From c345bb6375a4db9c73ec1005e1339df34171dd40 Mon Sep 17 00:00:00 2001 From: haesleinhuepf Date: Fri, 19 Feb 2021 20:43:42 +0100 Subject: [PATCH] regenerated docs --- dictionary_clesperanto.md | 28 ++++++- reference.md | 12 ++- reference__graph.md | 5 +- reference__label.md | 5 +- reference__math.md | 2 +- reference__measurement.md | 10 ++- reference__pyclesperanto.md | 2 +- reference_clear.md | 1 + reference_create2D.md | 1 + reference_generateLabelFeatureImage.md | 8 -- reference_multiplyImages.md | 2 +- reference_pull.md | 1 + reference_pullToResultsTable.md | 6 ++ reference_push.md | 1 + reference_pushResultsTable.md | 5 ++ reference_readIntensitiesFromMap.md | 96 +----------------------- reference_readValuesFromMap.md | 100 +++++++++++++++++++++++++ reference_readValuesFromPositions.md | 98 ++++++++++++++++++++++++ reference_release.md | 3 + reference_set.md | 1 + reference_setRandom.md | 1 + reference_sumImageSliceBySlice.md | 2 +- reference_transposeXY.md | 2 + 23 files changed, 276 insertions(+), 116 deletions(-) create mode 100644 reference_readValuesFromMap.md create mode 100644 reference_readValuesFromPositions.md diff --git a/dictionary_clesperanto.md b/dictionary_clesperanto.md index 78e857ea..3c9d5542 100644 --- a/dictionary_clesperanto.md +++ b/dictionary_clesperanto.md @@ -6126,7 +6126,7 @@ This list contains the dictionary to translate between clij2, clijx, clEsperanto * Ext.CLIJx_readImageFromDisc(Image destination, String filename) ## read_intensities_from_map -(experimental) +(deprecated) **CLIJx** * boolean readIntensitiesFromMap(ClearCLImageInterface labels, ClearCLImageInterface map_image, ClearCLImageInterface values_destination) @@ -6154,6 +6154,30 @@ This list contains the dictionary to translate between clij2, clijx, clEsperanto **Macro** * Ext.CLIJx_readRawImageFromDisc(Image destination, String filename, Number width, Number height, Number depth, Number bitsPerPixel) +## read_values_from_map +(experimental) + +**CLIJx** +* boolean readValuesFromMap(ClearCLImageInterface labels, ClearCLImageInterface map_image, ClearCLImageInterface values_destination) + +**clEsperantoJ** +* ClearCLImageInterface read_values_from_map(ClearCLImageInterface labels, ClearCLImageInterface map_image, ClearCLImageInterface values_destination) + +**Macro** +* Ext.CLIJx_readValuesFromMap(Image labels, Image map_image, ByRef Image values_destination) + +## read_values_from_positions +(experimental) + +**CLIJx** +* boolean readValuesFromPositions(ClearCLImageInterface pointlist, ClearCLImageInterface map_image, ClearCLImageInterface values_destination) + +**clEsperantoJ** +* ClearCLImageInterface read_values_from_positions(ClearCLImageInterface pointlist, ClearCLImageInterface map_image, ClearCLImageInterface values_destination) + +**Macro** +* Ext.CLIJx_readValuesFromPositions(Image pointlist, Image map_image, ByRef Image values_destination) + ## read_intensities_from_positions (experimental) @@ -8516,4 +8540,4 @@ This list contains the dictionary to translate between clij2, clijx, clEsperanto -591 methods listed. \ No newline at end of file +593 methods listed. \ No newline at end of file diff --git a/reference.md b/reference.md index 58c1a2b3..c1b83027 100644 --- a/reference.md +++ b/reference.md @@ -991,7 +991,7 @@ Multiplies all pixels value x in a given image X with a constant scalar s. Multiplies all pixels value x in a given image X with a constant scalar s from a list of scalars. ### multiplyImages -Multiplies all pairs of pixel values x and y from two image X and Y. +Multiplies all pairs of pixel values x and y from two images X and Y. ### multiplyMatrix Multiplies two matrices with each other. @@ -1177,6 +1177,12 @@ Takes a label image and an parametric image and reads parametric values from the ### readRawImageFromDisc (Experimental) Reads a raw file from disc and pushes it immediately to the GPU. +### readValuesFromMap (Experimental) +Takes a label image and an parametric image and reads parametric values from the labels positions. + +### readValuesFromPositions (Experimental) +Takes a pointlist and a parametric image and reads parametric values from the positions. + ### reduceLabelsToLabelEdges (Experimental) Takes a label map and reduces all labels to their edges. Label IDs stay the same and background will be zero. @@ -1427,7 +1433,7 @@ Subtracts one image X from a scalar s pixel wise. Subtracts one image X from another image Y pixel wise. ### sumImageSliceBySlice -Sums all pixels slice by slice and returns them in an array. +Sums all pixels slice by slice and returns the sums in a vector. ### sumOfAllPixels Determines the sum of all pixels in a given image. @@ -1628,4 +1634,4 @@ Project a defined Z-slice of a 3D stack into a 2D image. ### zPositionRangeProjection (Experimental) Project multiple Z-slices of a 3D stack into a new 3D stack. -558 methods listed. +560 methods listed. diff --git a/reference__graph.md b/reference__graph.md index fedfa493..2c69a2c9 100644 --- a/reference__graph.md +++ b/reference__graph.md @@ -233,6 +233,9 @@ Takes a list of point indices to generate a touch matrix (a.k.a. adjacency graph ### readIntensitiesFromMap (Experimental) Takes a label image and an parametric image and reads parametric values from the labels positions. +### readValuesFromMap (Experimental) +Takes a label image and an parametric image and reads parametric values from the labels positions. + ## S @@ -263,4 +266,4 @@ Takes a pointlist with dimensions n*d with n point coordinates in d dimensions a ### touchingNeighborCountMap (Experimental) Takes a label map, determines which labels touch and replaces every label with the number of touching neighboring labels. -73 methods listed. +74 methods listed. diff --git a/reference__label.md b/reference__label.md index 9f5ddebb..a3415f5b 100644 --- a/reference__label.md +++ b/reference__label.md @@ -335,6 +335,9 @@ Pulls all labels in a label map as ROIs to the ROI manager. ### readIntensitiesFromMap (Experimental) Takes a label image and an parametric image and reads parametric values from the labels positions. +### readValuesFromMap (Experimental) +Takes a label image and an parametric image and reads parametric values from the labels positions. + ### reduceLabelsToLabelEdges (Experimental) Takes a label map and reduces all labels to their edges. Label IDs stay the same and background will be zero. @@ -401,4 +404,4 @@ Applies a pre-trained CLIJx-Weka model to an image and a corresponding label map ### wekaRegionalLabelClassifier (Experimental) Applies a pre-trained CLIJx-Weka model to an image and a corresponding label map to classify labeled objects. -113 methods listed. +114 methods listed. diff --git a/reference__math.md b/reference__math.md index 890c6be9..01a2ae7b 100644 --- a/reference__math.md +++ b/reference__math.md @@ -153,7 +153,7 @@ Multiplies all pixels value x in a given image X with a constant scalar s. Multiplies all pixels value x in a given image X with a constant scalar s from a list of scalars. ### multiplyImages -Multiplies all pairs of pixel values x and y from two image X and Y. +Multiplies all pairs of pixel values x and y from two images X and Y. ### multiplyMatrix Multiplies two matrices with each other. diff --git a/reference__measurement.md b/reference__measurement.md index 01c72ce3..d9fb7522 100644 --- a/reference__measurement.md +++ b/reference__measurement.md @@ -395,6 +395,12 @@ Converts an image into a table. ### readIntensitiesFromMap (Experimental) Takes a label image and an parametric image and reads parametric values from the labels positions. +### readValuesFromMap (Experimental) +Takes a label image and an parametric image and reads parametric values from the labels positions. + +### readValuesFromPositions (Experimental) +Takes a pointlist and a parametric image and reads parametric values from the positions. + ## S @@ -435,7 +441,7 @@ Determines image size (bounding box), area (in pixels/voxels), min, max and mean Determines bounding box, area (in pixels/voxels), min, max and mean intensity of labelled objects in a label map and corresponding pixels in the original image. ### sumImageSliceBySlice -Sums all pixels slice by slice and returns them in an array. +Sums all pixels slice by slice and returns the sums in a vector. ### sumOfAllPixels Determines the sum of all pixels in a given image. @@ -455,4 +461,4 @@ Determines the variance of all pixels in an image. ### varianceOfMaskedPixels Determines the variance in an image, but only in pixels which have non-zero values in another binary mask image. -132 methods listed. +134 methods listed. diff --git a/reference__pyclesperanto.md b/reference__pyclesperanto.md index 947a78b4..4fc608ad 100644 --- a/reference__pyclesperanto.md +++ b/reference__pyclesperanto.md @@ -543,7 +543,7 @@ Multiplies all pixel intensities with the x, y or z coordinate, depending on spe Multiplies all pixels value x in a given image X with a constant scalar s. ### multiplyImages -Multiplies all pairs of pixel values x and y from two image X and Y. +Multiplies all pairs of pixel values x and y from two images X and Y. ### multiplyMatrix Multiplies two matrices with each other. diff --git a/reference_clear.md b/reference_clear.md index a2ecd840..46f1376f 100644 --- a/reference_clear.md +++ b/reference_clear.md @@ -68,6 +68,7 @@ Ext.CLIJ2_clear(); [boundingBoxes.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/boundingBoxes.ijm) [center_of_mass.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/center_of_mass.ijm) [centroid_visualisation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/centroid_visualisation.ijm) + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [clij1_clij2_combination.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/clij1_clij2_combination.ijm) [compare_workflows.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/compare_workflows.ijm) [convert.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/convert.ijm) diff --git a/reference_create2D.md b/reference_create2D.md index 7cdbea36..828251fa 100644 --- a/reference_create2D.md +++ b/reference_create2D.md @@ -53,6 +53,7 @@ Ext.CLIJ2_create2D(Image destination, Number width, Number height, Number bitDep ### Example scripts [allocateBig2DImages.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/allocateBig2DImages.ijm) [centroid_visualisation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/centroid_visualisation.ijm) + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [createImages.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/createImages.ijm) [crop_and_paste.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/crop_and_paste.ijm) [customOperation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/customOperation.ijm) diff --git a/reference_generateLabelFeatureImage.md b/reference_generateLabelFeatureImage.md index 5586f0f8..51c0ed54 100644 --- a/reference_generateLabelFeatureImage.md +++ b/reference_generateLabelFeatureImage.md @@ -25,18 +25,10 @@ Use this terminology to specify which features should be generated: * SUM_INTENSITY * STANDARD_DEVIATION_INTENSITY * PIXEL_COUNT -* local_mean_average_distance_of_touching_neighbors -* local_maximum_average_distance_of_touching_neighbors * count_touching_neighbors -* local_minimum_average_distance_of_touching_neighbors * average_touch_pixel_count -* local_minimum_count_touching_neighbors * average_distance_of_touching_neighbors -* local_mean_count_touching_neighbors * MEAN_OF_LAPLACIAN -* local_standard_deviation_average_distance_of_touching_neighbors -* local_maximum_count_touching_neighbors -* local_standard_deviation_count_touching_neighbors Example: "MEAN_INTENSITY count_touching_neighbors" diff --git a/reference_multiplyImages.md b/reference_multiplyImages.md index a2688b62..cf94cce0 100644 --- a/reference_multiplyImages.md +++ b/reference_multiplyImages.md @@ -1,7 +1,7 @@ ## multiplyImages -Multiplies all pairs of pixel values x and y from two image X and Y. +Multiplies all pairs of pixel values x and y from two images X and Y. 
f(x, y) = x * y
diff --git a/reference_pull.md b/reference_pull.md index fe4eb31e..a27cd786 100644 --- a/reference_pull.md +++ b/reference_pull.md @@ -71,6 +71,7 @@ Ext.CLIJ2_pull(String image); [bitdepthConversion.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/bitdepthConversion.ijm) [blur.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/blur.ijm) [centroid_visualisation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/centroid_visualisation.ijm) + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [clij1_clij2_combination.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/clij1_clij2_combination.ijm) [compare_workflows.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/compare_workflows.ijm) [convert.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/convert.ijm) diff --git a/reference_pullToResultsTable.md b/reference_pullToResultsTable.md index a71feeac..c397d657 100644 --- a/reference_pullToResultsTable.md +++ b/reference_pullToResultsTable.md @@ -11,6 +11,12 @@ Ext.CLIJ2_pullToResultsTable(Image source); ``` + + +### Example scripts + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) + + [Back to CLIJ2 reference](https://clij.github.io/clij2-docs/reference) [Back to CLIJ2 documentation](https://clij.github.io/clij2-docs) diff --git a/reference_push.md b/reference_push.md index 010234cc..139a5cab 100644 --- a/reference_push.md +++ b/reference_push.md @@ -99,6 +99,7 @@ Ext.CLIJ2_push(String image); [boundingBoxes.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/boundingBoxes.ijm) [center_of_mass.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/center_of_mass.ijm) [centroid_visualisation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/centroid_visualisation.ijm) + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [clij1_clij2_combination.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/clij1_clij2_combination.ijm) [compare_workflows.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/compare_workflows.ijm) [convert.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/convert.ijm) diff --git a/reference_pushResultsTable.md b/reference_pushResultsTable.md index 756d2a0f..f94ab228 100644 --- a/reference_pushResultsTable.md +++ b/reference_pushResultsTable.md @@ -5,6 +5,10 @@ Converts a table to an image. Rows stay rows, columns stay columns. +### pushResultsTable is often followed by +* release (1) + + ### Usage in ImageJ macro ``` Ext.CLIJ2_pushResultsTable(Image destination); @@ -22,6 +26,7 @@ Ext.CLIJ2_pushResultsTable(Image destination); ### Example scripts + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [excludeLabelsWithinRange.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/excludeLabelsWithinRange.ijm) [filter_label_maps.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/filter_label_maps.ijm) [neighbors_of_neighbors.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/neighbors_of_neighbors.ijm) diff --git a/reference_readIntensitiesFromMap.md b/reference_readIntensitiesFromMap.md index 27b2cd7a..c1fc8aa1 100644 --- a/reference_readIntensitiesFromMap.md +++ b/reference_readIntensitiesFromMap.md @@ -7,11 +7,7 @@ The read intensity valus are stored in a new vector. Note: This will only work if all labels have number of voxels == 1 or if all pixels in each label have the same value. -### Parameters - -labels -map_image -values_destination +DEPRECATED: Use ReadValuesFromMap instead Categories: [Labels](https://clij.github.io/clij2-docs/reference__label), [Measurements](https://clij.github.io/clij2-docs/reference__measurement), [Graphs](https://clij.github.io/clij2-docs/reference__graph) @@ -21,96 +17,6 @@ Ext.CLIJx_readIntensitiesFromMap(Image labels, Image map_image, Image values_des ``` -### Usage in object oriented programming languages - - - -
- - -Java - -
// init CLIJ and GPU
-import net.haesleinhuepf.clijx.CLIJx;
-import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
-CLIJx clijx = CLIJx.getInstance();
-
-// get input parameters
-ClearCLBuffer labels = clijx.push(labelsImagePlus);
-ClearCLBuffer map_image = clijx.push(map_imageImagePlus);
-values_destination = clijx.create(labels);
-
- -
-// Execute operation on GPU
-clijx.readIntensitiesFromMap(labels, map_image, values_destination);
-
- -
-// show result
-values_destinationImagePlus = clijx.pull(values_destination);
-values_destinationImagePlus.show();
-
-// cleanup memory on GPU
-clijx.release(labels);
-clijx.release(map_image);
-clijx.release(values_destination);
-
- -
- - - -
- - -Matlab - -
% init CLIJ and GPU
-clijx = init_clatlabx();
-
-% get input parameters
-labels = clijx.pushMat(labels_matrix);
-map_image = clijx.pushMat(map_image_matrix);
-values_destination = clijx.create(labels);
-
- -
-% Execute operation on GPU
-clijx.readIntensitiesFromMap(labels, map_image, values_destination);
-
- -
-% show result
-values_destination = clijx.pullMat(values_destination)
-
-% cleanup memory on GPU
-clijx.release(labels);
-clijx.release(map_image);
-clijx.release(values_destination);
-
- -
- - - -
- - -clEsperanto Python (experimental) - -
import pyclesperanto_prototype as cle
-
-cle.read_intensities_from_map(labels, map_image, values_destination)
-
-
- - - -
- - - [Back to CLIJ2 reference](https://clij.github.io/clij2-docs/reference) [Back to CLIJ2 documentation](https://clij.github.io/clij2-docs) diff --git a/reference_readValuesFromMap.md b/reference_readValuesFromMap.md new file mode 100644 index 00000000..0d1b59bc --- /dev/null +++ b/reference_readValuesFromMap.md @@ -0,0 +1,100 @@ +## readValuesFromMap + + +Takes a label image and an parametric image and reads parametric values from the labels positions. + +The read intensity valus are stored in a new vector. + +Note: This will only work if all labels have number of voxels == 1 or if all pixels in each label have the same value. + +### Parameters + +labels +map_image +values_destination + +Categories: [Labels](https://clij.github.io/clij2-docs/reference__label), [Measurements](https://clij.github.io/clij2-docs/reference__measurement), [Graphs](https://clij.github.io/clij2-docs/reference__graph) + +### Usage in ImageJ macro +``` +Ext.CLIJx_readValuesFromMap(Image labels, Image map_image, Image values_destination); +``` + + +### Usage in object oriented programming languages + + + +
+ + +Java + +
// init CLIJ and GPU
+import net.haesleinhuepf.clijx.CLIJx;
+import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
+CLIJx clijx = CLIJx.getInstance();
+
+// get input parameters
+ClearCLBuffer labels = clijx.push(labelsImagePlus);
+ClearCLBuffer map_image = clijx.push(map_imageImagePlus);
+values_destination = clijx.create(labels);
+
+ +
+// Execute operation on GPU
+clijx.readValuesFromMap(labels, map_image, values_destination);
+
+ +
+// show result
+values_destinationImagePlus = clijx.pull(values_destination);
+values_destinationImagePlus.show();
+
+// cleanup memory on GPU
+clijx.release(labels);
+clijx.release(map_image);
+clijx.release(values_destination);
+
+ +
+ + + +
+ + +Matlab + +
% init CLIJ and GPU
+clijx = init_clatlabx();
+
+% get input parameters
+labels = clijx.pushMat(labels_matrix);
+map_image = clijx.pushMat(map_image_matrix);
+values_destination = clijx.create(labels);
+
+ +
+% Execute operation on GPU
+clijx.readValuesFromMap(labels, map_image, values_destination);
+
+ +
+% show result
+values_destination = clijx.pullMat(values_destination)
+
+% cleanup memory on GPU
+clijx.release(labels);
+clijx.release(map_image);
+clijx.release(values_destination);
+
+ +
+ + + +[Back to CLIJ2 reference](https://clij.github.io/clij2-docs/reference) +[Back to CLIJ2 documentation](https://clij.github.io/clij2-docs) + +[Imprint](https://clij.github.io/imprint) diff --git a/reference_readValuesFromPositions.md b/reference_readValuesFromPositions.md new file mode 100644 index 00000000..1a7ad5d0 --- /dev/null +++ b/reference_readValuesFromPositions.md @@ -0,0 +1,98 @@ +## readValuesFromPositions + + +Takes a pointlist and a parametric image and reads parametric values from the positions. + +The read intensity values are stored in a new vector. + +### Parameters + +pointlist +map_image +values_destination + +Category: [Measurements](https://clij.github.io/clij2-docs/reference__measurement) + +### Usage in ImageJ macro +``` +Ext.CLIJx_readValuesFromPositions(Image pointlist, Image map_image, Image values_destination); +``` + + +### Usage in object oriented programming languages + + + +
+ + +Java + +
// init CLIJ and GPU
+import net.haesleinhuepf.clijx.CLIJx;
+import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
+CLIJx clijx = CLIJx.getInstance();
+
+// get input parameters
+ClearCLBuffer pointlist = clijx.push(pointlistImagePlus);
+ClearCLBuffer map_image = clijx.push(map_imageImagePlus);
+values_destination = clijx.create(pointlist);
+
+ +
+// Execute operation on GPU
+clijx.readValuesFromPositions(pointlist, map_image, values_destination);
+
+ +
+// show result
+values_destinationImagePlus = clijx.pull(values_destination);
+values_destinationImagePlus.show();
+
+// cleanup memory on GPU
+clijx.release(pointlist);
+clijx.release(map_image);
+clijx.release(values_destination);
+
+ +
+ + + +
+ + +Matlab + +
% init CLIJ and GPU
+clijx = init_clatlabx();
+
+% get input parameters
+pointlist = clijx.pushMat(pointlist_matrix);
+map_image = clijx.pushMat(map_image_matrix);
+values_destination = clijx.create(pointlist);
+
+ +
+% Execute operation on GPU
+clijx.readValuesFromPositions(pointlist, map_image, values_destination);
+
+ +
+% show result
+values_destination = clijx.pullMat(values_destination)
+
+% cleanup memory on GPU
+clijx.release(pointlist);
+clijx.release(map_image);
+clijx.release(values_destination);
+
+ +
+ + + +[Back to CLIJ2 reference](https://clij.github.io/clij2-docs/reference) +[Back to CLIJ2 documentation](https://clij.github.io/clij2-docs) + +[Imprint](https://clij.github.io/imprint) diff --git a/reference_release.md b/reference_release.md index d96cd3cc..e384c17b 100644 --- a/reference_release.md +++ b/reference_release.md @@ -6,6 +6,8 @@ Frees memory of a specified image in GPU memory. ### release often follows after * countTouchingNeighbors (1) * maximumZProjection (3) +* pushResultsTable (1) +* transposeXY (1) * generateTouchMatrix (1) * maximum3DBox (1) @@ -29,6 +31,7 @@ Ext.CLIJ2_release(String image); ### Example scripts [basics.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/basics.ijm) + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [division_visualisation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/division_visualisation.ijm) [drosophila_max_cylinder_projection.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/drosophila_max_cylinder_projection.ijm) [memory_reuse_versus_reallocation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/memory_reuse_versus_reallocation.ijm) diff --git a/reference_set.md b/reference_set.md index 5bb5f6cd..c7f84290 100644 --- a/reference_set.md +++ b/reference_set.md @@ -156,6 +156,7 @@ cle.set(source, value) ### Example scripts [benchmarking.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/benchmarking.ijm) [centroid_visualisation.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/centroid_visualisation.ijm) + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [crop_and_paste.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/crop_and_paste.ijm) [drawLine.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/drawLine.ijm) [filtering_in_graphs.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/filtering_in_graphs.ijm) diff --git a/reference_setRandom.md b/reference_setRandom.md index ef0b2aaf..e7092c3c 100644 --- a/reference_setRandom.md +++ b/reference_setRandom.md @@ -127,6 +127,7 @@ clij2.release(source); ### Example scripts + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [filtering_in_graphs.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/filtering_in_graphs.ijm) [large_matrices.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/large_matrices.ijm) [matrix_multiply.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/matrix_multiply.ijm) diff --git a/reference_sumImageSliceBySlice.md b/reference_sumImageSliceBySlice.md index 594abd61..fe1bc3b5 100644 --- a/reference_sumImageSliceBySlice.md +++ b/reference_sumImageSliceBySlice.md @@ -1,7 +1,7 @@ ## sumImageSliceBySlice -Sums all pixels slice by slice and returns them in an array. +Sums all pixels slice by slice and returns the sums in a vector. Category: [Measurements](https://clij.github.io/clij2-docs/reference__measurement) diff --git a/reference_transposeXY.md b/reference_transposeXY.md index 7d7e2838..8a2c592b 100644 --- a/reference_transposeXY.md +++ b/reference_transposeXY.md @@ -21,6 +21,7 @@ Category: [Transformations](https://clij.github.io/clij2-docs/reference__transfo ### transposeXY is often followed by * replaceIntensities (1) * multiplyMatrix (1) +* release (1) ### Usage in ImageJ macro @@ -160,6 +161,7 @@ cle.transpose_xy(input, destination) ### Example scripts + [check_if_positions_are_in_roi.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/check_if_positions_are_in_roi.ijm) [jaccard_matrix.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/jaccard_matrix.ijm) [matrix_multiply.ijm](https://github.com/clij/clij2-docs/blob/master/src/main/macro/matrix_multiply.ijm)