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Update periodontitis_detection.py
Browse files- periodontitis_detection.py +163 -530
periodontitis_detection.py
CHANGED
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@@ -5,85 +5,75 @@ import matplotlib.pyplot as plt
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import tensorflow as tf
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from ultralytics import YOLO
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class SimpleDentalSegmentationNoEnhance:
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def __init__(self, unet_model_path, yolo_model_path, unet_input_size=(224,224,3)):
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self.
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# Force/prefer the desired U-Net input size
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self.in_h, self.in_w, self.in_c = unet_input_size
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# Load YOLOv8
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self.yolo = YOLO(yolo_model_path)
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print("Models loaded successfully
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print(f"
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print(f"U-Net output shape
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def preprocess_for_unet(self, image_bgr):
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def run_unet(self, image_bgr):
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input_tensor, model_resized_image = self.preprocess_for_unet(image_bgr)
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self.interpreter.set_tensor(self.input_details[0]['index'], input_tensor)
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self.interpreter.invoke()
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output = self.interpreter.get_tensor(self.output_details[0]['index'])
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except Exception as e:
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print("Interpreter set_tensor failed, attempting to resize input to forced shape:", e)
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try:
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self.interpreter.resize_tensor_input(self.input_details[0]['index'], [1, self.in_h, self.in_w, self.in_c])
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self.interpreter.allocate_tensors()
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self.interpreter.set_tensor(self.input_details[0]['index'], input_tensor)
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self.interpreter.invoke()
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output = self.interpreter.get_tensor(self.output_details[0]['index'])
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except Exception as e2:
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raise RuntimeError("Failed to run TFLite interpreter") from e2
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out = output[0]
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if out.ndim == 3 and out.shape[2] >= 2:
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class_map = np.argmax(out, axis=2).astype(np.uint8)
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abc = (class_map == 1).astype(np.uint8)
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cej = (class_map == 2).astype(np.uint8)
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elif out.ndim == 2:
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abc = (
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cej =
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else:
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cej = np.zeros((h_unet, w_unet), dtype=np.uint8)
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return cej, abc, model_resized_image
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def detect_teeth(self, image_bgr):
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image_rgb = cv2.cvtColor(image_bgr, cv2.COLOR_BGR2RGB)
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results = self.yolo(image_rgb)
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detections = []
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for r in results:
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boxes = getattr(r, "boxes", None)
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if boxes is None:
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continue
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for
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except Exception:
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xyxy = np.array(box.xyxy).astype(np.float32).reshape(-1)[:4]
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try:
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conf = float(box.conf[0].cpu().numpy())
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except Exception:
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conf = float(box.conf if hasattr(box, "conf") else 0.0)
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detections.append({
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"bbox": xyxy.astype(np.float32),
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"confidence": conf,
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@@ -92,555 +82,198 @@ class SimpleDentalSegmentationNoEnhance:
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return detections
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def resize_mask_to_original(self, mask, original_shape):
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h_orig, w_orig = original_shape
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mask_resized = cv2.resize(
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return mask_resized
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def extract_abc_uppermost_line_within_bbox(self, abc_mask, bbox):
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x1, y1, x2, y2 =
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height, width = abc_mask.shape
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x1 = max(0, x1)
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y2 = min(height-1, y2)
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abc_points = []
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for x in range(x1, x2+1):
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if len(
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y_absolute = y1 + y_min_relative
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abc_points.append([x, y_absolute])
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if len(abc_points) < 2:
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return None
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return np.array(abc_points, dtype=np.int32).reshape(-1, 1, 2)
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def extract_cej_lowermost_line_within_bbox(self, cej_mask, bbox):
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x1, y1, x2, y2 =
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height, width = cej_mask.shape
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x1 = max(0, x1)
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y2 = min(height-1, y2)
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cej_points = []
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for x in range(x1, x2+1):
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if len(
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y_absolute = y1 + y_max_relative
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cej_points.append([x, y_absolute])
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if len(cej_points) < 2:
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return None
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return np.array(cej_points, dtype=np.int32).reshape(-1, 1, 2)
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def smooth_landmarks(self, points, window_size=5):
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if points is None or len(points) < window_size:
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return points
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for i in range(len(
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smoothed_points.append([points_2d[i][0], smoothed_y])
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return np.array(smoothed_points, dtype=np.int32).reshape(-1, 1, 2)
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def compute_cej_abc_distances(self, cej_points, abc_points):
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"""
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Compute distances between CEJ and ABC points.
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For each x-coordinate, find the vertical distance between CEJ and ABC.
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"""
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if cej_points is None or abc_points is None:
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return None
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cej_2d = cej_points.reshape(-1, 2)
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cej_dict = {point[0]: point[1] for point in cej_2d}
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abc_dict = {point[0]: point[1] for point in abc_2d}
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# Find common x-coordinates
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common_x = set(cej_dict.keys()) & set(abc_dict.keys())
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if not common_x:
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# If no exact matches, use interpolation
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return self.compute_distances_with_interpolation(cej_2d, abc_2d)
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distances = []
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connection_points = []
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for x in sorted(common_x):
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cej_y = cej_dict[x]
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'x': x,
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'cej_y': cej_y,
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'abc_y': abc_y,
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'distance': distance
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})
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connection_points.append([(x, cej_y), (x, abc_y)])
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return {
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'distances': distances,
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'connection_points':
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'mean_distance': np.mean([d['distance'] for d in distances]),
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'max_distance': max([d['distance'] for d in distances]),
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'min_distance': min([d['distance'] for d in distances])
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}
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def compute_distances_with_interpolation(self, cej_points, abc_points):
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"""
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Compute distances using interpolation when points don't have exact x-matches.
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"""
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# Get x-range that's common to both curves
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cej_x_min, cej_x_max = np.min(cej_points[:, 0]), np.max(cej_points[:, 0])
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abc_x_min, abc_x_max = np.min(abc_points[:, 0]), np.max(abc_points[:, 0])
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x_min = max(cej_x_min, abc_x_min)
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x_max = min(cej_x_max, abc_x_max)
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if x_min >= x_max:
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return None
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for i, x in enumerate(x_sample):
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cej_y = cej_y_interp[i]
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abc_y = abc_y_interp[i]
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distance = abs(abc_y - cej_y)
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distances.append({
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'x': int(x),
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'cej_y': int(cej_y),
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'abc_y': int(abc_y),
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'distance': distance
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})
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connection_points.append([(int(x), int(cej_y)), (int(x), int(abc_y))])
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return {
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'distances': distances,
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'connection_points':
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'mean_distance': np.mean([d['distance'] for d in distances]),
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'max_distance': max([d['distance'] for d in distances]),
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'min_distance': min([d['distance'] for d in distances])
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}
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def draw_distance_measurements(self, image, distance_analysis, tooth_id):
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"""
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Draw clean distance measurements on the image without text overlays.
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"""
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if distance_analysis is None:
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return image
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# Draw connection lines with gradient effect
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connection_points = distance_analysis['connection_points']
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distances = [d['distance'] for d in distance_analysis['distances']]
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if not distances:
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return
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# Color based on distance (green = small, red = large)
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normalized_dist = (distance - min_dist) / dist_range
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color_intensity = int(255 * normalized_dist)
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color = (0, 255 - color_intensity, color_intensity) # Green to Red
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# Draw thicker line for longer distances
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thickness = max(1, int(3 * normalized_dist) + 1)
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cv2.line(img_with_distances, start_point, end_point, color, thickness)
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# Add small circles at measurement points
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cv2.circle(img_with_distances, start_point, 2, (255, 255, 255), -1)
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cv2.circle(img_with_distances, end_point, 2, (255, 255, 255), -1)
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return img_with_distances
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def analyze_image(self, image_path):
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img_bgr = cv2.imread(image_path)
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if img_bgr is None:
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raise FileNotFoundError(f"Could not read image: {image_path}")
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h_orig, w_orig = img_bgr.shape[:2]
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cej_unet, abc_unet, _ = self.run_unet(img_bgr)
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x1, y1, x2, y2 = det["bbox"]
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x1i = max(0, int(np.floor(x1)))
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y1i = max(0, int(np.floor(y1)))
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x2i = min(w_orig - 1, int(np.ceil(x2)))
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y2i = min(h_orig - 1, int(np.ceil(y2)))
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if x2i <= x1i or y2i <= y1i:
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continue
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cv2.rectangle(combined, (x1i, y1i), (x2i, y2i), (0,255,0), 2)
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# ABC
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abc_line_segment = self.extract_abc_uppermost_line_within_bbox(abc_bin, (x1i, y1i, x2i, y2i))
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abc_data = None
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if abc_line_segment is not None and len(abc_line_segment) > 1:
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abc_line_segment = self.smooth_landmarks(abc_line_segment, window_size=3)
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cv2.polylines(combined, [abc_line_segment], False, (255,0,0), 3)
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abc_start = tuple(abc_line_segment[0][0])
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abc_end = tuple(abc_line_segment[-1][0])
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cv2.circle(combined, abc_start, 4, (255,165,0), -1)
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cv2.circle(combined, abc_end, 4, (255,165,0), -1)
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abc_data = {
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"points": abc_line_segment,
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"start": abc_start,
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"end": abc_end
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}
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all_abc_segments.append(abc_data)
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# CEJ
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cej_line_segment = self.extract_cej_lowermost_line_within_bbox(cej_bin, (x1i, y1i, x2i, y2i))
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cej_data = None
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if cej_line_segment is not None and len(cej_line_segment) > 1:
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cej_line_segment = self.smooth_landmarks(cej_line_segment, window_size=3)
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cv2.polylines(combined, [cej_line_segment], False, (0,0,255), 3)
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cej_start = tuple(cej_line_segment[0][0])
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cej_end = tuple(cej_line_segment[-1][0])
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cv2.circle(combined, cej_start, 4, (0,255,255), -1)
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cv2.circle(combined, cej_end, 4, (0,255,255), -1)
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cej_data = {
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"points": cej_line_segment,
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"start": cej_start,
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"end": cej_end
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}
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all_cej_segments.append(cej_data)
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# Compute distances between CEJ and ABC
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distance_analysis = None
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if
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distance_analysis = self.compute_cej_abc_distances(
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'tooth_id': i + 1,
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'analysis': distance_analysis
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})
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results = {
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"original": img_bgr,
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"cej_mask":
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"abc_mask":
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"detections": detections,
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"combined": combined,
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"
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"cej_segments": all_cej_segments,
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"distance_analyses": all_distance_analyses
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}
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return results
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def print_distance_summary(self, results):
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"""
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Print a summary of distance measurements for all teeth.
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"""
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print("\n" + "="*50)
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print("CEJ-ABC DISTANCE ANALYSIS SUMMARY")
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print("="*50)
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for tooth_data in results["distance_analyses"]:
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tooth_id = tooth_data['tooth_id']
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analysis = tooth_data['analysis']
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if analysis is None:
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print(f"Tooth {tooth_id}: No distance measurements available")
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continue
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print(f"\nTooth {tooth_id}:")
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print(f" Mean distance: {analysis['mean_distance']:.2f} pixels")
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print(f" Maximum distance: {analysis['max_distance']:.2f} pixels")
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print(f" Minimum distance: {analysis['min_distance']:.2f} pixels")
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print(f" Number of measurement points: {len(analysis['distances'])}")
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# Show some sample measurements
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| 407 |
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if len(analysis['distances']) > 0:
|
| 408 |
-
sample_size = min(3, len(analysis['distances']))
|
| 409 |
-
print(f" Sample measurements:")
|
| 410 |
-
for i in range(0, len(analysis['distances']), len(analysis['distances'])//sample_size):
|
| 411 |
-
d = analysis['distances'][i]
|
| 412 |
-
print(f" X={d['x']}: CEJ_Y={d['cej_y']}, ABC_Y={d['abc_y']}, Distance={d['distance']:.1f}px")
|
| 413 |
-
|
| 414 |
-
def create_distance_heatmap(self, results):
|
| 415 |
-
"""Create a heatmap visualization of distances across all teeth."""
|
| 416 |
-
all_distances = []
|
| 417 |
-
tooth_labels = []
|
| 418 |
-
|
| 419 |
-
for tooth_data in results["distance_analyses"]:
|
| 420 |
-
if tooth_data['analysis'] is not None:
|
| 421 |
-
distances = [d['distance'] for d in tooth_data['analysis']['distances']]
|
| 422 |
-
all_distances.extend(distances)
|
| 423 |
-
tooth_labels.extend([f"T{tooth_data['tooth_id']}"] * len(distances))
|
| 424 |
-
|
| 425 |
-
if not all_distances:
|
| 426 |
-
return None
|
| 427 |
-
|
| 428 |
-
# Create histogram data
|
| 429 |
-
unique_teeth = list(set(tooth_labels))
|
| 430 |
-
tooth_distances = {tooth: [] for tooth in unique_teeth}
|
| 431 |
-
|
| 432 |
-
for i, tooth in enumerate(tooth_labels):
|
| 433 |
-
tooth_distances[tooth].append(all_distances[i])
|
| 434 |
-
|
| 435 |
-
return tooth_distances
|
| 436 |
-
|
| 437 |
-
def create_overlay_image(self, results):
|
| 438 |
-
"""Create an enhanced overlay image with better visualization."""
|
| 439 |
-
img = results["original"].copy()
|
| 440 |
-
cej_mask = results["cej_mask"]
|
| 441 |
-
abc_mask = results["abc_mask"]
|
| 442 |
-
|
| 443 |
-
# Create colored overlays
|
| 444 |
-
overlay = img.copy()
|
| 445 |
-
|
| 446 |
-
# CEJ in red with transparency
|
| 447 |
-
cej_colored = np.zeros_like(img)
|
| 448 |
-
cej_colored[:, :, 2] = cej_mask # Red channel
|
| 449 |
-
|
| 450 |
-
# ABC in blue with transparency
|
| 451 |
-
abc_colored = np.zeros_like(img)
|
| 452 |
-
abc_colored[:, :, 0] = abc_mask # Blue channel
|
| 453 |
-
|
| 454 |
-
# Blend overlays
|
| 455 |
-
alpha = 0.4
|
| 456 |
-
overlay = cv2.addWeighted(overlay, 1-alpha, cej_colored, alpha, 0)
|
| 457 |
-
overlay = cv2.addWeighted(overlay, 1-alpha, abc_colored, alpha, 0)
|
| 458 |
-
|
| 459 |
-
# Add tooth detection boxes and labels
|
| 460 |
-
for i, det in enumerate(results["detections"]):
|
| 461 |
-
x1, y1, x2, y2 = det["bbox"].astype(int)
|
| 462 |
-
cv2.rectangle(overlay, (x1, y1), (x2, y2), (0, 255, 0), 2)
|
| 463 |
-
|
| 464 |
-
# Add tooth label with background
|
| 465 |
-
label = f"Tooth {i+1}"
|
| 466 |
-
font = cv2.FONT_HERSHEY_SIMPLEX
|
| 467 |
-
font_scale = 0.7
|
| 468 |
-
thickness = 2
|
| 469 |
-
(text_width, text_height), _ = cv2.getTextSize(label, font, font_scale, thickness)
|
| 470 |
-
|
| 471 |
-
cv2.rectangle(overlay, (x1, y1-text_height-10), (x1+text_width+10, y1), (0, 255, 0), -1)
|
| 472 |
-
cv2.putText(overlay, label, (x1+5, y1-5), font, font_scale, (0, 0, 0), thickness)
|
| 473 |
-
|
| 474 |
-
return overlay
|
| 475 |
-
|
| 476 |
-
def visualize_results(self, results, save_path=None):
|
| 477 |
-
# Prepare images
|
| 478 |
-
orig_rgb = cv2.cvtColor(results["original"], cv2.COLOR_BGR2RGB)
|
| 479 |
-
combined_rgb = cv2.cvtColor(results["combined"], cv2.COLOR_BGR2RGB)
|
| 480 |
-
overlay_bgr = self.create_overlay_image(results)
|
| 481 |
-
overlay_rgb = cv2.cvtColor(overlay_bgr, cv2.COLOR_BGR2RGB)
|
| 482 |
-
|
| 483 |
-
# Create figure with custom layout
|
| 484 |
-
fig = plt.figure(figsize=(20, 15))
|
| 485 |
-
|
| 486 |
-
# Create a grid layout
|
| 487 |
-
gs = fig.add_gridspec(3, 4, height_ratios=[1, 1, 0.8], hspace=0.3, wspace=0.2)
|
| 488 |
-
|
| 489 |
-
# Top row - Original images
|
| 490 |
-
ax1 = fig.add_subplot(gs[0, 0])
|
| 491 |
-
ax1.imshow(orig_rgb)
|
| 492 |
-
ax1.set_title("Original Image", fontsize=14, fontweight='bold')
|
| 493 |
-
ax1.axis("off")
|
| 494 |
-
|
| 495 |
-
ax2 = fig.add_subplot(gs[0, 1])
|
| 496 |
-
ax2.imshow(overlay_rgb)
|
| 497 |
-
ax2.set_title("Segmentation Overlay\n(Red: CEJ, Blue: ABC)", fontsize=14, fontweight='bold')
|
| 498 |
-
ax2.axis("off")
|
| 499 |
-
|
| 500 |
-
ax3 = fig.add_subplot(gs[0, 2])
|
| 501 |
-
ax3.imshow(combined_rgb)
|
| 502 |
-
ax3.set_title("Distance Analysis\n(Yellow: Measurements)", fontsize=14, fontweight='bold')
|
| 503 |
-
ax3.axis("off")
|
| 504 |
-
|
| 505 |
-
# Individual mask visualization
|
| 506 |
-
ax4 = fig.add_subplot(gs[0, 3])
|
| 507 |
-
# Create combined mask visualization
|
| 508 |
-
combined_mask = np.zeros((*results["cej_mask"].shape, 3), dtype=np.uint8)
|
| 509 |
-
combined_mask[:, :, 2] = results["cej_mask"] # CEJ in red
|
| 510 |
-
combined_mask[:, :, 0] = results["abc_mask"] # ABC in blue
|
| 511 |
-
ax4.imshow(combined_mask)
|
| 512 |
-
ax4.set_title("Combined Masks\n(Red: CEJ, Blue: ABC)", fontsize=14, fontweight='bold')
|
| 513 |
-
ax4.axis("off")
|
| 514 |
-
|
| 515 |
-
# Middle row - Distance analysis charts
|
| 516 |
-
ax5 = fig.add_subplot(gs[1, :2]) # Span 2 columns
|
| 517 |
-
|
| 518 |
-
# Create bar chart of average distances per tooth
|
| 519 |
-
tooth_means = []
|
| 520 |
-
tooth_labels = []
|
| 521 |
-
tooth_maxs = []
|
| 522 |
-
tooth_mins = []
|
| 523 |
-
|
| 524 |
-
for tooth_data in results["distance_analyses"]:
|
| 525 |
-
if tooth_data['analysis'] is not None:
|
| 526 |
-
tooth_labels.append(f"T{tooth_data['tooth_id']}")
|
| 527 |
-
tooth_means.append(tooth_data['analysis']['mean_distance'])
|
| 528 |
-
tooth_maxs.append(tooth_data['analysis']['max_distance'])
|
| 529 |
-
tooth_mins.append(tooth_data['analysis']['min_distance'])
|
| 530 |
-
|
| 531 |
-
if tooth_means:
|
| 532 |
-
x_pos = np.arange(len(tooth_labels))
|
| 533 |
-
bars = ax5.bar(x_pos, tooth_means, alpha=0.7, color='skyblue', edgecolor='navy')
|
| 534 |
-
|
| 535 |
-
# Add error bars showing min/max range
|
| 536 |
-
yerr_lower = np.array(tooth_means) - np.array(tooth_mins)
|
| 537 |
-
yerr_upper = np.array(tooth_maxs) - np.array(tooth_means)
|
| 538 |
-
ax5.errorbar(x_pos, tooth_means, yerr=[yerr_lower, yerr_upper],
|
| 539 |
-
fmt='none', ecolor='red', capsize=5, alpha=0.7)
|
| 540 |
-
|
| 541 |
-
ax5.set_xlabel("Tooth Number", fontsize=12, fontweight='bold')
|
| 542 |
-
ax5.set_ylabel("Distance (pixels)", fontsize=12, fontweight='bold')
|
| 543 |
-
ax5.set_title("CEJ-ABC Distance Analysis by Tooth", fontsize=14, fontweight='bold')
|
| 544 |
-
ax5.set_xticks(x_pos)
|
| 545 |
-
ax5.set_xticklabels(tooth_labels)
|
| 546 |
-
ax5.grid(True, alpha=0.3)
|
| 547 |
-
|
| 548 |
-
# Add value labels on bars
|
| 549 |
-
for i, (bar, mean_val, max_val, min_val) in enumerate(zip(bars, tooth_means, tooth_maxs, tooth_mins)):
|
| 550 |
-
height = bar.get_height()
|
| 551 |
-
ax5.text(bar.get_x() + bar.get_width()/2., height + 1,
|
| 552 |
-
f'{mean_val:.1f}', ha='center', va='bottom', fontweight='bold')
|
| 553 |
-
else:
|
| 554 |
-
ax5.text(0.5, 0.5, "No distance measurements available",
|
| 555 |
-
ha='center', va='center', transform=ax5.transAxes, fontsize=14)
|
| 556 |
-
ax5.set_title("CEJ-ABC Distance Analysis", fontsize=14, fontweight='bold')
|
| 557 |
-
|
| 558 |
-
# Distance distribution histogram
|
| 559 |
-
ax6 = fig.add_subplot(gs[1, 2:]) # Span 2 columns
|
| 560 |
-
|
| 561 |
-
tooth_distances = self.create_distance_heatmap(results)
|
| 562 |
-
if tooth_distances:
|
| 563 |
-
all_vals = []
|
| 564 |
-
labels = []
|
| 565 |
-
colors = plt.cm.Set3(np.linspace(0, 1, len(tooth_distances)))
|
| 566 |
-
|
| 567 |
-
for i, (tooth, distances) in enumerate(tooth_distances.items()):
|
| 568 |
-
ax6.hist(distances, bins=20, alpha=0.6, label=tooth, color=colors[i])
|
| 569 |
-
all_vals.extend(distances)
|
| 570 |
-
|
| 571 |
-
ax6.set_xlabel("Distance (pixels)", fontsize=12, fontweight='bold')
|
| 572 |
-
ax6.set_ylabel("Frequency", fontsize=12, fontweight='bold')
|
| 573 |
-
ax6.set_title("Distance Distribution Across All Measurements", fontsize=14, fontweight='bold')
|
| 574 |
-
ax6.legend()
|
| 575 |
-
ax6.grid(True, alpha=0.3)
|
| 576 |
-
else:
|
| 577 |
-
ax6.text(0.5, 0.5, "No distance data available for histogram",
|
| 578 |
-
ha='center', va='center', transform=ax6.transAxes, fontsize=14)
|
| 579 |
-
ax6.set_title("Distance Distribution", fontsize=14, fontweight='bold')
|
| 580 |
-
|
| 581 |
-
# Bottom row - Summary statistics table
|
| 582 |
-
ax7 = fig.add_subplot(gs[2, :])
|
| 583 |
-
ax7.axis('tight')
|
| 584 |
-
ax7.axis('off')
|
| 585 |
-
|
| 586 |
-
# Create summary table
|
| 587 |
-
if tooth_means:
|
| 588 |
-
table_data = []
|
| 589 |
-
headers = ['Tooth', 'Mean Distance (px)', 'Max Distance (px)', 'Min Distance (px)', 'Range (px)', 'Measurements']
|
| 590 |
-
|
| 591 |
-
for tooth_data in results["distance_analyses"]:
|
| 592 |
-
if tooth_data['analysis'] is not None:
|
| 593 |
-
analysis = tooth_data['analysis']
|
| 594 |
-
range_val = analysis['max_distance'] - analysis['min_distance']
|
| 595 |
-
num_measurements = len(analysis['distances'])
|
| 596 |
-
|
| 597 |
-
table_data.append([
|
| 598 |
-
f"T{tooth_data['tooth_id']}",
|
| 599 |
-
f"{analysis['mean_distance']:.2f}",
|
| 600 |
-
f"{analysis['max_distance']:.2f}",
|
| 601 |
-
f"{analysis['min_distance']:.2f}",
|
| 602 |
-
f"{range_val:.2f}",
|
| 603 |
-
str(num_measurements)
|
| 604 |
-
])
|
| 605 |
-
|
| 606 |
-
table = ax7.table(cellText=table_data, colLabels=headers,
|
| 607 |
-
cellLoc='center', loc='center')
|
| 608 |
-
table.auto_set_font_size(False)
|
| 609 |
-
table.set_fontsize(10)
|
| 610 |
-
table.scale(1, 2)
|
| 611 |
-
|
| 612 |
-
# Style the table
|
| 613 |
-
for (i, j), cell in table.get_celld().items():
|
| 614 |
-
if i == 0: # Header row
|
| 615 |
-
cell.set_text_props(weight='bold', color='white')
|
| 616 |
-
cell.set_facecolor('#4472C4')
|
| 617 |
-
else:
|
| 618 |
-
cell.set_facecolor('#F2F2F2' if i % 2 == 0 else 'white')
|
| 619 |
-
|
| 620 |
-
ax7.set_title("Detailed Distance Analysis Summary", fontsize=14, fontweight='bold', pad=20)
|
| 621 |
-
else:
|
| 622 |
-
ax7.text(0.5, 0.5, "No measurements available for summary table",
|
| 623 |
-
ha='center', va='center', transform=ax7.transAxes, fontsize=14)
|
| 624 |
-
|
| 625 |
-
plt.suptitle("Comprehensive Dental CEJ-ABC Distance Analysis", fontsize=16, fontweight='bold', y=0.98)
|
| 626 |
-
|
| 627 |
-
if save_path:
|
| 628 |
-
plt.savefig(save_path, dpi=300, bbox_inches="tight", facecolor='white')
|
| 629 |
-
print(f"Saved enhanced visualization to {save_path}")
|
| 630 |
-
|
| 631 |
-
return fig
|
| 632 |
|
| 633 |
|
| 634 |
if __name__ == "__main__":
|
| 635 |
-
unet_model = "unet.keras"
|
| 636 |
-
yolo_model = "yolov8n-seg.pt"
|
| 637 |
-
image_path = "
|
| 638 |
|
| 639 |
seg = SimpleDentalSegmentationNoEnhance(unet_model, yolo_model)
|
| 640 |
res = seg.analyze_image(image_path)
|
| 641 |
-
|
| 642 |
-
|
| 643 |
-
|
| 644 |
-
|
| 645 |
-
|
| 646 |
-
plt.show()
|
|
|
|
| 5 |
import tensorflow as tf
|
| 6 |
from ultralytics import YOLO
|
| 7 |
|
| 8 |
+
|
| 9 |
class SimpleDentalSegmentationNoEnhance:
|
| 10 |
+
def __init__(self, unet_model_path, yolo_model_path, unet_input_size=(224, 224, 3)):
|
| 11 |
+
"""
|
| 12 |
+
Initialize the dental segmentation and analysis pipeline.
|
| 13 |
+
"""
|
| 14 |
+
# Load Keras U-Net model
|
| 15 |
+
self.unet = tf.keras.models.load_model(unet_model_path)
|
|
|
|
|
|
|
| 16 |
self.in_h, self.in_w, self.in_c = unet_input_size
|
| 17 |
|
| 18 |
+
# Load YOLOv8 (PyTorch) model
|
| 19 |
self.yolo = YOLO(yolo_model_path)
|
| 20 |
|
| 21 |
+
print("Models loaded successfully.")
|
| 22 |
+
print(f"Keras U-Net input shape: {self.unet.input_shape}")
|
| 23 |
+
print(f"Keras U-Net output shape: {self.unet.output_shape}")
|
| 24 |
+
print(f"YOLO model loaded: {yolo_model_path}")
|
| 25 |
|
| 26 |
def preprocess_for_unet(self, image_bgr):
|
| 27 |
+
"""
|
| 28 |
+
Prepare a BGR image for U-Net prediction.
|
| 29 |
+
Converts to RGB, resizes, and normalizes.
|
| 30 |
+
"""
|
| 31 |
+
img_rgb = cv2.cvtColor(image_bgr, cv2.COLOR_BGR2RGB)
|
| 32 |
+
img_resized = cv2.resize(img_rgb, (self.in_w, self.in_h), interpolation=cv2.INTER_LINEAR)
|
| 33 |
+
img_norm = img_resized.astype(np.float32) / 255.0
|
| 34 |
+
input_tensor = np.expand_dims(img_norm, axis=0)
|
| 35 |
+
return input_tensor, img_resized
|
| 36 |
|
| 37 |
def run_unet(self, image_bgr):
|
| 38 |
+
"""
|
| 39 |
+
Run the Keras U-Net model on the given image.
|
| 40 |
+
Returns CEJ and ABC masks.
|
| 41 |
+
"""
|
| 42 |
input_tensor, model_resized_image = self.preprocess_for_unet(image_bgr)
|
| 43 |
+
preds = self.unet.predict(input_tensor, verbose=0)
|
| 44 |
+
out = preds[0]
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 45 |
|
| 46 |
if out.ndim == 3 and out.shape[2] >= 2:
|
| 47 |
class_map = np.argmax(out, axis=2).astype(np.uint8)
|
| 48 |
abc = (class_map == 1).astype(np.uint8)
|
| 49 |
cej = (class_map == 2).astype(np.uint8)
|
| 50 |
+
elif out.ndim == 3 and out.shape[2] == 1:
|
| 51 |
+
binary = out[:, :, 0]
|
| 52 |
+
abc = (binary > 0.5).astype(np.uint8)
|
| 53 |
+
cej = np.zeros_like(abc)
|
| 54 |
else:
|
| 55 |
+
h, w = out.shape[:2]
|
| 56 |
+
abc = np.zeros((h, w), dtype=np.uint8)
|
| 57 |
+
cej = np.zeros((h, w), dtype=np.uint8)
|
|
|
|
| 58 |
|
| 59 |
return cej, abc, model_resized_image
|
| 60 |
|
| 61 |
def detect_teeth(self, image_bgr):
|
| 62 |
+
"""
|
| 63 |
+
Detect teeth using YOLOv8 PyTorch model.
|
| 64 |
+
Returns bounding boxes and confidence scores.
|
| 65 |
+
"""
|
| 66 |
image_rgb = cv2.cvtColor(image_bgr, cv2.COLOR_BGR2RGB)
|
| 67 |
results = self.yolo(image_rgb)
|
| 68 |
detections = []
|
| 69 |
+
|
| 70 |
for r in results:
|
| 71 |
boxes = getattr(r, "boxes", None)
|
| 72 |
if boxes is None:
|
| 73 |
continue
|
| 74 |
+
for box in boxes:
|
| 75 |
+
xyxy = box.xyxy[0].cpu().numpy()
|
| 76 |
+
conf = float(box.conf[0].cpu().numpy())
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 77 |
detections.append({
|
| 78 |
"bbox": xyxy.astype(np.float32),
|
| 79 |
"confidence": conf,
|
|
|
|
| 82 |
return detections
|
| 83 |
|
| 84 |
def resize_mask_to_original(self, mask, original_shape):
|
| 85 |
+
"""Resize a predicted mask back to original image size."""
|
| 86 |
h_orig, w_orig = original_shape
|
| 87 |
+
mask_resized = cv2.resize(mask.astype(np.uint8) * 255, (w_orig, h_orig), interpolation=cv2.INTER_NEAREST)
|
| 88 |
+
return (mask_resized > 127).astype(np.uint8)
|
|
|
|
| 89 |
|
| 90 |
def extract_abc_uppermost_line_within_bbox(self, abc_mask, bbox):
|
| 91 |
+
"""Extract the uppermost ABC line within a detected tooth bounding box."""
|
| 92 |
+
x1, y1, x2, y2 = map(int, bbox)
|
| 93 |
height, width = abc_mask.shape
|
| 94 |
+
x1, y1 = max(0, x1), max(0, y1)
|
| 95 |
+
x2, y2 = min(width - 1, x2), min(height - 1, y2)
|
| 96 |
+
|
|
|
|
|
|
|
| 97 |
abc_points = []
|
| 98 |
+
for x in range(x1, x2 + 1):
|
| 99 |
+
column = np.where(abc_mask[y1:y2 + 1, x] == 1)[0]
|
| 100 |
+
if len(column) > 0:
|
| 101 |
+
y_absolute = y1 + np.min(column)
|
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|
| 102 |
abc_points.append([x, y_absolute])
|
| 103 |
+
|
| 104 |
if len(abc_points) < 2:
|
| 105 |
return None
|
| 106 |
return np.array(abc_points, dtype=np.int32).reshape(-1, 1, 2)
|
| 107 |
|
| 108 |
def extract_cej_lowermost_line_within_bbox(self, cej_mask, bbox):
|
| 109 |
+
"""Extract the lowermost CEJ line within a detected tooth bounding box."""
|
| 110 |
+
x1, y1, x2, y2 = map(int, bbox)
|
| 111 |
height, width = cej_mask.shape
|
| 112 |
+
x1, y1 = max(0, x1), max(0, y1)
|
| 113 |
+
x2, y2 = min(width - 1, x2), min(height - 1, y2)
|
| 114 |
+
|
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|
| 115 |
cej_points = []
|
| 116 |
+
for x in range(x1, x2 + 1):
|
| 117 |
+
column = np.where(cej_mask[y1:y2 + 1, x] == 1)[0]
|
| 118 |
+
if len(column) > 0:
|
| 119 |
+
y_absolute = y1 + np.max(column)
|
|
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|
| 120 |
cej_points.append([x, y_absolute])
|
| 121 |
+
|
| 122 |
if len(cej_points) < 2:
|
| 123 |
return None
|
| 124 |
return np.array(cej_points, dtype=np.int32).reshape(-1, 1, 2)
|
| 125 |
|
| 126 |
def smooth_landmarks(self, points, window_size=5):
|
| 127 |
+
"""Smooth a polyline using a simple moving average."""
|
| 128 |
if points is None or len(points) < window_size:
|
| 129 |
return points
|
| 130 |
+
pts = points.reshape(-1, 2)
|
| 131 |
+
smoothed = []
|
| 132 |
+
for i in range(len(pts)):
|
| 133 |
+
start, end = max(0, i - window_size // 2), min(len(pts), i + window_size // 2 + 1)
|
| 134 |
+
smoothed_y = np.mean(pts[start:end, 1])
|
| 135 |
+
smoothed.append([pts[i, 0], smoothed_y])
|
| 136 |
+
return np.array(smoothed, dtype=np.int32).reshape(-1, 1, 2)
|
|
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|
| 137 |
|
| 138 |
def compute_cej_abc_distances(self, cej_points, abc_points):
|
| 139 |
+
"""Compute vertical distances between CEJ and ABC points."""
|
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|
| 140 |
if cej_points is None or abc_points is None:
|
| 141 |
return None
|
| 142 |
+
|
| 143 |
+
cej_2d, abc_2d = cej_points.reshape(-1, 2), abc_points.reshape(-1, 2)
|
| 144 |
+
cej_dict = {x: y for x, y in cej_2d}
|
| 145 |
+
abc_dict = {x: y for x, y in abc_2d}
|
| 146 |
+
|
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|
| 147 |
common_x = set(cej_dict.keys()) & set(abc_dict.keys())
|
|
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|
| 148 |
if not common_x:
|
|
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|
| 149 |
return self.compute_distances_with_interpolation(cej_2d, abc_2d)
|
| 150 |
+
|
| 151 |
+
distances, connections = [], []
|
|
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|
| 152 |
for x in sorted(common_x):
|
| 153 |
+
cej_y, abc_y = cej_dict[x], abc_dict[x]
|
| 154 |
+
dist = abs(abc_y - cej_y)
|
| 155 |
+
distances.append({'x': x, 'cej_y': cej_y, 'abc_y': abc_y, 'distance': dist})
|
| 156 |
+
connections.append([(x, cej_y), (x, abc_y)])
|
| 157 |
+
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|
| 158 |
return {
|
| 159 |
'distances': distances,
|
| 160 |
+
'connection_points': connections,
|
| 161 |
'mean_distance': np.mean([d['distance'] for d in distances]),
|
| 162 |
+
'max_distance': np.max([d['distance'] for d in distances]),
|
| 163 |
+
'min_distance': np.min([d['distance'] for d in distances]),
|
| 164 |
}
|
| 165 |
|
| 166 |
def compute_distances_with_interpolation(self, cej_points, abc_points):
|
| 167 |
+
"""Interpolate CEJ and ABC lines when x-coordinates don’t match exactly."""
|
|
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|
|
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|
|
| 168 |
cej_x_min, cej_x_max = np.min(cej_points[:, 0]), np.max(cej_points[:, 0])
|
| 169 |
abc_x_min, abc_x_max = np.min(abc_points[:, 0]), np.max(abc_points[:, 0])
|
| 170 |
+
x_min, x_max = max(cej_x_min, abc_x_min), min(cej_x_max, abc_x_max)
|
|
|
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|
|
|
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|
|
| 171 |
if x_min >= x_max:
|
| 172 |
return None
|
| 173 |
+
|
| 174 |
+
x_samples = np.linspace(x_min, x_max, min(50, int(x_max - x_min) + 1), dtype=int)
|
| 175 |
+
cej_y = np.interp(x_samples, cej_points[:, 0], cej_points[:, 1])
|
| 176 |
+
abc_y = np.interp(x_samples, abc_points[:, 0], abc_points[:, 1])
|
| 177 |
+
|
| 178 |
+
distances, connections = [], []
|
| 179 |
+
for x, cy, ay in zip(x_samples, cej_y, abc_y):
|
| 180 |
+
dist = abs(ay - cy)
|
| 181 |
+
distances.append({'x': int(x), 'cej_y': int(cy), 'abc_y': int(ay), 'distance': dist})
|
| 182 |
+
connections.append([(int(x), int(cy)), (int(x), int(ay))])
|
| 183 |
+
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|
| 184 |
return {
|
| 185 |
'distances': distances,
|
| 186 |
+
'connection_points': connections,
|
| 187 |
'mean_distance': np.mean([d['distance'] for d in distances]),
|
| 188 |
+
'max_distance': np.max([d['distance'] for d in distances]),
|
| 189 |
+
'min_distance': np.min([d['distance'] for d in distances]),
|
| 190 |
}
|
| 191 |
|
| 192 |
def draw_distance_measurements(self, image, distance_analysis, tooth_id):
|
| 193 |
+
"""Draw color-coded CEJ-ABC measurement lines."""
|
|
|
|
|
|
|
| 194 |
if distance_analysis is None:
|
| 195 |
return image
|
| 196 |
+
img = image.copy()
|
| 197 |
+
connections = distance_analysis['connection_points']
|
|
|
|
|
|
|
|
|
|
| 198 |
distances = [d['distance'] for d in distance_analysis['distances']]
|
| 199 |
+
|
| 200 |
if not distances:
|
| 201 |
+
return img
|
| 202 |
+
|
| 203 |
+
min_d, max_d = min(distances), max(distances)
|
| 204 |
+
dist_range = max_d - min_d if max_d != min_d else 1
|
| 205 |
+
|
| 206 |
+
for i in range(0, len(connections), 3): # draw every 3rd to reduce clutter
|
| 207 |
+
(x1, y1), (x2, y2) = connections[i]
|
| 208 |
+
dist = distances[i]
|
| 209 |
+
norm = (dist - min_d) / dist_range
|
| 210 |
+
color = (0, int(255 * (1 - norm)), int(255 * norm)) # Green→Red
|
| 211 |
+
cv2.line(img, (x1, y1), (x2, y2), color, max(1, int(2 + 2 * norm)))
|
| 212 |
+
return img
|
|
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|
| 213 |
|
| 214 |
def analyze_image(self, image_path):
|
| 215 |
+
"""
|
| 216 |
+
Perform full analysis on a dental image:
|
| 217 |
+
segmentation, detection, distance measurement, and visualization.
|
| 218 |
+
"""
|
| 219 |
img_bgr = cv2.imread(image_path)
|
| 220 |
if img_bgr is None:
|
| 221 |
raise FileNotFoundError(f"Could not read image: {image_path}")
|
|
|
|
| 222 |
|
| 223 |
+
h_orig, w_orig = img_bgr.shape[:2]
|
| 224 |
cej_unet, abc_unet, _ = self.run_unet(img_bgr)
|
| 225 |
+
cej_mask = self.resize_mask_to_original(cej_unet, (h_orig, w_orig))
|
| 226 |
+
abc_mask = self.resize_mask_to_original(abc_unet, (h_orig, w_orig))
|
| 227 |
+
detections = self.detect_teeth(img_bgr)
|
| 228 |
|
| 229 |
+
combined = img_bgr.copy()
|
| 230 |
+
all_results = []
|
| 231 |
|
| 232 |
+
for det in detections:
|
| 233 |
+
x1, y1, x2, y2 = det["bbox"].astype(int)
|
| 234 |
+
cv2.rectangle(combined, (x1, y1), (x2, y2), (0, 255, 0), 2)
|
| 235 |
|
| 236 |
+
abc_line = self.extract_abc_uppermost_line_within_bbox(abc_mask, (x1, y1, x2, y2))
|
| 237 |
+
cej_line = self.extract_cej_lowermost_line_within_bbox(cej_mask, (x1, y1, x2, y2))
|
| 238 |
|
| 239 |
+
if abc_line is not None:
|
| 240 |
+
abc_line = self.smooth_landmarks(abc_line)
|
| 241 |
+
cv2.polylines(combined, [abc_line], False, (255, 0, 0), 2)
|
| 242 |
+
if cej_line is not None:
|
| 243 |
+
cej_line = self.smooth_landmarks(cej_line)
|
| 244 |
+
cv2.polylines(combined, [cej_line], False, (0, 0, 255), 2)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 245 |
|
|
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|
|
|
|
| 246 |
distance_analysis = None
|
| 247 |
+
if cej_line is not None and abc_line is not None:
|
| 248 |
+
distance_analysis = self.compute_cej_abc_distances(cej_line, abc_line)
|
| 249 |
+
if distance_analysis:
|
| 250 |
+
combined = self.draw_distance_measurements(combined, distance_analysis, det["tooth_id"])
|
| 251 |
+
|
| 252 |
+
all_results.append({
|
| 253 |
+
"tooth_id": det["tooth_id"],
|
| 254 |
+
"analysis": distance_analysis
|
|
|
|
|
|
|
| 255 |
})
|
| 256 |
|
| 257 |
+
return {
|
|
|
|
|
|
|
| 258 |
"original": img_bgr,
|
| 259 |
+
"cej_mask": cej_mask,
|
| 260 |
+
"abc_mask": abc_mask,
|
| 261 |
"detections": detections,
|
| 262 |
"combined": combined,
|
| 263 |
+
"distance_analyses": all_results
|
|
|
|
|
|
|
| 264 |
}
|
|
|
|
|
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|
| 265 |
|
| 266 |
|
| 267 |
if __name__ == "__main__":
|
| 268 |
+
unet_model = "unet.keras" # Keras model
|
| 269 |
+
yolo_model = "yolov8n-seg.pt" # YOLOv8 PyTorch model
|
| 270 |
+
image_path = "trial2.jpg"
|
| 271 |
|
| 272 |
seg = SimpleDentalSegmentationNoEnhance(unet_model, yolo_model)
|
| 273 |
res = seg.analyze_image(image_path)
|
| 274 |
+
|
| 275 |
+
plt.figure(figsize=(12, 8))
|
| 276 |
+
plt.imshow(cv2.cvtColor(res["combined"], cv2.COLOR_BGR2RGB))
|
| 277 |
+
plt.title("Dental CEJ–ABC Analysis Result")
|
| 278 |
+
plt.axis("off")
|
| 279 |
+
plt.show()
|