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vein_main.py
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vein_main.py
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# -*- coding: utf-8 -*-
import cv2
import numpy as np
import matplotlib.pyplot as plt
import math
import numpy
import os
def first_filter(img):
#均值滤波
img_Blur=cv2.blur(img,(5,5))
'''
#高斯滤波
img_GaussianBlur=cv2.GaussianBlur(img,(7,7),0)
#高斯双边滤波
img_bilateralFilter=cv2.bilateralFilter(img,40,75,75)
'''
return img, img_Blur
########################
#边缘检测
def edge_detection(img):
#img = cv2.imread(file, 0)
#img = cv2.imread("01.jpg", 0)
x = cv2.Sobel(img,cv2.CV_16S,1,0)
y = cv2.Sobel(img,cv2.CV_16S,0,1)
absX = cv2.convertScaleAbs(x)# 转回uint8
absY = cv2.convertScaleAbs(y)
img_edge = cv2.addWeighted(absX,0.5,absY,0.5,0)
'''
#cv2.imshow("absX", absX)
#cv2.imshow("absY", absY)
#cv2.imshow("Result", img_edge)
#cv2.waitKey(0)
#cv2.destroyAllWindows()
fig = plt.figure(figsize = (30, 30))
ax1 = fig.add_subplot(1, 2, 1)
ax2 = fig.add_subplot(1, 2, 2)
#ax3 = fig.add_subplot(1, 3, 3)
ax1.imshow(img, cmap = plt.cm.gray)
ax2.imshow(img_edge, cmap = plt.cm.gray)
plt.show()
'''
return img, img_edge
############################################
#像素二值化
def pixel_polarization(img_edge, img, threshold): # threshold 像素两极化的阈值
for i in range(len(img_edge)):
for j in range(len(img_edge[i,:])):
if img_edge[i][j] > threshold:
img_edge[i][j] = 255
else:
img_edge[i][j] = 0
'''
fig = plt.figure(figsize = (16, 16))
ax1 = fig.add_subplot(1, 2, 1)
ax2 = fig.add_subplot(1, 2, 2)
ax1.imshow(img, cmap = plt.cm.gray)
ax2.imshow(img_edge, cmap = plt.cm.gray)
plt.show()
'''
img_edge_polar = img_edge
return img_edge_polar
def positioning_middle_point(img, dst, point_pixel):
h, w = img.shape
w1 = w // 5 # 作为左边竖线的x坐标
w2 = (w // 5) * 4 # 作为右边竖线的x坐标
'''
print("roi width: ",h, w1, w2)
'''
low_l = False
high_l = False
while (not low_l or not high_l) and w1 < (w // 2):
for i, pix in enumerate(dst[:, w1]):
if i+1 < (h // 2) and not low_l:
if pix == 255:
low_l = True
lower_left = i
elif i+1 > (h // 2) and not high_l:
h_h = int(h * (3/2) - (i+1)) # 除法会带来小数,因此用int(), h/2开始对称位置找亮点
'''
print(h_h)
'''
if dst[h_h, w1] == 255:
high_l = True
higher_left = h_h
if not low_l or not high_l:
w1 = w1 + 2
middle_left = (lower_left + higher_left) // 2
low_r = False
high_r = False
while (not low_r or not high_r) and w2 > (w // 2):
for i, pix in enumerate(dst[:, w2]):
if i+1 < (h // 2) and not low_r:
if pix == 255:
low_r = True
lower_right = i
elif i+1 > (h // 2) and not high_r:
h_h = int(h * (3/2) - (i+1))
if dst[h_h, w2] == 255:
high_r = True
higher_right = h_h
if not low_r or not high_r:
w2 = w2 - 2
middle_right = (lower_right + higher_right) // 2
'''
dst[middle_left, w1] = point_pixel
dst[middle_left+1, w1] = point_pixel
dst[middle_left-1, w1] = point_pixel
dst[middle_left, w1 + 1] = point_pixel
dst[middle_left, w1 - 1] = point_pixel
dst[middle_right, w2] = point_pixel
dst[middle_right+1, w2] = point_pixel
dst[middle_right-1, w2] = point_pixel
dst[middle_right, w2 + 1] = point_pixel
dst[middle_right, w2 - 1] = point_pixel
fig = plt.figure(figsize = (16, 16))
ax1 = fig.add_subplot(1, 2, 1)
ax2 = fig.add_subplot(1, 2, 2)
ax1.imshow(img, cmap = plt.cm.gray)
ax2.imshow(dst, cmap = plt.cm.gray)
plt.show()
'''
return dst, middle_left, middle_right, w1, w2
#################################
#旋转矫正
def rotation_correction(img, dst, middle_right, middle_left, w1, w2):
tangent_value = float(middle_right - middle_left) / float(w2 - w1)
rotation_angle = np.arctan(tangent_value)/math.pi*180
(h,w) = img.shape
center = (w // 2,h // 2)
M = cv2.getRotationMatrix2D(center,rotation_angle,1)#旋转缩放矩阵:(旋转中心,旋转角度,缩放因子)
rotated_dst = cv2.warpAffine(dst,M,(w,h))
rotated_img = cv2.warpAffine(img,M,(w,h))
'''
fig = plt.figure(figsize = (16, 16))
ax1 = fig.add_subplot(1, 3, 1)
ax2 = fig.add_subplot(1, 3, 2)
ax3 = fig.add_subplot(1, 3, 3)
ax1.imshow(img, cmap = plt.cm.gray)
ax2.imshow(rotated_dst, cmap = plt.cm.gray)
ax3.imshow(rotated_img, cmap = plt.cm.gray)
plt.show()
'''
return rotated_dst, rotated_img
def roi(rotated_img, rotated_edge, w1, w2, url):
h, w = rotated_edge.shape
r = range(0, h)
r1 = range(0, h // 2)
r2 = range(h // 2, h - 1)
c = range(0, w)
c1 = range(0, w // 2)
c2 = range(w // 2, w-1)
highest_edge = (rotated_edge[r1][:,c].sum(axis=1).argmax())
lowest_edge = (rotated_edge[r2][:,c].sum(axis=1).argmax() + (h // 2))
'''
leftest_edge = (rotated_edge[r][:,c1].sum(axis=0).argmax())
rightest_edge = (rotated_edge[r][:,c2].sum(axis=0).argmax() + (w // 2))
'''
leftest_edge = w1
rightest_edge = w2
'''
_, img_w = rotated_edge.shape
half = int(img_w/2)
max_right_sum = 0
max_right_i = 0
sum_img = numpy.sum(rotated_img,axis=0)
for i in range(half,img_w-50):
s = sum(sum_img[i:i+50])
if s > max_right_sum:
max_right_sum = s
max_right_i = i
'''
#print(highest_edge, lowest_edge, leftest_edge, rightest_edge)
#print max_right_i
#rightest_edge = max_right_i + 200
#leftest_edge = 0
'''
rotated_edge[highest_edge, : ] = 200
rotated_edge[lowest_edge, : ] = 200 #150
rotated_edge[: , leftest_edge] = 200 #200
rotated_edge[: , rightest_edge] = 200 #250
rotated_croped = rotated_edge[highest_edge : lowest_edge, leftest_edge : rightest_edge]
'''
rotated_croped_img = rotated_img[highest_edge : lowest_edge, leftest_edge : rightest_edge]
'''
fig = plt.figure(figsize = (30, 30))
ax1 = fig.add_subplot(2, 2, 1)
ax2 = fig.add_subplot(2, 2, 2)
ax3 = fig.add_subplot(2, 2, 3)
ax4 = fig.add_subplot(2, 2, 4)
ax1.imshow(rotated_edge, cmap = plt.cm.gray)
ax2.imshow(rotated_croped, cmap = plt.cm.gray)
ax3.imshow(rotated_img, cmap = plt.cm.gray)
ax4.imshow(rotated_croped_img, cmap = plt.cm.gray)
plt.show()
'''
#print("rotated_croped_img type: ", rotated_croped_img)
#cv2.imwrite(url, rotated_croped_img)
#im = Image.fromarray(rotated_croped_img)
#im.save(url)
return rotated_croped_img
def img_resized_enhance(img, url):
#尺度归一化
#resized_img = cv2.resize(img, (136, 100), cv2.INTER_NEAREST) #最近邻插值
resized_img = cv2.resize(img, (320, 240), cv2.INTER_LINEAR) #双线性插值
#resized_img = cv2.resize(img, (136, 100), cv2.INTER_NEAREST) #最近邻插值
'''
fig = plt.figure(figsize = (30, 20))
ax1 = fig.add_subplot(1, 2, 1)
ax2 = fig.add_subplot(1, 2, 2)
ax1.imshow(img, cmap = plt.cm.gray)
ax2.imshow(resized_img, cmap = plt.cm.gray)
plt.show()
'''
norm_resized_img = resized_img
# 灰度归一化
norm_resized_img = cv2.normalize(resized_img, norm_resized_img, 0, 255, cv2.NORM_MINMAX)
# 直方图均衡化
#equ_resized_img = cv2.equalizeHist(resized_img)
# create a CLAHE object (Arguments are optional).
clahe = cv2.createCLAHE(clipLimit=2.0, tileGridSize=(8,8))
clahe_resized_img = clahe.apply(norm_resized_img)
'''
plt.figure(figsize = (30, 30))
plt.subplot(2, 2, 1), plt.title('image')
plt.imshow(img, cmap = plt.cm.gray)
plt.subplot(2, 2, 2), plt.title('resized_img')
plt.imshow(resized_img, cmap = plt.cm.gray)
plt.subplot(2, 2, 3), plt.title('norm_resized_img')
plt.imshow(norm_resized_img, cmap = plt.cm.gray)
plt.subplot(2, 2, 4), plt.title('CLAHE')
plt.imshow(clahe_resized_img, cmap = plt.cm.gray)
plt.show()
'''
print('saving...')
#保存前一定要创建文件夹
cv2.imwrite(url, clahe_resized_img)
print('done')
return clahe_resized_img
def get_imgs_roi(img_file):
images = os.listdir(img_file)
for i, image in enumerate(images):
print(i)
print(image)
img_raw = cv2.imread(os.path.join(img_file, image), 0)
print(img_raw.shape)
'''
(h,w) = img.shape
center = (w / 2,h / 2)
M = cv2.getRotationMatrix2D(center,90,1)#旋转缩放矩阵:(旋转中心,旋转角度,缩放因子)
img_raw = cv2.warpAffine(img,M,(w,h))
'''
#img_raw, img_edge = edge_detection(img_raw)
img_raw, img_Blur = first_filter(img_raw)
img_raw, img_Blur_edge = edge_detection(img_Blur)
'''
fig = plt.figure(figsize = (50, 15))
ax1 = fig.add_subplot(1, 3, 1)
ax2 = fig.add_subplot(1, 3, 2)
ax3 = fig.add_subplot(1, 3, 3)
ax1.imshow(img_raw, cmap = plt.cm.gray)
ax2.imshow(img_edge, cmap = plt.cm.gray)
ax3.imshow(img_Blur_edge, cmap = plt.cm.gray)
plt.show()
'''
img_Blur_edge_polar = pixel_polarization(img_Blur_edge, img_raw, 25) #二值化
img_Blur_edge_polar_midd, middle_left, middle_right, w1, w2= positioning_middle_point(img_raw, img_Blur_edge_polar, 100)
img_Blur_edge_polar_midd_rotated, rotated_img = rotation_correction(img_raw, img_Blur_edge_polar_midd, middle_right, middle_left, w1, w2)
# roi图像保存路径
new_file = './roi_600_2_all_320240'
save_root = os.path.join(new_file,image)
roi_img = roi(rotated_img, img_Blur_edge_polar_midd_rotated, w1, w2, save_root)
resized_roi_img = img_resized_enhance(roi_img, save_root)
def build_filters():
""" returns a list of kernels in several orientations
"""
filters = []
ksize = 31
for theta in np.arange(0, np.pi, np.pi / 4):
params = {'ksize':(ksize, ksize), 'sigma':3.3, 'theta':theta, 'lambd':18.3,
'gamma':4.5, 'psi':0.89, 'ktype':cv2.CV_32F}
kern = cv2.getGaborKernel(**params)
kern /= 1.5*kern.sum()
filters.append((kern,params))
return filters
def getGabor(img, filters):
""" returns the img filtered by the filter list
"""
accum = np.zeros_like(img)
for kern,params in filters:
fimg = cv2.filter2D(img, cv2.CV_8UC3, kern)
np.maximum(accum, fimg, accum)
return accum
################################################################
#二值纹理特征提取
def bin_features_extract(roi_file):
'''
images_roi = os.listdir(roi_file)
for i, image_roi in enumerate(images_roi):
print(i)
print(image_roi)
img_roi_raw = cv2.imread(os.path.join(roi_file, image_roi), 0)
'''
img_roi_raw = cv2.imread(roi_file, 0)
# Gabor滤波器
filters = build_filters()
img_roi_raw_gabor = getGabor(img_roi_raw, filters)
#print(img_roi_raw_gabor)
#灰度归一化
#norm_resized_img = cv2.normalize(img_roi_raw_gabor, norm_resized_img, 0, 255, cv2.NORM_MINMAX)
#二值化
#img_roi_raw_gabor_polar60 = img_roi_raw_gabor.copy()
#img_roi_raw_gabor_polar60 = pixel_polarization(img_roi_raw_gabor_polar60, img_roi_raw, 60)
img_roi_raw_gabor_polar70 = img_roi_raw_gabor.copy()
img_roi_raw_gabor_polar70 = pixel_polarization(img_roi_raw_gabor_polar70, img_roi_raw, 70)
'''
plt.figure(figsize = (30, 30))
plt.subplot(2, 2, 1), plt.title('img_roi_raw')
plt.imshow(img_roi_raw, cmap = plt.cm.gray)
plt.subplot(2, 2, 2), plt.title('img_roi_raw_gabor')
plt.imshow(img_roi_raw_gabor, cmap = plt.cm.gray)
plt.subplot(2, 2, 3), plt.title('img_roi_raw_gabor_polar60')
plt.imshow(img_roi_raw_gabor_polar60, cmap = plt.cm.gray)
plt.subplot(2, 2, 4), plt.title('img_roi_raw_gabor_polar70')
plt.imshow(img_roi_raw_gabor_polar70, cmap = plt.cm.gray)
plt.show()
'''
return img_roi_raw_gabor_polar70
def bin_match(img1_path, img2_path):
img1 = bin_features_extract(img1_path)
img2 = bin_features_extract(img2_path)
height, width = img1.shape
size = height * width
score = 0
for i in range(len(img1)):
for j in range(len(img1[i,:])):
if img1[i][j] == img2[i][j]:
score += 1
scores = 100 * round((score / size), 4)
#print(img1_path, img2_path, scores)
return scores
###########################################################
#图片分成m*n块
def cut_image(image, m, n):
height, width = image.shape
item_width = int(width // m)
item_height = int(height // n)
#box_list = []
cropped_list = []
# (left, upper, right, lower)
for i in range(0,n):#两重循环,生成m*n张图片基于原图的位置
for j in range(0,m):
#print((i*item_width,j*item_width,(i+1)*item_width,(j+1)*item_width))
#box = (j*item_width,i*item_height,(j+1)*item_width,(i+1)*item_height)
#box_list.append(box)
cropped = image[i*item_height:(i+1)*item_height, j*item_width:(j+1)*item_width]
cropped_list.append(cropped)
print(len(cropped_list))
#image_list = [image.crop(box) for box in box_list]
return cropped_list
#LBP特征提取
from skimage.feature import local_binary_pattern
def LBP_feature_extrector(roi_file):
images_roi = os.listdir(roi_file)
# settings for LBP
radius = 3
n_points = 8 * radius
METHOD = 'uniform'
for i, image_roi in enumerate(images_roi):
print(i)
print(image_roi)
img_roi_raw = cv2.imread(os.path.join(roi_file, image_roi), 0)
img_roi_raw_lbp = local_binary_pattern(img_roi_raw, n_points, radius, METHOD)
#print(img_roi_raw_lbp.shape())
#img_roi_raw_lbp_cut = cut_image(img_roi_raw_lbp, 4, 4) #分成4*4
#分块显示
#plt.figure(figsize = (30, 30))
#print(img_roi_raw_lbp_cut.shape())
'''
score = cv2.compareHist(lbp_hist, lbp_hist, cv2.HISTCMP_BHATTACHARYYA)
#score = kullback_leibler_divergence(lbp_hist, lbp_hist)
print(score)
'''
'''
#绘制直方图
#lbp_hist = plt.hist(img_roi_raw_lbp.ravel(),256,[0,256])
n_bins = int(img_roi_raw_lbp.max() + 1)
lbp_hist = plt.hist(img_roi_raw_lbp.ravel(), density=True, bins=n_bins, range=(0, n_bins), facecolor='0.5')
plt.figure(figsize = (30, 30))
plt.subplot(1, 2, 1), plt.title('img_roi_raw')
plt.imshow(img_roi_raw, cmap = plt.cm.gray)
plt.subplot(1, 2, 2), plt.title('img_roi_raw_lbp')
plt.imshow(img_roi_raw_lbp, cmap = plt.cm.gray)
# plt.subplot(1, 3, 3), plt.title('lbp_hist')
# plt.imshow(lbp_hist)
plt.show()
'''
##########################################
#SIFT特征提取与匹配
def SIFT_detector(gray_path):
images_sift = os.listdir(gray_path)
for i, image_sift in enumerate(images_sift):
print(i)
print(image_sift)
img = cv2.imread(os.path.join(gray_path, image_sift), 0)
'''
#sift检测
sift = cv2.xfeatures2d.SIFT_create()
kp = sift.detect(img,None)
img_sift=cv2.drawKeypoints(img,kp,img,flags=cv2.DRAW_MATCHES_FLAGS_DRAW_RICH_KEYPOINTS)
'''
'''
#SURF检测
surf = cv2.xfeatures2d.SURF_create()
kp = surf.detect(img,None)
img_surf=cv2.drawKeypoints(img,kp,img,flags=cv2.DRAW_MATCHES_FLAGS_DRAW_RICH_KEYPOINTS)
'''
'''
#ORB检测,几乎没有
orb = cv2.ORB_create()
kp = orb.detect(img,None)
img_orb=cv2.drawKeypoints(img,kp,img,flags=cv2.DRAW_MATCHES_FLAGS_DRAW_RICH_KEYPOINTS)
'''
#KAZE检测
kaze = cv2.KAZE_create()
kp = kaze.detect(img,None)
img_kaze=cv2.drawKeypoints(img,kp,img,flags=cv2.DRAW_MATCHES_FLAGS_DRAW_RICH_KEYPOINTS)
#cv2.imwrite('sift_keypoints.jpg',img)
plt.figure(figsize = (30, 30))
plt.subplot(1, 2, 1), plt.title('img')
plt.imshow(img, cmap = plt.cm.gray)
plt.subplot(1, 2, 2), plt.title('img_kaze')
plt.imshow(img_kaze, cmap = plt.cm.gray)
# plt.subplot(1, 3, 3), plt.title('lbp_hist')
# plt.imshow(lbp_hist)
plt.show()
def SIFT_match(img1_path, img2_path):
img1 = cv2.imread(img1_path,0) # queryImage
img2 = cv2.imread(img2_path,0) # trainImage
# Initiate SIFT detector
sift = cv2.xfeatures2d.SIFT_create()
# find the keypoints and descriptors with SIFT
kp1, des1 = sift.detectAndCompute(img1,None)
kp2, des2 = sift.detectAndCompute(img2,None)
# BFMatcher with default params
bf = cv2.BFMatcher()
matches = bf.knnMatch(des1,des2, k=2)
# Apply ratio test
good = []
for m,n in matches:
if m.distance < 0.75*n.distance:
good.append([m])
# cv2.drawMatchesKnn expects list of lists as matches.
img3 = cv2.drawMatchesKnn(img1,kp1,img2,kp2,good,None,flags=cv2.DrawMatchesFlags_NOT_DRAW_SINGLE_POINTS)
plt.imshow(img3),plt.show()
def FLANN_based_Matcher(img1_path, img2_path):
img1 = cv2.imread(img1_path, 0) # queryImage
img2 = cv2.imread(img2_path, 0) # trainImage
'''
# Initiate SURF detector
surf = cv2.xfeatures2d.SURF_create()
# find the keypoints and descriptors with SIFT
kp1, des1 = surf.detectAndCompute(img1,None)
kp2, des2 = surf.detectAndCompute(img2,None)
'''
'''
kaze = cv2.KAZE_create()
kp1, des1 = kaze.detectAndCompute(img1, None)
kp2, des2 = kaze.detectAndCompute(img2, None)
# Initiate ORB detector
orb = cv2.ORB_create()
# find the keypoints and descriptors with ORB
kp1, des1 = orb.detectAndCompute(img1,None)
kp2, des2 = orb.detectAndCompute(img2,None)
'''
# Initiate SIFT detector
sift = cv2.xfeatures2d.SIFT_create()
# find the keypoints and descriptors with SIFT
kp1, des1 = sift.detectAndCompute(img1,None)
kp2, des2 = sift.detectAndCompute(img2,None)
# FLANN parameters
FLANN_INDEX_KDTREE = 1
index_params = dict(algorithm = FLANN_INDEX_KDTREE, trees = 5)
search_params = dict(checks=50) # or pass empty dictionary
flann = cv2.FlannBasedMatcher(index_params,search_params)
matches = flann.knnMatch(des1,des2,k=2)
# Need to draw only good matches, so create a mask
matchesMask = [[0,0] for i in range(len(matches))]
#matchesMask = []
# ratio test as per Lowe's paper
match_keypoints_count = 0
for i,(m,n) in enumerate(matches):
if m.distance < 0.8*n.distance:
matchesMask[i]=[1,0]
#matchesMask.append(m)
match_keypoints_count += 1
draw_params = dict(matchColor = (0,255,0),
singlePointColor = (255,0,0),
matchesMask = matchesMask,
flags = cv2.DrawMatchesFlags_DEFAULT)
#计算匹配得分,保留小数点后两位
score = 100 * round(match_keypoints_count / len(matchesMask), 4)
#print('score = ', score)
'''
img3 = cv2.drawMatchesKnn(img1,kp1,img2,kp2,matches,None,**draw_params)
#img3 = cv2.drawMatchesKnn(img1,kp1,img2,kp2,matches,None,flags=2)
plt.imshow(img3),plt.show()
'''
return score
#绘制第几组样本的类内类间距离直方图
def cal_scores(method='FLANN', flag=1):
scores_list_diff = []
scores_list_same = []
#类间比较
for k in range(1,5):
if k is not flag:
for i in range(1,11):
for j in range(1,11):
#print('%s', )
strs1 = './data/roi_600_2_all_320240/600-{}-{}-1.bmp'.format(flag,i)
strs2 = './data/roi_600_2_all_320240/600-{}-{}-1.bmp'.format(k,j)
if method == 'FLANN':
scores = FLANN_based_Matcher(strs1, strs2)
scores_list_diff.append(scores)
if method == 'BIN':
scores = bin_match(strs1, strs2)
scores_list_diff.append(scores)
print(strs1,strs2, scores)
#类内比较
for i in range(1,11):
for j in range(1,11):
#print('%s', )
strs1 = './data/roi_600_2_all_320240/600-{}-{}-1.bmp'.format(flag,i)
strs2 = './data/roi_600_2_all_320240/600-{}-{}-1.bmp'.format(flag,j)
if method == 'FLANN':
scores = FLANN_based_Matcher(strs1, strs2)
scores_list_same.append(scores)
if method == 'BIN':
scores = bin_match(strs1, strs2)
scores_list_same.append(scores)
print(strs1,strs2, scores)
plt.hist(scores_list_diff, 60, range=(0,100), density=True, histtype="bar", facecolor='g', label='Inter-class', alpha=0.5)
plt.hist(scores_list_same, 60, range=(0,100), density=True, histtype="bar", facecolor='r', label='In-class', alpha=0.5)
plt.xlabel('Matched Features Ratio(MFR)(%)', fontsize=25)
plt.ylabel('MFR Histogram', fontsize=25)
plt.title('Distribution of matching ratio between in-class samples and inter-class samples', fontsize=30)
#plt.text(60, .025, r'$\mu=100,\ \sigma=15$')
#plt.axis([0, 1, 0, 0.03])
plt.grid(True)
plt.show()
#print(scores_list)
#get_imgs_roi('./data/600/2')
#bin_features_extract('./data/roi_320240')
#bin_match('./data/roi_600_2_all_320240/600-3-7-1.bmp', './data/roi_600_2_all_320240/600-3-8-1.bmp')
#LBP_feature_extrector('./data/roi_320240')
#SIFT_detector('./data/roi_320240/')
#SIFT_match('./data/roi_320240/600-3-7-1.bmp', './data/roi_320240/600-3-8-1.bmp')
#2号样本计算分布直方图
#cal_scores('FLANN', 2)
#4号样本计算直方图
#cal_scores('BIN', 4)