Merge pull request #15 from qupath/img-builder

Rylern · web-flow · commit e31cb4d90284 · 2025-11-21T14:17:32.000Z
Add ImgBuilder and tests
diff --git a/README.md b/README.md
@@ -7,7 +7,7 @@ A Java library to link QuPath with ImgLib2.
 Here is a sample script that shows how to use the library from QuPath:
 
 ```groovy
-import qupath.ext.imglib2.ImgCreator
+import qupath.ext.imglib2.ImgBuilder
 import qupath.ext.imglib2.ImgLib2ImageServer
 import net.imglib2.type.numeric.ARGBType
 
@@ -16,13 +16,13 @@ var server = getCurrentServer()
 
 // Create Img<T> from level
 var level = 0
-var img = ImgCreator.builder(server).build().createForLevel(level)
+var img = ImgBuilder.createBuilder(server).build().createForLevel(level)
 println img
 
 
 // Create RandomAccessibleInterval<T> from downsample
 var downsample = 1
-var randomAccessible = ImgCreator.builder(server).build().createForDownsample(downsample)
+var randomAccessible = ImgBuilder.createBuilder(server).build().createForDownsample(downsample)
 println randomAccessible
 
 
@@ -37,17 +37,17 @@ var type = new ARGBType()   // only valid if server represents a RGB image. Othe
                             // net.imglib2.type.numeric.integer.IntType for INT32 images
                             // net.imglib2.type.numeric.real.FloatType for FLOAT32 images
                             // net.imglib2.type.numeric.real.DoubleType for FLOAT64 images
-var safeImg = ImgCreator.builder(server, type).build().createForLevel(level)
+var safeImg = ImgBuilder.createBuilder(server, type).build().createForLevel(level)
 println safeImg
 
 
 // Once you have an image (or random accessible), you can use regular ImgLib2 functions
 // 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[ImgCreator.NUMBER_OF_AXES]
-position[ImgCreator.AXIS_X] = 1
-position[ImgCreator.AXIS_Y] = 2
+var position = new long[ImgBuilder.NUMBER_OF_AXES]
+position[ImgBuilder.AXIS_X] = 1
+position[ImgBuilder.AXIS_Y] = 2
 
 var pixel = randomAccess.setPositionAndGet(position)
 println pixel
diff --git a/src/main/java/qupath/ext/imglib2/ImgBuilder.java b/src/main/java/qupath/ext/imglib2/ImgBuilder.java
diff --git a/src/main/java/qupath/ext/imglib2/ImgCreator.java b/src/main/java/qupath/ext/imglib2/ImgCreator.java
diff --git a/src/main/java/qupath/ext/imglib2/ImgLib2ImageServer.java b/src/main/java/qupath/ext/imglib2/ImgLib2ImageServer.java
diff --git a/src/main/java/qupath/ext/imglib2/accesses/AccessTools.java b/src/main/java/qupath/ext/imglib2/accesses/AccessTools.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import org.slf4j.Logger;
 import org.slf4j.LoggerFactory;
diff --git a/src/main/java/qupath/ext/imglib2/accesses/ArgbBufferedImageAccess.java b/src/main/java/qupath/ext/imglib2/accesses/ArgbBufferedImageAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.IntAccess;
 import net.imglib2.img.basictypeaccess.volatiles.VolatileAccess;
diff --git a/src/main/java/qupath/ext/imglib2/accesses/ByteRasterAccess.java b/src/main/java/qupath/ext/imglib2/accesses/ByteRasterAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.ByteAccess;
 import net.imglib2.img.basictypeaccess.volatiles.VolatileAccess;
diff --git a/src/main/java/qupath/ext/imglib2/accesses/DoubleRasterAccess.java b/src/main/java/qupath/ext/imglib2/accesses/DoubleRasterAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.DoubleAccess;
 import net.imglib2.img.basictypeaccess.volatiles.VolatileAccess;
diff --git a/src/main/java/qupath/ext/imglib2/accesses/FloatRasterAccess.java b/src/main/java/qupath/ext/imglib2/accesses/FloatRasterAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.FloatAccess;
 import net.imglib2.img.basictypeaccess.volatiles.VolatileAccess;
diff --git a/src/main/java/qupath/ext/imglib2/accesses/IntRasterAccess.java b/src/main/java/qupath/ext/imglib2/accesses/IntRasterAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.IntAccess;
 import net.imglib2.img.basictypeaccess.volatiles.VolatileAccess;
diff --git a/src/main/java/qupath/ext/imglib2/accesses/ShortRasterAccess.java b/src/main/java/qupath/ext/imglib2/accesses/ShortRasterAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.ShortAccess;
 import net.imglib2.img.basictypeaccess.volatiles.VolatileAccess;
diff --git a/src/main/java/qupath/ext/imglib2/accesses/package-info.java b/src/main/java/qupath/ext/imglib2/accesses/package-info.java
@@ -2,4 +2,4 @@
  * This package contains {@link net.imglib2.img.basictypeaccess.DataAccess} whose values are taken
  * from {@link java.awt.image.BufferedImage} or {@link java.awt.image.Raster}.
  */
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
diff --git a/src/main/java/qupath/ext/imglib2/package-info.java b/src/main/java/qupath/ext/imglib2/package-info.java
@@ -2,7 +2,7 @@
  * This package contains classes to create and work with ImgLib2 accessibles from QuPath {@link qupath.lib.images.servers.ImageServer}:
  * <ul>
  *     <li>
- *         The {@link qupath.ext.imglib2.ImgCreator} class create {@link net.imglib2.img.Img} or {@link net.imglib2.RandomAccessibleInterval}
+ *         The {@link qupath.ext.imglib2.ImgBuilder} class create {@link net.imglib2.img.Img} or {@link net.imglib2.RandomAccessibleInterval}
  *         from {@link qupath.lib.images.servers.ImageServer}.
  *     </li>
  *     <li>
diff --git a/src/test/java/qupath/ext/imglib2/TestImgBuilder.java b/src/test/java/qupath/ext/imglib2/TestImgBuilder.java
@@ -1,7 +1,6 @@
 package qupath.ext.imglib2;
 
 import net.imglib2.RandomAccessibleInterval;
-import net.imglib2.img.Img;
 import net.imglib2.type.numeric.ARGBType;
 import net.imglib2.type.numeric.integer.ByteType;
 import net.imglib2.type.numeric.integer.IntType;
@@ -36,15 +35,15 @@
 import java.util.List;
 import java.util.concurrent.atomic.AtomicInteger;
 
-public class TestImgCreator {
+public class TestImgBuilder {
 
     @Test
     void Check_Rgb_Server() throws Exception {
         boolean isRgb = true;
         PixelType pixelType = PixelType.UINT8;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<ARGBType> img = ImgCreator.builder(imageServer, new ARGBType()).build().createForLevel(0);
+        RandomAccessibleInterval<ARGBType> img = ImgBuilder.createBuilder(imageServer, new ARGBType()).buildForLevel(0);
 
         Utils.assertArgbRandomAccessibleEquals(img, (x, y, channel, z, t) -> ARGBType.rgba(255, 0, 0, 0), 1);
 
@@ -57,7 +56,7 @@ void Check_Uint8_Server() throws Exception {
         PixelType pixelType = PixelType.UINT8;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<UnsignedByteType> img = ImgCreator.builder(imageServer, new UnsignedByteType()).build().createForLevel(0);
+        RandomAccessibleInterval<UnsignedByteType> img = ImgBuilder.createBuilder(imageServer, new UnsignedByteType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -70,7 +69,7 @@ void Check_Int8_Server() throws Exception {
         PixelType pixelType = PixelType.INT8;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<ByteType> img = ImgCreator.builder(imageServer, new ByteType()).build().createForLevel(0);
+        RandomAccessibleInterval<ByteType> img = ImgBuilder.createBuilder(imageServer, new ByteType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -83,7 +82,7 @@ void Check_Uint16_Server() throws Exception {
         PixelType pixelType = PixelType.UINT16;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<UnsignedShortType> img = ImgCreator.builder(imageServer, new UnsignedShortType()).build().createForLevel(0);
+        RandomAccessibleInterval<UnsignedShortType> img = ImgBuilder.createBuilder(imageServer, new UnsignedShortType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -96,7 +95,7 @@ void Check_Int16_Server() throws Exception {
         PixelType pixelType = PixelType.INT16;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<ShortType> img = ImgCreator.builder(imageServer, new ShortType()).build().createForLevel(0);
+        RandomAccessibleInterval<ShortType> img = ImgBuilder.createBuilder(imageServer, new ShortType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -109,7 +108,7 @@ void Check_Uint32_Server() throws Exception {
         PixelType pixelType = PixelType.UINT32;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<UnsignedIntType> img = ImgCreator.builder(imageServer, new UnsignedIntType()).build().createForLevel(0);
+        RandomAccessibleInterval<UnsignedIntType> img = ImgBuilder.createBuilder(imageServer, new UnsignedIntType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -122,7 +121,7 @@ void Check_Int32_Server() throws Exception {
         PixelType pixelType = PixelType.INT32;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<IntType> img = ImgCreator.builder(imageServer, new IntType()).build().createForLevel(0);
+        RandomAccessibleInterval<IntType> img = ImgBuilder.createBuilder(imageServer, new IntType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -135,7 +134,7 @@ void Check_Float32_Server() throws Exception {
         PixelType pixelType = PixelType.FLOAT32;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<FloatType> img = ImgCreator.builder(imageServer, new FloatType()).build().createForLevel(0);
+        RandomAccessibleInterval<FloatType> img = ImgBuilder.createBuilder(imageServer, new FloatType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -148,7 +147,7 @@ void Check_Float64_Server() throws Exception {
         PixelType pixelType = PixelType.FLOAT64;
         ImageServer<BufferedImage> imageServer = new GenericImageServer(isRgb, pixelType);
 
-        Img<DoubleType> img = ImgCreator.builder(imageServer, new DoubleType()).build().createForLevel(0);
+        RandomAccessibleInterval<DoubleType> img = ImgBuilder.createBuilder(imageServer, new DoubleType()).buildForLevel(0);
 
         Utils.assertRandomAccessibleEquals(img, (x, y, channel, z, t) -> 1, 1);
 
@@ -159,8 +158,8 @@ void Check_Float64_Server() throws Exception {
     void Check_X_Dimension_Size() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         int expectedSize = imageServer.getWidth();
-        Img<?> img = ImgCreator.builder(imageServer).build().createForLevel(0);
-        int dimensionIndex = ImgCreator.AXIS_X;
+        RandomAccessibleInterval<?> img = ImgBuilder.createBuilder(imageServer).buildForLevel(0);
+        int dimensionIndex = ImgBuilder.AXIS_X;
 
         Assertions.assertEquals(expectedSize, img.dimension(dimensionIndex));
 
@@ -171,8 +170,8 @@ void Check_X_Dimension_Size() throws Exception {
     void Check_Y_Dimension_Size() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         int expectedSize = imageServer.getHeight();
-        Img<?> img = ImgCreator.builder(imageServer).build().createForLevel(0);
-        int dimensionIndex = ImgCreator.AXIS_Y;
+        RandomAccessibleInterval<?> img = ImgBuilder.createBuilder(imageServer).buildForLevel(0);
+        int dimensionIndex = ImgBuilder.AXIS_Y;
 
         Assertions.assertEquals(expectedSize, img.dimension(dimensionIndex));
 
@@ -183,8 +182,8 @@ void Check_Y_Dimension_Size() throws Exception {
     void Check_Channel_Dimension_Size() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         int expectedSize = imageServer.nChannels();
-        Img<?> img = ImgCreator.builder(imageServer).build().createForLevel(0);
-        int dimensionIndex = ImgCreator.AXIS_CHANNEL;
+        RandomAccessibleInterval<?> img = ImgBuilder.createBuilder(imageServer).buildForLevel(0);
+        int dimensionIndex = ImgBuilder.AXIS_CHANNEL;
 
         Assertions.assertEquals(expectedSize, img.dimension(dimensionIndex));
 
@@ -195,8 +194,8 @@ void Check_Channel_Dimension_Size() throws Exception {
     void Check_Z_Dimension_Size() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         int expectedSize = imageServer.getMetadata().getSizeZ();
-        Img<?> img = ImgCreator.builder(imageServer).build().createForLevel(0);
-        int dimensionIndex = ImgCreator.AXIS_Z;
+        RandomAccessibleInterval<?> img = ImgBuilder.createBuilder(imageServer).buildForLevel(0);
+        int dimensionIndex = ImgBuilder.AXIS_Z;
 
         Assertions.assertEquals(expectedSize, img.dimension(dimensionIndex));
 
@@ -207,8 +206,8 @@ void Check_Z_Dimension_Size() throws Exception {
     void Check_Time_Dimension_Size() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         int expectedSize = imageServer.getMetadata().getSizeT();
-        Img<?> img = ImgCreator.builder(imageServer).build().createForLevel(0);
-        int dimensionIndex = ImgCreator.AXIS_TIME;
+        RandomAccessibleInterval<?> img = ImgBuilder.createBuilder(imageServer).buildForLevel(0);
+        int dimensionIndex = ImgBuilder.AXIS_TIME;
 
         Assertions.assertEquals(expectedSize, img.dimension(dimensionIndex));
 
@@ -221,7 +220,7 @@ void Check_Pixels_Of_Level_0() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         double downsample = imageServer.getDownsampleForResolution(level);
 
-        Img<DoubleType> img = ImgCreator.builder(imageServer, new DoubleType()).build().createForLevel(level);
+        RandomAccessibleInterval<DoubleType> img = ImgBuilder.createBuilder(imageServer, new DoubleType()).buildForLevel(level);
 
         Utils.assertRandomAccessibleEquals(img, ComplexDoubleImageServer::getPixel, downsample);
 
@@ -234,7 +233,7 @@ void Check_Pixels_Of_Level_1() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         double downsample = imageServer.getDownsampleForResolution(level);
 
-        Img<DoubleType> img = ImgCreator.builder(imageServer, new DoubleType()).build().createForLevel(level);
+        RandomAccessibleInterval<DoubleType> img = ImgBuilder.createBuilder(imageServer, new DoubleType()).buildForLevel(level);
 
         Utils.assertRandomAccessibleEquals(img, ComplexDoubleImageServer::getPixel, downsample);
 
@@ -247,7 +246,7 @@ void Check_Pixels_Of_Downsample_1() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         double downsample = imageServer.getDownsampleForResolution(level);
 
-        RandomAccessibleInterval<DoubleType> img = ImgCreator.builder(imageServer, new DoubleType()).build().createForDownsample(downsample);
+        RandomAccessibleInterval<DoubleType> img = ImgBuilder.createBuilder(imageServer, new DoubleType()).buildForDownsample(downsample);
 
         Utils.assertRandomAccessibleEquals(img, ComplexDoubleImageServer::getPixel, downsample);
 
@@ -260,7 +259,7 @@ void Check_Pixels_Of_Downsample_4() throws Exception {
         ImageServer<BufferedImage> imageServer = new ComplexDoubleImageServer();
         double downsample = imageServer.getDownsampleForResolution(level);
 
-        RandomAccessibleInterval<DoubleType> img = ImgCreator.builder(imageServer, new DoubleType()).build().createForDownsample(downsample);
+        RandomAccessibleInterval<DoubleType> img = ImgBuilder.createBuilder(imageServer, new DoubleType()).buildForDownsample(downsample);
 
         Utils.assertRandomAccessibleEquals(img, ComplexDoubleImageServer::getPixel, downsample);
 
diff --git a/src/test/java/qupath/ext/imglib2/Utils.java b/src/test/java/qupath/ext/imglib2/Utils.java
@@ -62,11 +62,11 @@ public static <T extends NativeType<T> & RealType<T>> Img<T> createImg(long[] di
 
             cursor.localize(position);
             int index = Math.toIntExact(
-                    position[ImgCreator.AXIS_X] +
-                            position[ImgCreator.AXIS_Y] * dimensions[ImgCreator.AXIS_X] +
-                            position[ImgCreator.AXIS_CHANNEL] * dimensions[ImgCreator.AXIS_X] * dimensions[ImgCreator.AXIS_Y] +
-                            position[ImgCreator.AXIS_Z] * dimensions[ImgCreator.AXIS_X] * dimensions[ImgCreator.AXIS_Y] * dimensions[ImgCreator.AXIS_CHANNEL] +
-                            position[ImgCreator.AXIS_TIME] * dimensions[ImgCreator.AXIS_X] * dimensions[ImgCreator.AXIS_Y] * dimensions[ImgCreator.AXIS_CHANNEL] * dimensions[ImgCreator.AXIS_Z]
+                    position[ImgBuilder.AXIS_X] +
+                            position[ImgBuilder.AXIS_Y] * dimensions[ImgBuilder.AXIS_X] +
+                            position[ImgBuilder.AXIS_CHANNEL] * dimensions[ImgBuilder.AXIS_X] * dimensions[ImgBuilder.AXIS_Y] +
+                            position[ImgBuilder.AXIS_Z] * dimensions[ImgBuilder.AXIS_X] * dimensions[ImgBuilder.AXIS_Y] * dimensions[ImgBuilder.AXIS_CHANNEL] +
+                            position[ImgBuilder.AXIS_TIME] * dimensions[ImgBuilder.AXIS_X] * dimensions[ImgBuilder.AXIS_Y] * dimensions[ImgBuilder.AXIS_CHANNEL] * dimensions[ImgBuilder.AXIS_Z]
             );
 
             value.setReal(pixels[index]);
@@ -85,11 +85,11 @@ public static Img<ARGBType> createArgbImg(long[] dimensions, int[] pixels) {
 
             cursor.localize(position);
             int index = Math.toIntExact(
-                    position[ImgCreator.AXIS_X] +
-                            position[ImgCreator.AXIS_Y] * dimensions[ImgCreator.AXIS_X] +
-                            position[ImgCreator.AXIS_CHANNEL] * dimensions[ImgCreator.AXIS_X] * dimensions[ImgCreator.AXIS_Y] +
-                            position[ImgCreator.AXIS_Z] * dimensions[ImgCreator.AXIS_X] * dimensions[ImgCreator.AXIS_Y] * dimensions[ImgCreator.AXIS_CHANNEL] +
-                            position[ImgCreator.AXIS_TIME] * dimensions[ImgCreator.AXIS_X] * dimensions[ImgCreator.AXIS_Y] * dimensions[ImgCreator.AXIS_CHANNEL] * dimensions[ImgCreator.AXIS_Z]
+                    position[ImgBuilder.AXIS_X] +
+                            position[ImgBuilder.AXIS_Y] * dimensions[ImgBuilder.AXIS_X] +
+                            position[ImgBuilder.AXIS_CHANNEL] * dimensions[ImgBuilder.AXIS_X] * dimensions[ImgBuilder.AXIS_Y] +
+                            position[ImgBuilder.AXIS_Z] * dimensions[ImgBuilder.AXIS_X] * dimensions[ImgBuilder.AXIS_Y] * dimensions[ImgBuilder.AXIS_CHANNEL] +
+                            position[ImgBuilder.AXIS_TIME] * dimensions[ImgBuilder.AXIS_X] * dimensions[ImgBuilder.AXIS_Y] * dimensions[ImgBuilder.AXIS_CHANNEL] * dimensions[ImgBuilder.AXIS_Z]
             );
 
             value.set(pixels[index]);
@@ -108,11 +108,11 @@ public static <T extends RealType<T>> void assertRandomAccessibleEquals(RandomAc
 
             Assertions.assertEquals(
                     pixelGetter.get(
-                            (int) (position[ImgCreator.AXIS_X] * downsample),
-                            (int) (position[ImgCreator.AXIS_Y] * downsample),
-                            position[ImgCreator.AXIS_CHANNEL],
-                            position[ImgCreator.AXIS_Z],
-                            position[ImgCreator.AXIS_TIME]
+                            (int) (position[ImgBuilder.AXIS_X] * downsample),
+                            (int) (position[ImgBuilder.AXIS_Y] * downsample),
+                            position[ImgBuilder.AXIS_CHANNEL],
+                            position[ImgBuilder.AXIS_Z],
+                            position[ImgBuilder.AXIS_TIME]
                     ),
                     pixel.getRealDouble()
             );
@@ -129,11 +129,11 @@ public static void assertArgbRandomAccessibleEquals(RandomAccessibleInterval<ARG
 
             Assertions.assertEquals(
                     pixelGetter.get(
-                            (int) (position[ImgCreator.AXIS_X] * downsample),
-                            (int) (position[ImgCreator.AXIS_Y] * downsample),
-                            position[ImgCreator.AXIS_CHANNEL],
-                            position[ImgCreator.AXIS_Z],
-                            position[ImgCreator.AXIS_TIME]
+                            (int) (position[ImgBuilder.AXIS_X] * downsample),
+                            (int) (position[ImgBuilder.AXIS_Y] * downsample),
+                            position[ImgBuilder.AXIS_CHANNEL],
+                            position[ImgBuilder.AXIS_Z],
+                            position[ImgBuilder.AXIS_TIME]
                     ),
                     pixel.get()
             );
diff --git a/src/test/java/qupath/ext/imglib2/accesses/TestArgbBufferedImageAccess.java b/src/test/java/qupath/ext/imglib2/accesses/TestArgbBufferedImageAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.IntAccess;
 import net.imglib2.type.numeric.ARGBType;
diff --git a/src/test/java/qupath/ext/imglib2/accesses/TestByteRasterAccess.java b/src/test/java/qupath/ext/imglib2/accesses/TestByteRasterAccess.java
@@ -1,4 +1,4 @@
-package qupath.ext.imglib2.bufferedimageaccesses;
+package qupath.ext.imglib2.accesses;
 
 import net.imglib2.img.basictypeaccess.ByteAccess;
 import org.junit.jupiter.api.Assertions;
diff --git a/src/test/java/qupath/ext/imglib2/accesses/TestDoubleRasterAccess.java b/src/test/java/qupath/ext/imglib2/accesses/TestDoubleRasterAccess.java
diff --git a/src/test/java/qupath/ext/imglib2/accesses/TestFloatRasterAccess.java b/src/test/java/qupath/ext/imglib2/accesses/TestFloatRasterAccess.java
diff --git a/src/test/java/qupath/ext/imglib2/accesses/TestIntRasterAccess.java b/src/test/java/qupath/ext/imglib2/accesses/TestIntRasterAccess.java
diff --git a/src/test/java/qupath/ext/imglib2/accesses/TestShortRasterAccess.java b/src/test/java/qupath/ext/imglib2/accesses/TestShortRasterAccess.java

Original file line number	Diff line number	Diff line change
`@@ -1,4 +1,4 @@`
`1`		`-package qupath.ext.imglib2.bufferedimageaccesses;`
	`1`	`+package qupath.ext.imglib2.accesses;`
`2`	`2`
`3`	`3`	`import org.slf4j.Logger;`
`4`	`4`	`import org.slf4j.LoggerFactory;`