Package org.anchoranalysis.image.io.stack.output.box

Class DrawObjectOnStackGenerator

Object

org.anchoranalysis.image.io.stack.output.generator.RasterGenerator<T>

org.anchoranalysis.image.io.stack.output.generator.RasterGeneratorSelectFormat<org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask>>

org.anchoranalysis.image.io.stack.output.box.DrawObjectOnStackGenerator

All Implemented Interfaces:

Generator<org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask>>, TransformingGenerator<org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask>,Stack>, ElementWriter<org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask>>

public class DrawObjectOnStackGenerator
extends RasterGeneratorSelectFormat<org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask>>

Creates images of object(s) drawn on a background only in a local region around their bounding box.

This provides a visualization of an object(s) and a small around of immediate background context.

Author:

Owen Feehan

Method Summary

Modifier and Type	Method	Description
static DrawObjectOnStackGenerator	createFromGenerator(TransformingGenerator<org.anchoranalysis.spatial.box.BoundingBox,Stack> backgroundGenerator, int outlineWidth, ColorIndex colors)	Creates an extracted-object generator that draws an outline - with default color green and flattened in Z.
static DrawObjectOnStackGenerator	createFromStack(Optional<ScaleableBackground> background, int outlineWidth, ColorIndex colors)	Creates the generator with maybe a stack as the background, or else an empty background - and with default color green and flattened in Z.
static DrawObjectOnStackGenerator	createFromStack(ScaleableBackground background, int outlineWidth, ColorIndex colors)	Creates the generator with a stack as the background - and with default color green and flattened across the Z-dimension.
static DrawObjectOnStackGenerator	createWithEmptyBackground(int outlineWidth, ColorIndex colors)	Creates the generator with an empty background - and with default color green and flattened in Z-dimension.
StackWriteAttributes	guaranteedImageAttributes()	Guarantees on the attributes of all images created by the generator.
Stack	transform(org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask> element)

Methods inherited from class org.anchoranalysis.image.io.stack.output.generator.RasterGeneratorSelectFormat

selectFileExtension, writeToFile

Methods inherited from class org.anchoranalysis.image.io.stack.output.generator.RasterGenerator

write, writeWithIndex

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Details

createFromStack

public static DrawObjectOnStackGenerator createFromStack(ScaleableBackground background, int outlineWidth, ColorIndex colors)

Creates the generator with a stack as the background - and with default color green and flattened across the Z-dimension.

Parameters:

background - stack that exists as a background for the object.

colors - colors to use for outling of objects.

outlineWidth - width of the outline around an object.

Returns:

the newly created generator.

createWithEmptyBackground

public static DrawObjectOnStackGenerator createWithEmptyBackground(int outlineWidth, ColorIndex colors)

Creates the generator with an empty background - and with default color green and flattened in Z-dimension.

Parameters:

outlineWidth - width of the outline around an object.

colors - colors to use for outlining of objects.

Returns:

the newly created generator.

createFromStack

public static DrawObjectOnStackGenerator createFromStack(Optional<ScaleableBackground> background, int outlineWidth, ColorIndex colors)

Creates the generator with maybe a stack as the background, or else an empty background - and with default color green and flattened in Z.

Parameters:

background - stack that exists as a background for the object (or none, in which case a 0-valued grayscale background is assumed).

colors - colors to use for outlining of objects.

outlineWidth - width of the outline around an object.

Returns:

the newly created generator.

createFromGenerator

public static DrawObjectOnStackGenerator createFromGenerator(TransformingGenerator<org.anchoranalysis.spatial.box.BoundingBox,Stack> backgroundGenerator, int outlineWidth, ColorIndex colors)

Creates an extracted-object generator that draws an outline - with default color green and flattened in Z.

Parameters:

backgroundGenerator - generates a background for a bounding-box.

outlineWidth - width of the outline around an object.

colors - colors to use for outlining of objects.

Returns:

the newly created generator.

transform

public Stack transform(org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask> element) throws OutputWriteFailedException

Throws:

OutputWriteFailedException

guaranteedImageAttributes

public StackWriteAttributes guaranteedImageAttributes()

Description copied from class: RasterGenerator

Guarantees on the attributes of all images created by the generator.

Specified by:

guaranteedImageAttributes in class RasterGenerator<org.anchoranalysis.spatial.box.BoundedList<org.anchoranalysis.image.voxel.object.ObjectMask>>

Returns:

options that are guaranteed to be true of all images by the generator.