Startup

script/test/imgtest.py

@@ -0,0 +1,47 @@
+################################################################################################### 
+# Example of using ImageJ functionalities through ijutils.
+################################################################################################### 
+
+from ijutils import *
+import java.awt.Color as Color
+
+import ch.psi.pshell.imaging.Filter as Filter
+from ch.psi.pshell.imaging.Overlays import *
+import ch.psi.pshell.imaging.Pen as Pen
+
+
+
+def detect_pucks(ip):
+    aux = grayscale(ip, in_place=False)
+    threshold(aux,0,50)
+    binary_fill_holes(aux)
+    return analyse_particles(aux, 10000,50000,
+            fill_holes = False, exclude_edges = True,print_table=True,
+            output_image = "outlines", minCirc = 0.4, maxCirc = 1.0)
+
+def detect_samples(ip):        
+    aux = grayscale(ip, in_place=False)
+    invert(aux)
+    subtract_background(aux)
+    auto_threshold(aux)
+    binary_open(aux)
+    return analyse_particles(aux, 300,800, 
+            fill_holes = False, exclude_edges = True,print_table=True,
+            output_image = "outlines", minCirc = 0.4
+            , maxCirc = 1.0)
+            
+
+class MyFilter(Filter):
+    def process(self, image, data):
+        ip = load_image(image)
+        (results_puck,output_puck) = detect_pucks(ip)
+        (results_samples,output_samples) = detect_samples(ip)
+        set_lut(output_puck, outline_lut1[0], outline_lut1[1], outline_lut1[2]) 
+        set_lut(output_samples, outline_lut2[0], outline_lut2[1], outline_lut2[2]) 
+        op_image(ip, output_samples, "xor")
+        op_image(ip, output_puck, "xor")        
+        return ip.getBufferedImage()
+
+#Setting the filter to a source
+img.setFilter(MyFilter())
+

script/test/ip

@@ -0,0 +1,15 @@
+from ijutils import *
+import java.awt.Color as Color
+
+ip = load_image(img.getImage())
+grayscale(ip)
+#ip=binning(ip,2)
+gaussian_blur(ip)
+#bandpass_filter(ip,20, 100)
+auto_threshold(ip)
+
+#Particle Analysis
+(results,output_img)=analyse_particles(ip, 500,2000, print_table=True)
+output_img.show()
+
+ip.show()