFixture.SMALL_2D	Small 2D extent for testing.
static final Extent	ChannelFixture.SMALL_3D	Small 3D extent for testing.

Methods in org.anchoranalysis.test.image that return Extent

Modifier and Type	Method	Description
static Extent	MaskFixture.maskExtent(boolean do3D)	The **size** across multiple dimensions of the mask that will be created.

Methods in org.anchoranalysis.test.image with parameters of type Extent

Modifier and Type	Method	Description
Stack	StackFixture.create(ChannelSpecification channelSpecification, Extent extent)	Creates a stack with a particular number of the channels of particular size.
Channel	ChannelFixture.createChannel(Extent extent, ChannelFixture.IntensityFunction createIntensity, VoxelDataType channelVoxelType)	Creates a channel with specified extent, intensity function, and voxel data type.

Uses of Extent in org.anchoranalysis.test.image.object

Constructors in org.anchoranalysis.test.image.object with parameters of type Extent

Modifier	Constructor	Description
	CutOffCorners(int edgeXY, int edgeZ, Extent extent)	Constructs a CutOffCorners pattern.