added greyscale opening/closing

clij · Mar 21, 2021 · 17178e6 · 17178e6
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commit 17178e6
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diff --git a/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleClosingBox.java b/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleClosingBox.java
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+package net.haesleinhuepf.clijx.plugins;
+
+
+import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
+import net.haesleinhuepf.clij.macro.CLIJMacroPlugin;
+import net.haesleinhuepf.clij.macro.CLIJOpenCLProcessor;
+import net.haesleinhuepf.clij.macro.documentation.OffersDocumentation;
+import net.haesleinhuepf.clij2.AbstractCLIJ2Plugin;
+import net.haesleinhuepf.clij2.CLIJ2;
+import net.haesleinhuepf.clij2.utilities.HasClassifiedInputOutput;
+import net.haesleinhuepf.clij2.utilities.IsCategorized;
+import org.scijava.plugin.Plugin;
+
+@Plugin(type = CLIJMacroPlugin.class, name = "CLIJx_greyscaleClosingBox")
+public class GreyscaleClosingBox extends AbstractCLIJ2Plugin implements CLIJMacroPlugin, CLIJOpenCLProcessor, OffersDocumentation, IsCategorized, HasClassifiedInputOutput {
+    @Override
+    public String getInputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getOutputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getParameterHelpText() {
+        return "Image source, ByRef Image destination, Number radius_x, Number radius_y, Number radius_z";
+    }
+
+    @Override
+    public boolean executeCL() {
+
+        boolean result = greyscaleClosingBox(getCLIJ2(), (ClearCLBuffer) (args[0]), (ClearCLBuffer) (args[1]), asInteger(args[2]), asInteger(args[3]), asInteger(args[4]));
+
+        return result;
+    }
+
+    public static boolean greyscaleClosingBox(CLIJ2 clij2, ClearCLBuffer source, ClearCLBuffer destination, Integer radius_x, Integer radius_y, Integer radius_z) {
+
+        ClearCLBuffer temp1 = clij2.create(source);
+        if (source.getDimension() == 2) {
+            clij2.maximum2DBox(source, temp1, radius_x, radius_y);
+            clij2.minimum2DBox(temp1, destination, radius_x, radius_y);
+        } else {
+            clij2.maximum3DBox(source, temp1, radius_x, radius_y, radius_z);
+            clij2.minimum3DBox(temp1, destination, radius_x, radius_y, radius_y);
+        }
+        temp1.close();
+
+        return true;
+    }
+
+    @Override
+    public String getDescription() {
+        return "Apply a greyscale morphological closing to the input image.\n\n" +
+                "It applies a maximum filter first and the result is processed by a minimum filter with given radii.\n" +
+                "Low intensity regions smaller than radius will disappear.";
+    }
+
+    @Override
+    public String getAvailableForDimensions() {
+        return "2D, 3D";
+    }
+
+    @Override
+    public String getCategories() {
+        return "Filter, Background";
+    }
+}
diff --git a/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleClosingSphere.java b/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleClosingSphere.java
@@ -0,0 +1,70 @@
+package net.haesleinhuepf.clijx.plugins;
+
+
+import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
+import net.haesleinhuepf.clij.macro.CLIJMacroPlugin;
+import net.haesleinhuepf.clij.macro.CLIJOpenCLProcessor;
+import net.haesleinhuepf.clij.macro.documentation.OffersDocumentation;
+import net.haesleinhuepf.clij2.AbstractCLIJ2Plugin;
+import net.haesleinhuepf.clij2.CLIJ2;
+import net.haesleinhuepf.clij2.utilities.HasClassifiedInputOutput;
+import net.haesleinhuepf.clij2.utilities.IsCategorized;
+import org.scijava.plugin.Plugin;
+
+@Plugin(type = CLIJMacroPlugin.class, name = "CLIJx_greyscaleClosingSphere")
+public class GreyscaleClosingSphere extends AbstractCLIJ2Plugin implements CLIJMacroPlugin, CLIJOpenCLProcessor, OffersDocumentation, IsCategorized, HasClassifiedInputOutput {
+    @Override
+    public String getInputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getOutputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getParameterHelpText() {
+        return "Image source, ByRef Image destination, Number radius_x, Number radius_y, Number radius_z";
+    }
+
+    @Override
+    public boolean executeCL() {
+
+        boolean result = greyscaleClosingSphere(getCLIJ2(), (ClearCLBuffer) (args[0]), (ClearCLBuffer) (args[1]), asInteger(args[2]), asInteger(args[3]), asInteger(args[4]));
+
+        return result;
+    }
+
+    public static boolean greyscaleClosingSphere(CLIJ2 clij2, ClearCLBuffer source, ClearCLBuffer destination, Integer radius_x, Integer radius_y, Integer radius_z) {
+
+        ClearCLBuffer temp1 = clij2.create(source);
+        if (source.getDimension() == 2) {
+            clij2.maximum2DSphere(source, temp1, radius_x, radius_y);
+            clij2.minimum2DSphere(temp1, destination, radius_x, radius_y);
+        } else {
+            clij2.maximum3DSphere(source, temp1, radius_x, radius_y, radius_z);
+            clij2.minimum3DSphere(temp1, destination, radius_x, radius_y, radius_y);
+        }
+        temp1.close();
+
+        return true;
+    }
+
+    @Override
+    public String getDescription() {
+        return "Apply a greyscale morphological closing to the input image.\n\n" +
+                "It applies a maximum filter first and the result is processed by a minimum filter with given radii.\n" +
+                "Low intensity regions smaller than radius will disappear.";
+    }
+
+    @Override
+    public String getAvailableForDimensions() {
+        return "2D, 3D";
+    }
+
+    @Override
+    public String getCategories() {
+        return "Filter, Background";
+    }
+}
diff --git a/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleOpeningBox.java b/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleOpeningBox.java
@@ -0,0 +1,70 @@
+package net.haesleinhuepf.clijx.plugins;
+
+
+import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
+import net.haesleinhuepf.clij.macro.CLIJMacroPlugin;
+import net.haesleinhuepf.clij.macro.CLIJOpenCLProcessor;
+import net.haesleinhuepf.clij.macro.documentation.OffersDocumentation;
+import net.haesleinhuepf.clij2.AbstractCLIJ2Plugin;
+import net.haesleinhuepf.clij2.CLIJ2;
+import net.haesleinhuepf.clij2.utilities.HasClassifiedInputOutput;
+import net.haesleinhuepf.clij2.utilities.IsCategorized;
+import org.scijava.plugin.Plugin;
+
+@Plugin(type = CLIJMacroPlugin.class, name = "CLIJx_greyscaleOpeningBox")
+public class GreyscaleOpeningBox extends AbstractCLIJ2Plugin implements CLIJMacroPlugin, CLIJOpenCLProcessor, OffersDocumentation, IsCategorized, HasClassifiedInputOutput {
+    @Override
+    public String getInputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getOutputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getParameterHelpText() {
+        return "Image source, ByRef Image destination, Number radius_x, Number radius_y, Number radius_z";
+    }
+
+    @Override
+    public boolean executeCL() {
+
+        boolean result = greyscaleOpeningBox(getCLIJ2(), (ClearCLBuffer) (args[0]), (ClearCLBuffer) (args[1]), asInteger(args[2]), asInteger(args[3]), asInteger(args[4]));
+
+        return result;
+    }
+
+    public static boolean greyscaleOpeningBox(CLIJ2 clij2, ClearCLBuffer source, ClearCLBuffer destination, Integer radius_x, Integer radius_y, Integer radius_z) {
+
+        ClearCLBuffer temp1 = clij2.create(source);
+        if (source.getDimension() == 2) {
+            clij2.minimum2DBox(source, temp1, radius_x, radius_y);
+            clij2.maximum2DBox(temp1, destination, radius_x, radius_y);
+        } else {
+            clij2.minimum3DBox(source, temp1, radius_x, radius_y, radius_z);
+            clij2.maximum3DBox(temp1, destination, radius_x, radius_y, radius_y);
+        }
+        temp1.close();
+
+        return true;
+    }
+
+    @Override
+    public String getDescription() {
+        return "Apply a greyscale morphological opening to the input image.\n\n" +
+                "It applies a minimum filter first and the result is processed by a maximum filter with given radii.\n" +
+                "High intensity regions smaller than radius will disappear.";
+    }
+
+    @Override
+    public String getAvailableForDimensions() {
+        return "2D, 3D";
+    }
+
+    @Override
+    public String getCategories() {
+        return "Filter, Background";
+    }
+}
diff --git a/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleOpeningSphere.java b/src/main/java/net/haesleinhuepf/clijx/plugins/GreyscaleOpeningSphere.java
@@ -0,0 +1,70 @@
+package net.haesleinhuepf.clijx.plugins;
+
+
+import net.haesleinhuepf.clij.clearcl.ClearCLBuffer;
+import net.haesleinhuepf.clij.macro.CLIJMacroPlugin;
+import net.haesleinhuepf.clij.macro.CLIJOpenCLProcessor;
+import net.haesleinhuepf.clij.macro.documentation.OffersDocumentation;
+import net.haesleinhuepf.clij2.AbstractCLIJ2Plugin;
+import net.haesleinhuepf.clij2.CLIJ2;
+import net.haesleinhuepf.clij2.utilities.HasClassifiedInputOutput;
+import net.haesleinhuepf.clij2.utilities.IsCategorized;
+import org.scijava.plugin.Plugin;
+
+@Plugin(type = CLIJMacroPlugin.class, name = "CLIJx_greyscaleOpeningSphere")
+public class GreyscaleOpeningSphere extends AbstractCLIJ2Plugin implements CLIJMacroPlugin, CLIJOpenCLProcessor, OffersDocumentation, IsCategorized, HasClassifiedInputOutput {
+    @Override
+    public String getInputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getOutputType() {
+        return "Image";
+    }
+
+    @Override
+    public String getParameterHelpText() {
+        return "Image source, ByRef Image destination, Number radius_x, Number radius_y, Number radius_z";
+    }
+
+    @Override
+    public boolean executeCL() {
+
+        boolean result = greyscaleOpeningSphere(getCLIJ2(), (ClearCLBuffer) (args[0]), (ClearCLBuffer) (args[1]), asInteger(args[2]), asInteger(args[3]), asInteger(args[4]));
+
+        return result;
+    }
+
+    public static boolean greyscaleOpeningSphere(CLIJ2 clij2, ClearCLBuffer source, ClearCLBuffer destination, Integer radius_x, Integer radius_y, Integer radius_z) {
+
+        ClearCLBuffer temp1 = clij2.create(source);
+        if (source.getDimension() == 2) {
+            clij2.minimum2DSphere(source, temp1, radius_x, radius_y);
+            clij2.maximum2DSphere(temp1, destination, radius_x, radius_y);
+        } else {
+            clij2.minimum3DSphere(source, temp1, radius_x, radius_y, radius_z);
+            clij2.maximum3DSphere(temp1, destination, radius_x, radius_y, radius_y);
+        }
+        temp1.close();
+
+        return true;
+    }
+
+    @Override
+    public String getDescription() {
+        return "Apply a greyscale morphological opening to the input image.\n\n" +
+                "It applies a minimum filter first and the result is processed by a maximum filter with given radii.\n" +
+                "High intensity regions smaller than radius will disappear.";
+    }
+
+    @Override
+    public String getAvailableForDimensions() {
+        return "2D, 3D";
+    }
+
+    @Override
+    public String getCategories() {
+        return "Filter, Background";
+    }
+}