################################################################################################### 
# 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


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)
        invert(output_puck)
        invert(output_samples)
        op_image(output_puck, output_samples, "add")
        op_image(ip, output_puck, "add")
        return ip.getBufferedImage()

#Setting the filter to a source
img.setFilter(MyFilter())



"""
#Image Loading
ip = load_image("{images}/test2.png", title="Image")



#Puck Detection
aux = grayscale(ip, in_place=False)
aux.show() 
plot(get_histogram(aux))

subtract_background(aux)
threshold(aux,0,50); aux.repaintWindow()
binary_fill_holes(aux); aux.repaintWindow()
(results,output_img)=analyse_particles(aux, 10000,50000, 
            fill_holes = False, exclude_edges = True,print_table=True,
            output_image = "outlines", minCirc = 0.0, maxCirc = 1.0)
output_img.show()


#Sample detection
aux = grayscale(ip, in_place=False)
aux.show() 

invert(aux); aux.repaintWindow()
#gaussian_blur(aux); aux.repaintWindow()
subtract_background(aux); aux.repaintWindow()
auto_threshold(aux); aux.repaintWindow()
binary_open(aux); aux.repaintWindow()
#binary_fill_holes(aux); aux.repaintWindow()
(results,output_img)=analyse_particles(aux, 250,1000, 
            fill_holes = False, exclude_edges = True,print_table=True,
            output_image = "outlines", minCirc = 0.7, maxCirc = 1.0)
output_img.show()

"""