regenerated docs

Author: haesleinhuepf

dictionary_clesperanto.md

@@ -3588,7 +3588,7 @@ This list contains the dictionary to translate between clij2, clijx, clEsperanto
 
 ## label_minimum_intensity_map
 **CLIJ2**
-* boolean labelMinimumIntensityMap(ClearCLBuffer arg1, ClearCLBuffer arg2, ClearCLBuffer arg3)
+* boolean labelMinimumIntensityMap(ClearCLBuffer intensity_image, ClearCLBuffer label_map, ClearCLBuffer destination)
 
 **CLIc**
 * <span style="color:red">(Missing)</span>
@@ -3597,7 +3597,7 @@ This list contains the dictionary to translate between clij2, clijx, clEsperanto
 * <span style="color:red">(Missing)</span>
 
 **Macro**
-* <span style="color:red">(Missing)</span>
+* Ext.CLIJx_labelMinimumIntensityMap(Image intensity_image, Image label_map, ByRef Image destination)
 
 **pyclesperanto**
 * label_minimum_intensity_map(intensity_image : Image, labels : Image, minimum_intensity_map : Image = None):
@@ -8958,6 +8958,7 @@ This list contains the dictionary to translate between clij2, clijx, clEsperanto
 ## touch_matrix_to_adjacency_matrix
 **CLIJ2**
 * boolean touchMatrixToAdjacencyMatrix(ClearCLBuffer touch_matrix, ClearCLBuffer adjacency_matrix)
+* boolean touchMatrixToAdjacencyMatrix(ClearCLBuffer arg1, ClearCLBuffer arg2, boolean arg3)
 
 **CLIc**
 * <span style="color:red">(Missing)</span>
@@ -9263,16 +9264,20 @@ This list contains the dictionary to translate between clij2, clijx, clEsperanto
 * <span style="color:red">(Missing)</span>
 
 ## visualize_outlines_on_original
-<span style="color:green">(experimental)</span>
-
-**CLIJx**
+**CLIJ2**
 * boolean visualizeOutlinesOnOriginal(ClearCLBuffer intensity, ClearCLBuffer labels, ClearCLBuffer destination)
 
+**CLIc**
+* <span style="color:red">(Missing)</span>
+
 **clEsperantoJ**
 * ClearCLBuffer visualize_outlines_on_original(ClearCLBuffer intensity, ClearCLBuffer labels, ClearCLBuffer destination)
 
 **Macro**
-* Ext.CLIJx_visualizeOutlinesOnOriginal(Image intensity, Image labels, ByRef Image destination)
+* Ext.CLIJ2_visualizeOutlinesOnOriginal(Image intensity, Image labels, ByRef Image destination)
+
+**pyclesperanto**
+* <span style="color:red">(Missing)</span>
 
 ## voronoi_labeling
 **CLIJ2**

pom.xml

@@ -8,13 +8,13 @@
 	<parent>
 		<groupId>net.haesleinhuepf</groupId>
 		<artifactId>clij-parent-pom</artifactId>
-		<version>2.3.0.6</version>
+		<version>2.5.0.1</version>
 		<relativePath />
 	</parent>
 
 	<groupId>net.haesleinhuepf</groupId>
 	<artifactId>clij2-docs</artifactId>
-	<version>2.3.0.6</version>
+	<version>2.5.0.1</version>
 
 	<name>clij-docs</name>
 	<description>clij2-docs contains CLIJ documentation and documentation generators.</description>

reference.md

@@ -722,6 +722,9 @@ Takes an image and a corresponding label map, determines the mean intensity per
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMeanOfLaplacianMap">labelMeanOfLaplacianMap (Experimental)</a>  
 Takes an image and a corresponding label map, determines the mean intensity in the laplacian of the image per label and replaces every label with the that number.
 
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMinimumIntensityMap">labelMinimumIntensityMap (Experimental)</a>  
+Takes an image and a corresponding label map, determines the minimum intensity per label and replaces every label with the that number.
+
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelOverlapCountMap">labelOverlapCountMap</a>  
 Takes two label maps, and counts for every label in label map 1 how many labels overlap with it in label map 2.
 
@@ -1826,7 +1829,7 @@ Determines the variance in an image, but only in pixels which have non-zero valu
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_varianceSphere">varianceSphere</a>  
 Computes the local variance of a pixels spherical neighborhood. 
 
-### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal (Experimental)</a>  
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal</a>  
 Combines an intensity image and a label (or binary) image so that you can see segmentation outlines on the intensity image.
 
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_voronoiLabeling">voronoiLabeling</a>  

reference_StartContinuousWebcamAcquisition.md

@@ -4,7 +4,7 @@
 Starts acquistion of images from a webcam.
 
 Availability: Available in Fiji by activating the update sites clij and clij2.
-This function is part of clijx_-0.31.0.6.jar.
+This function is part of clijx_-0.32.0.1.jar.
 
 ### Usage in ImageJ macro
 ```

reference__binary.md

@@ -404,7 +404,7 @@ Takes a pointlist with dimensions n*d with n point coordinates in d dimensions a
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_varianceOfMaskedPixels">varianceOfMaskedPixels</a>  
 Determines the variance in an image, but only in pixels which have non-zero values in another binary mask image. 
 
-### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal (Experimental)</a>  
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal</a>  
 Combines an intensity image and a label (or binary) image so that you can see segmentation outlines on the intensity image.
 
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_voronoiLabeling">voronoiLabeling</a>  

reference__label.md

@@ -191,6 +191,9 @@ Takes an image and a corresponding label map, determines the mean intensity per
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMeanOfLaplacianMap">labelMeanOfLaplacianMap (Experimental)</a>  
 Takes an image and a corresponding label map, determines the mean intensity in the laplacian of the image per label and replaces every label with the that number.
 
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMinimumIntensityMap">labelMinimumIntensityMap (Experimental)</a>  
+Takes an image and a corresponding label map, determines the minimum intensity per label and replaces every label with the that number.
+
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelOverlapCountMap">labelOverlapCountMap</a>  
 Takes two label maps, and counts for every label in label map 1 how many labels overlap with it in label map 2.
 
@@ -464,7 +467,7 @@ Trains a Weka model using functionality of Fijis Trainable Weka Segmentation plu
 <a name="V"></a>
 
 ## V
-### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal (Experimental)</a>  
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal</a>  
 Combines an intensity image and a label (or binary) image so that you can see segmentation outlines on the intensity image.
 
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_voronoiLabeling">voronoiLabeling</a>  
@@ -482,4 +485,4 @@ Applies a pre-trained CLIJx-Weka model to an image and a corresponding label map
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_wekaRegionalLabelClassifier">wekaRegionalLabelClassifier (Experimental)</a>  
 Applies a pre-trained CLIJx-Weka model to an image and a corresponding label map to classify labeled objects.
 
-139 methods listed.
+140 methods listed.

reference__math.md

@@ -254,7 +254,7 @@ Copies all pixels instead those which are not a number (NaN) or infinity (inf),
 <a name="V"></a>
 
 ## V
-### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal (Experimental)</a>  
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal</a>  
 Combines an intensity image and a label (or binary) image so that you can see segmentation outlines on the intensity image.
 
 67 methods listed.

reference__measurement.md

@@ -230,6 +230,9 @@ Takes an image and a corresponding label map, determines the mean intensity per
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMeanOfLaplacianMap">labelMeanOfLaplacianMap (Experimental)</a>  
 Takes an image and a corresponding label map, determines the mean intensity in the laplacian of the image per label and replaces every label with the that number.
 
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMinimumIntensityMap">labelMinimumIntensityMap (Experimental)</a>  
+Takes an image and a corresponding label map, determines the minimum intensity per label and replaces every label with the that number.
+
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelOverlapCountMap">labelOverlapCountMap</a>  
 Takes two label maps, and counts for every label in label map 1 how many labels overlap with it in label map 2.
 
@@ -512,4 +515,4 @@ Determines the variance of all pixels in an image.
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_varianceOfMaskedPixels">varianceOfMaskedPixels</a>  
 Determines the variance in an image, but only in pixels which have non-zero values in another binary mask image. 
 
-150 methods listed.
+151 methods listed.

reference__pyclesperanto.md

@@ -356,6 +356,9 @@ Takes a label map, determines for every label the mean distance of any pixel to
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMeanIntensityMap">labelMeanIntensityMap (Experimental)</a>  
 Takes an image and a corresponding label map, determines the mean intensity per label and replaces every label with the that number.
 
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelMinimumIntensityMap">labelMinimumIntensityMap (Experimental)</a>  
+Takes an image and a corresponding label map, determines the minimum intensity per label and replaces every label with the that number.
+
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_labelPixelCountMap">labelPixelCountMap (Experimental)</a>  
 Takes a label map, determines the number of pixels per label and replaces every label with the that number.
 

reference__segmentation.md

@@ -143,7 +143,7 @@ Trains a Weka model using functionality of Fijis Trainable Weka Segmentation plu
 <a name="V"></a>
 
 ## V
-### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal (Experimental)</a>  
+### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_empty_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_visualizeOutlinesOnOriginal">visualizeOutlinesOnOriginal</a>  
 Combines an intensity image and a label (or binary) image so that you can see segmentation outlines on the intensity image.
 
 ### <img src="images/mini_empty_logo.png" width="18" height="18"/><img src="images/mini_clij2_logo.png" width="18" height="18"/><img src="images/mini_clijx_logo.png" width="18" height="18"/><img src="images/mini_cle_logo.png" width="18" height="18"/><a href="https://clij.github.io/clij2-docs/reference_voronoiOtsuLabeling">voronoiOtsuLabeling</a>  

reference_absolute.md

@@ -16,7 +16,7 @@ destination : Image
 Category: [Math](https://clij.github.io/clij2-docs/reference__math)
 
 Availability: Available in Fiji by activating the update sites clij and clij2.
-This function is part of clij2_-2.3.0.6.jar.
+This function is part of clij2_-2.5.0.1.jar.
 
 ### absolute often follows after
 * <a href="reference_subtractImages">subtractImages</a> (2)

reference_absoluteDifference.md

@@ -18,7 +18,7 @@ destination : Image
 Category: [Math](https://clij.github.io/clij2-docs/reference__math)
 
 Availability: Available in Fiji by activating the update sites clij and clij2.
-This function is part of clij2_-2.3.0.6.jar.
+This function is part of clij2_-2.5.0.1.jar.
 
 ### Usage in ImageJ macro
 ```

reference_absoluteInplace.md

@@ -8,7 +8,7 @@ Computes the absolute value of every individual pixel x in a given image.
 Deprecated: Use absolute() instead.
 
 Availability: Available in Fiji by activating the update sites clij and clij2.
-This function is part of clijx_-0.31.0.6.jar.
+This function is part of clijx_-0.32.0.1.jar.
 
 ### Usage in ImageJ macro
 ```

reference_addImageAndScalar.md

@@ -18,13 +18,14 @@ scalar : float
 Category: [Math](https://clij.github.io/clij2-docs/reference__math)
 
 Availability: Available in Fiji by activating the update sites clij and clij2.
-This function is part of clij2_-2.3.0.6.jar.
+This function is part of clij2_-2.5.0.1.jar.
 
 ### addImageAndScalar often follows after
 * <a href="reference_create3D">create3D</a> (1)
 
 
 ### addImageAndScalar is often followed by
+* <a href="reference_replaceIntensities">replaceIntensities</a> (1)
 * <a href="reference_absolute">absolute</a> (1)
 * <a href="reference_multiplyImageAndScalar">multiplyImageAndScalar</a> (1)
 
@@ -161,8 +162,15 @@ cle.add_image_and_scalar(source, destination, scalar)
 
 
 
+### Example notebooks
+<a href="https://clij.github.io/clij2-docs/md/parametric_images"><img src="images/language_macro.png" height="20"/></a> [parametric_images](https://clij.github.io/clij2-docs/md/parametric_images)  
+
+
+
+
 ### Example scripts
 <a href="https://github.com/clij/clij2-docs/blob/master/src/main/macro/absolute.ijm"><img src="images/language_macro.png" height="20"/></a> [absolute.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/absolute.ijm)  
+<a href="https://github.com/clij/clij2-docs/blob/master/src/main/macro/parametric_images.ijm"><img src="images/language_macro.png" height="20"/></a> [parametric_images.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/parametric_images.ijm)  
 
 
 [Back to CLIJ2 reference](https://clij.github.io/clij2-docs/reference)