how to use yolov11s-seg supervision onnx runtime? #1787
Description
dear @onuralpszr i saw similar case on #1626 and tried some customization with my own usecase for segmentation but doesn't seem to properly working
here is how I am exporting my model with ultralytics
ft_loaded_best_model.export(
format="onnx",
nms=True,
data="/content/disease__instance_segmented/data.yaml",
) # creates 'best.onnx'which outputs in console
Ultralytics 8.3.75 🚀 Python-3.11.11 torch-2.5.1+cu124 CPU (Intel Xeon 2.00GHz)
YOLO11s-seg summary (fused): 265 layers, 10,068,364 parameters, 0 gradients, 35.3 GFLOPs
PyTorch: starting from '/content/drive/MyDrive/ML/DENTAL_THESIS/fine_tuned/segment/train/weights/best.pt' with input shape (1, 3, 640, 640) BCHW and output shape(s) ((1, 300, 38), (1, 32, 160, 160)) (19.6 MB)
ONNX: starting export with onnx 1.17.0 opset 19...
ONNX: slimming with onnxslim 0.1.48...
ONNX: export success ✅ 4.2s, saved as '/content/drive/MyDrive/ML/DENTAL_THESIS/fine_tuned/segment/train/weights/best.onnx' (38.7 MB)
Export complete (5.5s)
Results saved to /content/drive/MyDrive/ML/DENTAL_THESIS/fine_tuned/segment/train/weights
Predict: yolo predict task=segment model=/content/drive/MyDrive/ML/DENTAL_THESIS/fine_tuned/segment/train/weights/best.onnx imgsz=640
Validate: yolo val task=segment model=/content/drive/MyDrive/ML/DENTAL_THESIS/fine_tuned/segment/train/weights/best.onnx imgsz=640 data=/content/dental_disease__instance_segmented-7/data.yaml
Visualize: https://netron.app/
/content/drive/MyDrive/ML/DENTAL_THESIS/fine_tuned/segment/train/weights/best.onnxI have 4 classes in my model
as I applied nms my output0 is already transposed I think
where first 4 indices are bbox. 5 is prob, 6 is class id 7 and rest 32 are mask and the 300 is for the model will detect up to 300 results, educate if my interpretation is wrong ?
here is my implementation
def xywh2xyxy(x):
y = np.copy(x)
y[..., 0] = x[..., 0] - x[..., 2] / 2
y[..., 1] = x[..., 1] - x[..., 3] / 2
y[..., 2] = x[..., 0] + x[..., 2] / 2
y[..., 3] = x[..., 1] + x[..., 3] / 2
return y
class YOLOv11:
def __init__(self, path, conf_thres=0.7, iou_thres=0.5):
self.conf_threshold = conf_thres
self.iou_threshold = iou_thres
# Initialize the ONNX model
self.initialize_model(path)
def __call__(self, image):
return self.detect_objects(image)
def initialize_model(self, path):
self.session = onnxruntime.InferenceSession(
path, providers=onnxruntime.get_available_providers()
)
self.get_input_details()
self.get_output_details()
def detect_objects(self, image):
input_tensor = self.prepare_input(image)
outputs = self.inference(input_tensor)
self.boxes, self.scores, self.class_ids, self.masks = self.process_output(outputs)
return self.boxes, self.scores, self.class_ids, self.masks
def prepare_input(self, image):
self.img_height, self.img_width = image.shape[:2]
input_img = cv2.cvtColor(image, cv2.COLOR_BGR2RGB)
input_img = cv2.resize(input_img, (self.input_width, self.input_height))
input_img = input_img / 255.0
input_img = input_img.transpose(2, 0, 1)
input_tensor = input_img[np.newaxis, :, :, :].astype(np.float32)
return input_tensor
def inference(self, input_tensor):
outputs = self.session.run(self.output_names, {self.input_names[0]: input_tensor})
return outputs
def process_output(self, outputs):
"""
Process model outputs:
- outputs[0]: shape (1, 300, 38)
* 0-3: bounding box (xywh)
* 4: confidence score
* 5: class id
* 6-37: segmentation coefficients (32 values)
- outputs[1]: shape (1, 38, 160, 160) mask prototypes
"""
# Remove batch dimension from detections
predictions = np.squeeze(outputs[0]) # shape (300, 38)
mask_protos = outputs[1] # shape (1, 38, 160, 160)
# Filter predictions using the confidence score (index 4)
conf_scores = predictions[:, 4]
valid = conf_scores > self.conf_threshold
predictions = predictions[valid]
scores = conf_scores[valid]
if len(scores) == 0:
return [], [], [], []
# Extract bounding boxes (indices 0-3)
boxes = self.extract_boxes(predictions)
# Extract class ids (index 5) and cast them to int
class_ids = predictions[:, 5].astype(np.int32)
# Extract segmentation masks using segmentation coefficients (indices 6-37)
masks = self.extract_masks(predictions, mask_protos)
return boxes, scores, class_ids, masks
def extract_boxes(self, predictions):
boxes = predictions[:, :4] # xywh format
boxes = self.rescale_boxes(boxes)
boxes = xywh2xyxy(boxes)
return boxes
def rescale_boxes(self, boxes):
# Scale boxes from network input dimensions to original image dimensions
input_shape = np.array([self.input_width, self.input_height, self.input_width, self.input_height])
boxes = np.divide(boxes, input_shape, dtype=np.float32)
boxes *= np.array([self.img_width, self.img_height, self.img_width, self.img_height])
return boxes
def extract_masks(self, predictions, mask_protos):
"""
Compute segmentation masks:
- predictions: (num_detections, 38) with segmentation coefficients at indices 6-37
- mask_protos: (1, 38, 160, 160); we use the first 32 channels to match coefficients.
"""
# Get segmentation coefficients from predictions (32 coefficients)
seg_coeffs = predictions[:, 6:38] # shape: (num_detections, 32)
# Use the first 32 channels from mask prototypes
mask_protos = mask_protos[0, :32, :, :] # shape: (32, 160, 160)
# Compute per-detection masks as a weighted sum over mask prototypes
masks = np.einsum('nc,chw->nhw', seg_coeffs, mask_protos)
# Apply sigmoid to get values between 0 and 1
masks = 1 / (1 + np.exp(-masks))
# Threshold masks to produce binary masks
masks = masks > 0.5
# Resize each mask to the original image dimensions
final_masks = []
for mask in masks:
mask_uint8 = (mask.astype(np.uint8)) * 255
mask_resized = cv2.resize(mask_uint8, (self.img_width, self.img_height), interpolation=cv2.INTER_NEAREST)
final_masks.append(mask_resized)
final_masks = np.array(final_masks)
return final_masks
def get_input_details(self):
model_inputs = self.session.get_inputs()
self.input_names = [inp.name for inp in model_inputs]
self.input_shape = model_inputs[0].shape
self.input_height = self.input_shape[2]
self.input_width = self.input_shape[3]
def get_output_details(self):
model_outputs = self.session.get_outputs()
self.output_names = [out.name for out in model_outputs]