run("pip")

ip1_orig = load_image("{data}/img/img1.png")
ip1 = ip1_orig.duplicate()
#Decomposing color channels
ip1.show()
create_stack([get_channel(ip1, "red"), get_channel(ip1, "green"), get_channel(ip1, "blue"), get_channel(ip1, "alpha"), grayscale(get_channel(ip1, "brightness"), False)]).show()




ip2 = ip1_orig.duplicate()
grayscale(ip2)
r,g,b = [],[],[]
for i in range(256):
    r.append(0)
    g.append(0)
    b.append(i)
set_lut(ip2, r, g, b)
ip2.show()

"""
#gaussian_blur(ip1)
#invert(ip1)
#smooth(ip1)
#sharpen(ip1)
#edge(ip1)
#add(ip1)
#noise(ip1, 100)

plot(get_histogram(ip1))
#plot(get_array(ip1))
#plot(get_line(ip1, 0,0, 100,100))
#plot(get_pixels(ip1))
#plot (get_col(ip1,1))

print get_pixel_range(ip1)
print get_num_channels(ip1)
print get_pixel(ip1,0,0)
print get_pixel_array(ip1,0,0)
stats = get_statistics(ip1)
print stats

s2 = get_statistics(ip1,Measurements.CENTER_OF_MASS | Measurements.CENTROID )
print s2
print s2.xCenterOfMass,  s2.yCenterOfMass 
print s2.xCentroid ,  s2.yCentroid  

#pr1.subtract(80)
#pr1.setMinAndMax(20,80)
#pr1.rotate(20)

"""


ip1_orig = load_image("{data}/img/img1.png")
ip1_grayscale = ip1_orig.duplicate()
grayscale(ip1_grayscale)

pr1 = ip1_grayscale.getProcessor()



#ip1 = threshold(ip1, 150, 255)
#auto_threshold(ip1)
#pr1.dilate()
#pr1.erode()

"""
#print pr1.getAutoThreshold()
pr1.resetBinaryThreshold()
pr1.setAutoThreshold(ImageProcessor.ISODATA2, ImageProcessor.NO_LUT_UPDATE)
#pr1.setAutoThreshold(AutoThresholder.getMethods()[0], True , ImageProcessor.NO_LUT_UPDATE);
minThreshold = pr1.getMinThreshold();
maxThreshold = pr1.getMaxThreshold();
pr1.resetThreshold()
#pr1.threshold(80)

fcolor=255
bcolor=0
lut = []
for i in range(256):
    if minThreshold <= i <=maxThreshold:
        lut.append(fcolor)
    else:
        lut.append(bcolor)
pr1.applyTable(lut);
#pr1.autoThreshold()
#pr1.setBinaryThreshold() 
min_threshold, max_threshold = 50, 200

pr1.setThreshold(min_threshold, max_threshold, ImageProcessor.NO_LUT_UPDATE);
WindowManager.setTempCurrentImage(ip1);
thresholder=Thresholder();
thresholder.run("mask");
bp = WindowManager.getCurrentImage().getProcessor();

ip1 =  ImagePlus(ip1.getTitle() + " binary", bp);
"""


#shadows(ip1_grayscale, "north")
#voronoi(ip1_grayscale)
#ip1_grayscale.show()