Package qupath.lib.images.servers

Class ChannelTransformFeatureServer

java.lang.Object

qupath.lib.images.servers.AbstractImageServer<BufferedImage>

qupath.lib.images.servers.TransformingImageServer<BufferedImage>

qupath.lib.images.servers.ChannelTransformFeatureServer

All Implemented Interfaces:

AutoCloseable, ImageServer<BufferedImage>

public class ChannelTransformFeatureServer
extends TransformingImageServer<BufferedImage>

A TransformingImageServer that applies color transforms to generate channels.

Author:

Pete Bankhead

Method Summary

Modifier and Type	Method	Description
protected String	createID()	Returns a UUID.
protected ImageServerBuilder.ServerBuilder<BufferedImage>	createServerBuilder()	Returns null (does not support ServerBuilders).
protected ColorModel	getColorModel()
ImageServerMetadata	getOriginalMetadata()	Get the original metadata read during creation of the server.
String	getServerType()	A string describing the type of server, for example the name of the library used (Openslide, Bioformats...)
BufferedImage	readRegion(RegionRequest request)	Read a 2D(+C) image region for a specified RegionRequest.

Methods inherited from class qupath.lib.images.servers.TransformingImageServer

getURIs, getWrappedServer

Methods inherited from class qupath.lib.images.servers.AbstractImageServer

close, finalize, getAssociatedImage, getAssociatedImageList, getBuilder, getCache, getCachedTile, getChannel, getDefaultThumbnail, getDownsampleForResolution, getHeight, getImageClass, getMetadata, getPath, getPixelType, getPreferredDownsamples, getThumbnailDownsampleFactor, getTileRequestManager, getWidth, isEmptyRegion, isRGB, nChannels, nResolutions, nTimepoints, nZSlices, setMetadata, toString

Methods inherited from class java.lang.Object

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

Methods inherited from interface qupath.lib.images.servers.ImageServer

getPixelCalibration, readBufferedImage, readRegion, readRegion

Method Details

getColorModel

protected ColorModel getColorModel()

createServerBuilder

protected ImageServerBuilder.ServerBuilder<BufferedImage> createServerBuilder()

Returns null (does not support ServerBuilders).

Specified by:

createServerBuilder in class AbstractImageServer<BufferedImage>

Returns:

createID

protected String createID()

Returns a UUID.

Specified by:

createID in class AbstractImageServer<BufferedImage>

Returns:

readRegion

public BufferedImage readRegion(RegionRequest request)
                         throws IOException

Description copied from interface: ImageServer

Read a 2D(+C) image region for a specified RegionRequest. Coordinates and bounding box dimensions from the request are in pixel units, at the full image resolution (i.e. when downsample = 1).

All channels are always returned.

No specific checking is guaranteed to ensure that the request is valid, e.g. if it extends beyond the image boundary then it is likely (but not certain) that the returned image will be cropped accordingly - but some implementations may contain empty padding instead. Therefore it is up to the caller to ensure that the requests are within range.

However, it is expected that any returnable region will be at least 1x1 pixel in size, even if via high downsampling one might otherwise expect a 0x0 image. This is consistent with the idea of pixels representing point samples rather than little squares.

Note: One should avoid returning null, as this cannot be stored as a value in some map implementations that may be used for caching.

Specified by:

readRegion in interface ImageServer<BufferedImage>

Overrides:

readRegion in class TransformingImageServer<BufferedImage>

Parameters:

request - the region for which pixels are requested

Returns:

pixels for the region being requested

Throws:

IOException

See Also:

• ImageServer.readRegion(double, int, int, int, int, int, int)
• ImageServer.readRegion(double, int, int, int, int)
• ImageServer.readBufferedImage(RegionRequest)

getOriginalMetadata

public ImageServerMetadata getOriginalMetadata()

Description copied from interface: ImageServer

Get the original metadata read during creation of the server. This may or may not be correct.

Specified by:

getOriginalMetadata in interface ImageServer<BufferedImage>

Overrides:

getOriginalMetadata in class TransformingImageServer<BufferedImage>

Returns:

See Also:

• ImageServer.getMetadata()

getServerType

public String getServerType()

Description copied from interface: ImageServer

A string describing the type of server, for example the name of the library used (Openslide, Bioformats...)

Returns: