from data_smooth_new_try_1_4_3 import step3
from feature_4 import step4
from feature_4_all import step5
import numpy as np
import time
import matplotlib.pyplot as plt
not_circle_rate = []
non_circle_rate_list = []
Cells_quantity = step1()
print(Cells_quantity)
for i in range(1, Cells_quantity):
try:
step2(i)
step3(i)
non_circle_rate_list.append(step4(i))
step5(i, Cells_quantity, not_circle_rate)
#copyfile("G:\\2020summer\\Project\\Cell_classfication_1.0.0\\ouput_marked.bmp","G:\\2020summer\\Project\\Cell_classfication_1.0.0\\output\\"+str(i)+".bmp")
except:
pass
display = cv.imread(
"G:\\2020summer\\Project\\Cell_classfication_1.0.0\\output\\temp_display.bmp"
)
cv.putText(display, time.strftime("%Y-%m-%d %H:%M:%S", time.localtime()),
(80, 60), cv.FONT_HERSHEY_SIMPLEX, 0.5, (0, 0, 0), 1)
cv.putText(display, "Result Value:" + str(np.mean(not_circle_rate)),
(80, display.shape[0] - 400), cv.FONT_HERSHEY_SIMPLEX, 1, (0, 0, 0),
2)
def main(read_type):
start_time = time.clock()
not_circle_rate = []
non_circle_rate_list = []
Cells_quantity, Cells_density = step1(read_type)
print(Cells_quantity)
for i in range(1, Cells_quantity):
try:
print("System is working on No: ", i, " Cell. Total cells: ",
Cells_quantity)
step2(i)
step3(i)
non_circle_rate_list.append(step4(i))
step5(i, Cells_quantity, not_circle_rate)
#copyfile("G:\\2020summer\\Project\\Cell_classfication_1.0.0\\ouput_marked.bmp","G:\\2020summer\\Project\\Cell_classfication_1.0.0\\output\\"+str(i)+".bmp")
except:
pass
display = cv.imread("bin\\output\\temp_display.bmp")
dateandtime = time.strftime("%Y-%m-%d %H:%M:%S", time.localtime())
cv.putText(display, dateandtime, (80, 60), cv.FONT_HERSHEY_SIMPLEX, 0.5,
(0, 0, 0), 1)
cv.putText(display, "Result Value:" + str(np.mean(non_circle_rate_list)),
(80, display.shape[0] - 400), cv.FONT_HERSHEY_SIMPLEX, 1,
(0, 0, 0), 2)
cv.putText(
display,
"The lower the value, the higher the probability of Chromophobe",
(80, display.shape[0] - 350), cv.FONT_HERSHEY_SIMPLEX, 0.6, (0, 0, 0),
2)
cv.putText(display, "Total cells number: " + str(Cells_quantity),
(80, display.shape[0] - 300), cv.FONT_HERSHEY_SIMPLEX, 0.6,
(0, 0, 0), 1)
cv.putText(display, "Total cells density: " + str(Cells_density),
(80, display.shape[0] - 250), cv.FONT_HERSHEY_SIMPLEX, 0.6,
(0, 0, 0), 1)
r1 = cv.imread("result\\overview_result1.bmp")
r2 = cv.imread("result\\cell_clean.bmp")
cv.imshow("Overview", r1)
cv.imshow("cell_clean", r2)
cv.imshow("Final output", display)
cv.imwrite("result\\Final_Result.bmp", display)
print("===================Result===================")
print("cells density : ", Cells_density)
print("not_circle_rate : ", np.mean(non_circle_rate_list))
print(np.mean(non_circle_rate_list))
stop_time = time.clock()
cost = stop_time - start_time
print("%s cost %s second" % (os.path.basename(sys.argv[0]), cost))
plt.hist(non_circle_rate_list, bins=20)
plt.title('non_circle_rate')
plt.show()
shutil.rmtree("output_single")
os.mkdir("output_single")
cv.waitKey()
#write
'''
def main(read_type):
start_time = time.clock()
not_circle_rate = []
non_circle_rate_list = []
Cells_quantity, Cells_density, Cell_nucleus_color = step1(read_type)
print(Cells_quantity)
for i in range(1, Cells_quantity):
try:
print("System is working on No: ", i, " Cell. Total cells: ",
Cells_quantity)
step2(i)
step3(i)
non_circle_rate_list.append(step4(i))
step5(i, Cells_quantity, not_circle_rate)
#copyfile("G:\\2020summer\\Project\\Cell_classfication_1.0.0\\ouput_marked.bmp","G:\\2020summer\\Project\\Cell_classfication_1.0.0\\output\\"+str(i)+".bmp")
except:
pass
display = cv.imread("bin\\output\\temp_display.bmp")
dateandtime = time.strftime("%Y-%m-%d %H:%M:%S", time.localtime())
stop_time = time.clock()
cost = stop_time - start_time
V_1 = float(Cells_density)
V_2 = float(Cell_nucleus_color)
V_3 = float(np.mean(non_circle_rate_list))
#Result
Result_value = round(
-1 * (2 * ((V_1 - 1) / 0.7) + 1 * ((165 - V_2) / 35) + 2 *
((V_3 - 0.25) / 0.06)), 3)
#Bar
set_Bar(Result_value)
x_offset1 = 210
y_offset1 = display.shape[0] - 390
img_bar = cv.imread('result\\bar.png')
barx, bary = img_bar.shape[0:2]
img_bar1 = cv.resize(img_bar, (int(bary / 2), int(barx / 2)))
display[y_offset1:y_offset1 + img_bar1.shape[0],
x_offset1:x_offset1 + img_bar1.shape[1]] = img_bar1
#Text
cv.putText(display, dateandtime, (80, 60), cv.FONT_HERSHEY_SIMPLEX, 0.5,
(0, 0, 0), 1)
cv.putText(display, "Result Value:" + str(Result_value),
(80, display.shape[0] - 400), cv.FONT_HERSHEY_SIMPLEX, 1,
(0, 0, 0), 2)
cv.putText(display,
"Oncocytoma Chromophobe",
(80, display.shape[0] - 350), cv.FONT_HERSHEY_SIMPLEX, 0.6,
(0, 0, 0), 2)
cv.putText(display, "Total cells number: " + str(Cells_quantity),
(80, display.shape[0] - 300), cv.FONT_HERSHEY_SIMPLEX, 0.6,
(0, 0, 0), 1)
cv.putText(display, "Total cells density: " + str(Cells_density),
(80, display.shape[0] - 250), cv.FONT_HERSHEY_SIMPLEX, 0.6,
(0, 0, 0), 1)
cv.putText(
display, "Aveage cell nucleus color depth: " +
str(round(Cell_nucleus_color, 3)), (80, display.shape[0] - 200),
cv.FONT_HERSHEY_SIMPLEX, 0.6, (0, 0, 0), 1)
cv.putText(
display,
"Non-circle Value:" + str(round(np.mean(non_circle_rate_list), 3)),
(80, display.shape[0] - 150), cv.FONT_HERSHEY_SIMPLEX, 0.6, (0, 0, 0),
2)
cv.putText(display, "Running time: " + str(cost) + " second",
(80, display.shape[0] - 100), cv.FONT_HERSHEY_SIMPLEX, 0.6,
(0, 0, 0), 1)
r1 = cv.imread("result\\overview_result1.bmp")
r2 = cv.imread("result\\cell_clean.bmp")
#cv.imshow("Overview", r1)
cv.imshow("cell_clean", r2)
cv.imshow("Final output", display)
cv.imwrite("result\\Final_Result.bmp", display)
print("===================Result===================")
print("cells density : ", Cells_density)
print("not_circle_rate : ", np.mean(non_circle_rate_list))
print("Cell nucleus color depth : ", Cell_nucleus_color)
print("%s cost %s second" % (os.path.basename(sys.argv[0]), cost))
plt.hist(non_circle_rate_list, bins=20)
plt.title('non_circle_rate')
#plt.show()
shutil.rmtree("output_single")
os.mkdir("output_single")
cv.waitKey()
#write
'''
#feature_1
#feature_3
#data_smooth_new_try_1_4_1
#feature_4
import cv2 as cv
from shutil import copyfile
from feature_1 import step1
from feature_3 import step2
from data_smooth_new_try_1_4_3 import step3
from feature_4 import step4
step1()
for i in range(1, 89):
step2(i)
step3()
step4(i)
copyfile(
"G:\\2020summer\\Project\\Cell_classfication_1.0.0\\ouput_marked.bmp",
"G:\\2020summer\\Project\\Cell_classfication_1.0.0\\output\\" +
str(i) + ".bmp")
#display=cv.imread("G:\\2020summer\\Project\\Cell_classfication_1.0.0\\temp_1.jpg")
#cv.imshow("Final output", display)
#cv.waitKey()