Package qupath.lib.regions

Class RegionRequest

java.lang.Object

qupath.lib.regions.ImageRegion

qupath.lib.regions.RegionRequest

public class RegionRequest
extends ImageRegion

Class for defining an image region that can also be used to request these region from an ImageServer.

In addition to the information contained within an ImageRegion, also contains the path to the image (and optionally an additional image name stored within it) and a downsample value.

Author:

Pete Bankhead

Method Summary

Modifier and Type	Method	Description
static List<RegionRequest>	createAllRequests(ImageServer<?> server, double downsample)	Create requests for the full width and height of an ImageServer, for all planes (z-slices and time points).
static RegionRequest	createInstance(String path, double downsample, int x, int y, int width, int height)	Create a request for a region specified in terms of its bounding box, using the first z-slice and time point.
static RegionRequest	createInstance(String path, double downsample, int x, int y, int width, int height, int z, int t)	Create a request for a region specified in terms of its bounding box, z-slice and time point.
static RegionRequest	createInstance(String path, double downsample, int x, int y, int width, int height, ImagePlane plane)	Create a request for a region specified in terms of its bounding box and ImagePlane.
static RegionRequest	createInstance(String path, double downsample, Collection<? extends ROI> rois)	Create a request that contains the pixels of the specified ROIs.
static RegionRequest	createInstance(String path, double downsample, ImageRegion region)	Create a request corresponding to a specified ImageRegion.
static RegionRequest	createInstance(String path, double downsample, ROI roi)	Create a request that contains the pixels of the specified ROI.
static RegionRequest	createInstance(String path, RegionRequest request)	Create a request that matches another request but with a different path.
static RegionRequest	createInstance(ImageServer<?> server)	Create a request for the full width and height of an ImageServer, for the default plane (first z-slice, time point) and first resolution level downsample (usually 1, but not always).
static RegionRequest	createInstance(ImageServer<?> server, double downsample)	Create a request for the full width and height of an ImageServer, for the default plane (first z-slice, time point).
boolean	equals(Object obj)
double	getDownsample()	Get the requested downsample factor, defining the resolution at which pixels should be returned.
String	getPath()	Get the requested ImageServer path, used as an identifier.
int	hashCode()
RegionRequest	intersect2D(int x, int y, int width, int height)	Intersect to the specified 2D region.
RegionRequest	intersect2D(ImageRegion region)	Intersect to the specified 2D region, ignoring z and t.
boolean	overlapsRequest(RegionRequest request)	Returns true if the region specified by this request overlaps with that of another request.
RegionRequest	pad2D(int xPad, int yPad)	Add symmetric padding to the x and y dimensions of a request.
RegionRequest	pad2D(Padding padding)	Add symmetric padding to the x and y dimensions of a request.
String	toString()
RegionRequest	translate(int dx, int dy)	Create a RegionRequest equivalent to this one with the x and y coordinates updated by translation.
RegionRequest	updateDownsample(double downsample)	Create a RegionRequest equivalent to this one with the updated downsample value.
RegionRequest	updatePath(String path)	Create a RegionRequest equivalent to this one with the updated path.
RegionRequest	updateT(int t)	Create a RegionRequest equivalent to this one with the updated t value.
RegionRequest	updateZ(int z)	Create a RegionRequest equivalent to this one with the updated z value.

Methods inherited from class qupath.lib.regions.ImageRegion

contains, createInstance, createInstance, createInstance, getHeight, getImagePlane, getMaxX, getMaxY, getMinX, getMinY, getPlane, getT, getWidth, getX, getY, getZ, intersects, intersects

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Method Details

toString

public String toString()

Overrides:

toString in class ImageRegion

createInstance

public static RegionRequest createInstance(ImageServer<?> server)

Create a request for the full width and height of an ImageServer, for the default plane (first z-slice, time point) and first resolution level downsample (usually 1, but not always).

Parameters:

server -

Returns:

createInstance

public static RegionRequest createInstance(ImageServer<?> server,
 double downsample)

Create a request for the full width and height of an ImageServer, for the default plane (first z-slice, time point).

Parameters:

server -

downsample -

Returns:

createAllRequests

public static List<RegionRequest> createAllRequests(ImageServer<?> server,
 double downsample)

Create requests for the full width and height of an ImageServer, for all planes (z-slices and time points).

Parameters:

server -

downsample -

Returns:

createInstance

public static RegionRequest createInstance(String path,
 double downsample,
 ROI roi)

Create a request that contains the pixels of the specified ROI. This is calculated using the ROI bounding box.

Parameters:

path -

downsample -

roi -

Returns:

createInstance

public static RegionRequest createInstance(String path,
 double downsample,
 Collection<? extends ROI> rois)

Create a request that contains the pixels of the specified ROIs. This is calculated using the ROI bounding boxes.

Parameters:

path -

downsample -

rois -

Returns:

Throws:

IllegalArgumentException - if the ROIs do not all fall on the same ImagePlane.

createInstance

public static RegionRequest createInstance(String path,
 RegionRequest request)

Create a request that matches another request but with a different path.

Parameters:

path -

request -

Returns:

createInstance

public static RegionRequest createInstance(String path,
 double downsample,
 ImageRegion region)

Create a request corresponding to a specified ImageRegion. This may also be used to construct a request based on an existing request, but changing either the path or downsample.

Parameters:

path -

downsample -

region -

Returns:

createInstance

public static RegionRequest createInstance(String path,
 double downsample,
 int x,
 int y,
 int width,
 int height,
 int z,
 int t)

Create a request for a region specified in terms of its bounding box, z-slice and time point.

Parameters:

path -

downsample -

x -

y -

width -

height -

z -

t -

Returns:

createInstance

public static RegionRequest createInstance(String path,
 double downsample,
 int x,
 int y,
 int width,
 int height,
 ImagePlane plane)

Create a request for a region specified in terms of its bounding box and ImagePlane.

Parameters:

path -

downsample -

x -

y -

width -

height -

plane -

Returns:

createInstance

public static RegionRequest createInstance(String path,
 double downsample,
 int x,
 int y,
 int width,
 int height)

Create a request for a region specified in terms of its bounding box, using the first z-slice and time point.

Parameters:

path -

downsample -

x -

y -

width -

height -

Returns:

overlapsRequest

public boolean overlapsRequest(RegionRequest request)

Returns true if the region specified by this request overlaps with that of another request. The test includes insuring that they refer to the same image by checking the paths are the same.

Parameters:

request -

Returns:

getPath

public String getPath()

Get the requested ImageServer path, used as an identifier.

Returns:

See Also:

• ImageServer.getPath()

getDownsample

public double getDownsample()

Get the requested downsample factor, defining the resolution at which pixels should be returned.

Returns:

intersect2D

public RegionRequest intersect2D(ImageRegion region)

Intersect to the specified 2D region, ignoring z and t.

Parameters:

region - the region defining the x, y, width and height of the maximum permitted bounding box.

Returns:

the clipped RegionRequest, which may be this if no clipping is required.

intersect2D

public RegionRequest intersect2D(int x,
 int y,
 int width,
 int height)

Intersect to the specified 2D region.

Parameters:

x - x-coordinate of the second region's bounding box

y - y-coordinate of the second region's bounding box

width - width of the second region's bounding box

height - height of the second region's bounding box

Returns:

the clipped RegionRequest, which may be this if no clipping is required.

updateZ

public RegionRequest updateZ(int z)

Create a RegionRequest equivalent to this one with the updated z value.

Parameters:

z - requested z position

Returns:

RegionRequest with the specified z value (may be this object unchanged).

updateT

public RegionRequest updateT(int t)

Create a RegionRequest equivalent to this one with the updated t value.

Parameters:

t - requested t position

Returns:

RegionRequest with the specified t value (may be this object unchanged).

updateDownsample

public RegionRequest updateDownsample(double downsample)

Create a RegionRequest equivalent to this one with the updated downsample value.

Parameters:

downsample - requested downsample position

Returns:

RegionRequest with the specified downsample value (may be this object unchanged).

updatePath

public RegionRequest updatePath(String path)

Create a RegionRequest equivalent to this one with the updated path.

Parameters:

path - requested path position

Returns:

RegionRequest with the specified path value (may be this object unchanged).

translate

public RegionRequest translate(int dx,
 int dy)

Create a RegionRequest equivalent to this one with the x and y coordinates updated by translation.

Parameters:

dx - value to add to the x coordinate

dy - value to add to the y coordinate

Returns:

RegionRequest with the specified path value (may be this object unchanged).

pad2D

public RegionRequest pad2D(int xPad,
 int yPad)

Add symmetric padding to the x and y dimensions of a request.

Parameters:

xPad - padding to add along the x dimension; the width will be adjusted by xPad * 2

yPad - padding to add along the y dimension; the height will be adjusted by yPad * 2

Returns:

RegionRequest with the specified padding (may be this object unchanged if the padding is zero).

pad2D

public RegionRequest pad2D(Padding padding)

Add symmetric padding to the x and y dimensions of a request.

Parameters:

padding - padding to add

Returns:

RegionRequest with the specified padding (may be this object unchanged if the padding is zero).

hashCode

public int hashCode()

Overrides:

hashCode in class ImageRegion

equals

public boolean equals(Object obj)

Overrides:

equals in class ImageRegion