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Imglib2 image server #13

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Merged
Rylern merged 14 commits into from
Nov 12, 2025
Merged

Imglib2 image server #13

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27c4009
Add ImgLib2ImageServer without readTile implementation
Rylern Oct 29, 2025
fe3ab52
First complete version of the image server
Rylern Oct 30, 2025
a21c7a8
Add tests
Rylern Oct 30, 2025
ec427ab
Add more tests
Rylern Oct 31, 2025
5fa59ca
Use firstElement() instead of getType()
Rylern Oct 31, 2025
2ccbce7
Handle alpha channel
Rylern Oct 31, 2025
86bd11c
Update README
Rylern Oct 31, 2025
3a435ed
Remove ImgLib2ServerBuilder
Rylern Nov 11, 2025
40c2fe9
Add builder
Rylern Nov 11, 2025
3d4fe06
Optimize RGB image creation
Rylern Nov 11, 2025
daf1413
More informative exceptions
Rylern Nov 11, 2025
5cc369d
Extract databuffer creations in dedicated functions
Rylern Nov 11, 2025
e6cd621
Static factory to create builder
Rylern Nov 12, 2025
7d9ccb0
Use List<? extends RandomAccessibleInterval<T>> instead of List<Rando…
Rylern Nov 12, 2025
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13 changes: 9 additions & 4 deletions README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -8,7 +8,7 @@ Here is a sample script that shows how to use the library from QuPath:

```groovy
import qupath.ext.imglib2.ImgCreator
import qupath.ext.imglib2.Dimension
import qupath.ext.imglib2.ImgLib2ImageServer
import net.imglib2.type.numeric.ARGBType


Expand Down Expand Up @@ -45,10 +45,15 @@ println safeImg
// For example, to read the pixel located at [x:1, y:2; c:0; z:0; t:0]:
var randomAccess = randomAccessible.randomAccess()

var position = new long[Dimension.values().length]
position[ImgCreator.getIndexOfDimension(Dimension.X)] = 1
position[ImgCreator.getIndexOfDimension(Dimension.Y)] = 2
var position = new long[ImgCreator.NUMBER_OF_AXES]
position[ImgCreator.AXIS_X] = 1
position[ImgCreator.AXIS_Y] = 2

var pixel = randomAccess.setPositionAndGet(position)
println pixel


// It is also possible to create an ImageServer from a RandomAccessible or Img.
var newServer = ImgLib2ImageServer.builder(List.of(randomAccessible)).build()
println newServer
```
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