geoai-py 0.3.6__py2.py3-none-any.whl → 0.4.1__py2.py3-none-any.whl

geoai/train.py

@@ -0,0 +1,1039 @@
+import math
+import os
+import random
+import time
+
+import matplotlib.pyplot as plt
+import numpy as np
+import rasterio
+import torch
+import torch.utils.data
+import torchvision
+
+# import torchvision.transforms as transforms
+from rasterio.windows import Window
+from skimage import measure
+from sklearn.model_selection import train_test_split
+from torch.utils.data import DataLoader, Dataset
+from torchvision.models.detection import maskrcnn_resnet50_fpn
+from torchvision.models.detection.faster_rcnn import FastRCNNPredictor
+from torchvision.models.detection.mask_rcnn import MaskRCNNPredictor
+from tqdm import tqdm
+
+
+def get_instance_segmentation_model(num_classes=2, num_channels=3, pretrained=True):
+    """
+    Get Mask R-CNN model with custom input channels and output classes.
+
+    Args:
+        num_classes (int): Number of output classes (including background).
+        num_channels (int): Number of input channels (3 for RGB, 4 for RGBN).
+        pretrained (bool): Whether to use pretrained backbone.
+
+    Returns:
+        torch.nn.Module: Mask R-CNN model with specified input channels and output classes.
+
+    Raises:
+        ValueError: If num_channels is less than 3.
+    """
+    # Validate num_channels
+    if num_channels < 3:
+        raise ValueError("num_channels must be at least 3")
+
+    # Load pre-trained model
+    model = maskrcnn_resnet50_fpn(
+        pretrained=pretrained,
+        progress=True,
+        weights=(
+            torchvision.models.detection.MaskRCNN_ResNet50_FPN_Weights.DEFAULT
+            if pretrained
+            else None
+        ),
+    )
+
+    # Modify transform if num_channels is different from 3
+    if num_channels != 3:
+        # Get the transform
+        transform = model.transform
+
+        # Default values are [0.485, 0.456, 0.406] and [0.229, 0.224, 0.225]
+        # Calculate means and stds for additional channels
+        rgb_mean = [0.485, 0.456, 0.406]
+        rgb_std = [0.229, 0.224, 0.225]
+
+        # Extend them to num_channels (use the mean value for additional channels)
+        mean_of_means = sum(rgb_mean) / len(rgb_mean)
+        mean_of_stds = sum(rgb_std) / len(rgb_std)
+
+        # Create new lists with appropriate length
+        transform.image_mean = rgb_mean + [mean_of_means] * (num_channels - 3)
+        transform.image_std = rgb_std + [mean_of_stds] * (num_channels - 3)
+
+    # Get number of input features for the classifier
+    in_features = model.roi_heads.box_predictor.cls_score.in_features
+
+    # Replace the pre-trained head with a new one
+    model.roi_heads.box_predictor = FastRCNNPredictor(in_features, num_classes)
+
+    # Get number of input features for mask classifier
+    in_features_mask = model.roi_heads.mask_predictor.conv5_mask.in_channels
+    hidden_layer = 256
+
+    # Replace mask predictor with a new one
+    model.roi_heads.mask_predictor = MaskRCNNPredictor(
+        in_features_mask, hidden_layer, num_classes
+    )
+
+    # Modify the first layer if num_channels is different from 3
+    if num_channels != 3:
+        original_layer = model.backbone.body.conv1
+        model.backbone.body.conv1 = torch.nn.Conv2d(
+            num_channels,
+            original_layer.out_channels,
+            kernel_size=original_layer.kernel_size,
+            stride=original_layer.stride,
+            padding=original_layer.padding,
+            bias=original_layer.bias is not None,
+        )
+
+        # Copy weights from the original 3 channels to the new layer
+        with torch.no_grad():
+            # Copy the weights for the first 3 channels
+            model.backbone.body.conv1.weight[:, :3, :, :] = original_layer.weight
+
+            # Initialize additional channels with the mean of the first 3 channels
+            mean_weight = original_layer.weight.mean(dim=1, keepdim=True)
+            for i in range(3, num_channels):
+                model.backbone.body.conv1.weight[:, i : i + 1, :, :] = mean_weight
+
+            # Copy bias if it exists
+            if original_layer.bias is not None:
+                model.backbone.body.conv1.bias = original_layer.bias
+
+    return model
+
+
+class ObjectDetectionDataset(Dataset):
+    """Dataset for object detection from GeoTIFF images and labels."""
+
+    def __init__(self, image_paths, label_paths, transforms=None, num_channels=None):
+        """
+        Initialize dataset.
+
+        Args:
+            image_paths (list): List of paths to image GeoTIFF files.
+            label_paths (list): List of paths to label GeoTIFF files.
+            transforms (callable, optional): Transformations to apply to images and masks.
+            num_channels (int, optional): Number of channels to use from images. If None,
+                auto-detected from the first image.
+        """
+        self.image_paths = image_paths
+        self.label_paths = label_paths
+        self.transforms = transforms
+
+        # Auto-detect the number of channels if not specified
+        if num_channels is None:
+            with rasterio.open(self.image_paths[0]) as src:
+                self.num_channels = src.count
+        else:
+            self.num_channels = num_channels
+
+    def __len__(self):
+        return len(self.image_paths)
+
+    def __getitem__(self, idx):
+        # Load image
+        with rasterio.open(self.image_paths[idx]) as src:
+            # Read as [C, H, W] format
+            image = src.read().astype(np.float32)
+
+            # Normalize image to [0, 1] range
+            image = image / 255.0
+
+            # Handle different number of channels
+            if image.shape[0] > self.num_channels:
+                image = image[
+                    : self.num_channels
+                ]  # Keep only first 4 bands if more exist
+            elif image.shape[0] < self.num_channels:
+                # Pad with zeros if less than 4 bands
+                padded = np.zeros(
+                    (self.num_channels, image.shape[1], image.shape[2]),
+                    dtype=np.float32,
+                )
+                padded[: image.shape[0]] = image
+                image = padded
+
+            # Convert to CHW tensor
+            image = torch.as_tensor(image, dtype=torch.float32)
+
+        # Load label mask
+        with rasterio.open(self.label_paths[idx]) as src:
+            label_mask = src.read(1)
+            binary_mask = (label_mask > 0).astype(np.uint8)
+
+        # Find all building instances using connected components
+        labeled_mask, num_instances = measure.label(
+            binary_mask, return_num=True, connectivity=2
+        )
+
+        # Create list to hold masks for each building instance
+        masks = []
+        boxes = []
+        labels = []
+
+        for i in range(1, num_instances + 1):
+            # Create mask for this instance
+            instance_mask = (labeled_mask == i).astype(np.uint8)
+
+            # Calculate area and filter out tiny instances (noise)
+            area = instance_mask.sum()
+            if area < 10:  # Minimum area threshold
+                continue
+
+            # Find bounding box coordinates
+            pos = np.where(instance_mask)
+            if len(pos[0]) == 0:  # Skip if mask is empty
+                continue
+
+            xmin = np.min(pos[1])
+            xmax = np.max(pos[1])
+            ymin = np.min(pos[0])
+            ymax = np.max(pos[0])
+
+            # Skip invalid boxes
+            if xmax <= xmin or ymax <= ymin:
+                continue
+
+            # Add small padding to ensure the mask is within the box
+            xmin = max(0, xmin - 1)
+            ymin = max(0, ymin - 1)
+            xmax = min(binary_mask.shape[1] - 1, xmax + 1)
+            ymax = min(binary_mask.shape[0] - 1, ymax + 1)
+
+            boxes.append([xmin, ymin, xmax, ymax])
+            masks.append(instance_mask)
+            labels.append(1)  # 1 for building class
+
+        # Handle case with no valid instances
+        if len(boxes) == 0:
+            # Create a dummy target with minimal required fields
+            target = {
+                "boxes": torch.zeros((0, 4), dtype=torch.float32),
+                "labels": torch.zeros((0), dtype=torch.int64),
+                "masks": torch.zeros(
+                    (0, binary_mask.shape[0], binary_mask.shape[1]), dtype=torch.uint8
+                ),
+                "image_id": torch.tensor([idx]),
+                "area": torch.zeros((0), dtype=torch.float32),
+                "iscrowd": torch.zeros((0), dtype=torch.int64),
+            }
+        else:
+            # Convert to tensors
+            boxes = torch.as_tensor(boxes, dtype=torch.float32)
+            labels = torch.as_tensor(labels, dtype=torch.int64)
+            masks = torch.as_tensor(np.array(masks), dtype=torch.uint8)
+
+            # Calculate area of boxes
+            area = (boxes[:, 3] - boxes[:, 1]) * (boxes[:, 2] - boxes[:, 0])
+
+            # Prepare target dictionary
+            target = {
+                "boxes": boxes,
+                "labels": labels,
+                "masks": masks,
+                "image_id": torch.tensor([idx]),
+                "area": area,
+                "iscrowd": torch.zeros_like(labels),  # Assume no crowd instances
+            }
+
+        # Apply transforms if specified
+        if self.transforms is not None:
+            image, target = self.transforms(image, target)
+
+        return image, target
+
+
+class Compose:
+    """Custom compose transform that works with image and target."""
+
+    def __init__(self, transforms):
+        """
+        Initialize compose transform.
+
+        Args:
+            transforms (list): List of transforms to apply.
+        """
+        self.transforms = transforms
+
+    def __call__(self, image, target):
+        for t in self.transforms:
+            image, target = t(image, target)
+        return image, target
+
+
+class ToTensor:
+    """Convert numpy.ndarray to tensor."""
+
+    def __call__(self, image, target):
+        """
+        Apply transform to image and target.
+
+        Args:
+            image (torch.Tensor): Input image.
+            target (dict): Target annotations.
+
+        Returns:
+            tuple: Transformed image and target.
+        """
+        return image, target
+
+
+class RandomHorizontalFlip:
+    """Random horizontal flip transform."""
+
+    def __init__(self, prob=0.5):
+        """
+        Initialize random horizontal flip.
+
+        Args:
+            prob (float): Probability of applying the flip.
+        """
+        self.prob = prob
+
+    def __call__(self, image, target):
+        if random.random() < self.prob:
+            # Flip image
+            image = torch.flip(image, dims=[2])  # Flip along width dimension
+
+            # Flip masks
+            if "masks" in target and len(target["masks"]) > 0:
+                target["masks"] = torch.flip(target["masks"], dims=[2])
+
+            # Update boxes
+            if "boxes" in target and len(target["boxes"]) > 0:
+                boxes = target["boxes"]
+                width = image.shape[2]
+                boxes[:, 0], boxes[:, 2] = width - boxes[:, 2], width - boxes[:, 0]
+                target["boxes"] = boxes
+
+        return image, target
+
+
+def get_transform(train):
+    """
+    Get transforms for data augmentation.
+
+    Args:
+        train (bool): Whether to include training-specific transforms.
+
+    Returns:
+        Compose: Composed transforms.
+    """
+    transforms = []
+    transforms.append(ToTensor())
+
+    if train:
+        transforms.append(RandomHorizontalFlip(0.5))
+
+    return Compose(transforms)
+
+
+def collate_fn(batch):
+    """
+    Custom collate function for batching samples.
+
+    Args:
+        batch (list): List of (image, target) tuples.
+
+    Returns:
+        tuple: Tuple of images and targets.
+    """
+    return tuple(zip(*batch))
+
+
+def train_one_epoch(model, optimizer, data_loader, device, epoch, print_freq=10):
+    """
+    Train the model for one epoch.
+
+    Args:
+        model (torch.nn.Module): The model to train.
+        optimizer (torch.optim.Optimizer): The optimizer to use.
+        data_loader (torch.utils.data.DataLoader): DataLoader for training data.
+        device (torch.device): Device to train on.
+        epoch (int): Current epoch number.
+        print_freq (int): How often to print progress.
+
+    Returns:
+        float: Average loss for the epoch.
+    """
+    model.train()
+    total_loss = 0
+
+    start_time = time.time()
+
+    for i, (images, targets) in enumerate(data_loader):
+        # Move images and targets to device
+        images = list(image.to(device) for image in images)
+        targets = [{k: v.to(device) for k, v in t.items()} for t in targets]
+
+        # Forward pass
+        loss_dict = model(images, targets)
+        losses = sum(loss for loss in loss_dict.values())
+
+        # Backward pass
+        optimizer.zero_grad()
+        losses.backward()
+        optimizer.step()
+
+        # Track loss
+        total_loss += losses.item()
+
+        # Print progress
+        if i % print_freq == 0:
+            elapsed_time = time.time() - start_time
+            print(
+                f"Epoch: {epoch}, Batch: {i}/{len(data_loader)}, Loss: {losses.item():.4f}, Time: {elapsed_time:.2f}s"
+            )
+            start_time = time.time()
+
+    # Calculate average loss
+    avg_loss = total_loss / len(data_loader)
+    return avg_loss
+
+
+def evaluate(model, data_loader, device):
+    """
+    Evaluate the model on the validation set.
+
+    Args:
+        model (torch.nn.Module): The model to evaluate.
+        data_loader (torch.utils.data.DataLoader): DataLoader for validation data.
+        device (torch.device): Device to evaluate on.
+
+    Returns:
+        dict: Evaluation metrics including loss and IoU.
+    """
+    model.eval()
+
+    # Initialize metrics
+    total_loss = 0
+    iou_scores = []
+
+    with torch.no_grad():
+        for images, targets in data_loader:
+            # Move to device
+            images = list(image.to(device) for image in images)
+            targets = [{k: v.to(device) for k, v in t.items()} for t in targets]
+
+            # During evaluation, Mask R-CNN directly returns predictions, not losses
+            # So we'll only get loss when we provide targets explicitly
+            if len(targets) > 0:
+                try:
+                    # Try to get loss dict (this works in some implementations)
+                    loss_dict = model(images, targets)
+                    if isinstance(loss_dict, dict):
+                        losses = sum(loss for loss in loss_dict.values())
+                        total_loss += losses.item()
+                except Exception as e:
+                    print(f"Warning: Could not compute loss during evaluation: {e}")
+                    # If we can't compute loss, we'll just focus on IoU
+                    pass
+
+            # Get predictions
+            outputs = model(images)
+
+            # Calculate IoU for each image
+            for i, output in enumerate(outputs):
+                if len(output["masks"]) == 0 or len(targets[i]["masks"]) == 0:
+                    continue
+
+                # Convert predicted masks to binary (threshold at 0.5)
+                pred_masks = (output["masks"].squeeze(1) > 0.5).float()
+
+                # Combine all instance masks into a single binary mask
+                pred_combined = (
+                    torch.max(pred_masks, dim=0)[0]
+                    if pred_masks.shape[0] > 0
+                    else torch.zeros_like(targets[i]["masks"][0])
+                )
+                target_combined = (
+                    torch.max(targets[i]["masks"], dim=0)[0]
+                    if targets[i]["masks"].shape[0] > 0
+                    else torch.zeros_like(pred_combined)
+                )
+
+                # Calculate IoU
+                intersection = (pred_combined * target_combined).sum().item()
+                union = ((pred_combined + target_combined) > 0).sum().item()
+
+                if union > 0:
+                    iou = intersection / union
+                    iou_scores.append(iou)
+
+    # Calculate metrics
+    avg_loss = total_loss / len(data_loader) if total_loss > 0 else float("inf")
+    avg_iou = sum(iou_scores) / len(iou_scores) if iou_scores else 0
+
+    return {"loss": avg_loss, "IoU": avg_iou}
+
+
+def visualize_predictions(model, dataset, device, num_samples=5, output_dir=None):
+    """
+    Visualize model predictions.
+
+    Args:
+        model (torch.nn.Module): Trained model.
+        dataset (torch.utils.data.Dataset): Dataset to visualize.
+        device (torch.device): Device to run inference on.
+        num_samples (int): Number of samples to visualize.
+        output_dir (str, optional): Directory to save visualizations. If None,
+            visualizations are displayed but not saved.
+    """
+    model.eval()
+
+    # Create output directory if needed
+    if output_dir:
+        os.makedirs(output_dir, exist_ok=True)
+
+    # Select random samples
+    indices = random.sample(range(len(dataset)), min(num_samples, len(dataset)))
+
+    for idx in indices:
+        # Get image and target
+        image, target = dataset[idx]
+
+        # Convert to device and add batch dimension
+        image = image.to(device)
+        image_batch = [image]
+
+        # Get prediction
+        with torch.no_grad():
+            output = model(image_batch)[0]
+
+        # Convert image from CHW to HWC for display (first 3 bands as RGB)
+        rgb_image = image[:3].cpu().numpy()
+        rgb_image = np.transpose(rgb_image, (1, 2, 0))
+        rgb_image = np.clip(rgb_image, 0, 1)  # Ensure values are in [0,1]
+
+        # Create binary ground truth mask (combine all instances)
+        gt_masks = target["masks"].cpu().numpy()
+        gt_combined = (
+            np.max(gt_masks, axis=0)
+            if len(gt_masks) > 0
+            else np.zeros((image.shape[1], image.shape[2]), dtype=np.uint8)
+        )
+
+        # Create binary prediction mask (combine all instances with score > 0.5)
+        pred_masks = output["masks"].cpu().numpy()
+        pred_scores = output["scores"].cpu().numpy()
+        high_conf_indices = pred_scores > 0.5
+
+        pred_combined = np.zeros((image.shape[1], image.shape[2]), dtype=np.float32)
+        if np.any(high_conf_indices):
+            for mask in pred_masks[high_conf_indices]:
+                # Apply threshold to each predicted mask
+                binary_mask = (mask[0] > 0.5).astype(np.float32)
+                # Combine with existing masks
+                pred_combined = np.maximum(pred_combined, binary_mask)
+
+        # Create figure
+        fig, axs = plt.subplots(1, 3, figsize=(15, 5))
+
+        # Show RGB image
+        axs[0].imshow(rgb_image)
+        axs[0].set_title("RGB Image")
+        axs[0].axis("off")
+
+        # Show prediction
+        axs[1].imshow(pred_combined, cmap="viridis")
+        axs[1].set_title(f"Predicted Buildings: {np.sum(high_conf_indices)} instances")
+        axs[1].axis("off")
+
+        # Show ground truth
+        axs[2].imshow(gt_combined, cmap="viridis")
+        axs[2].set_title(f"Ground Truth: {len(gt_masks)} instances")
+        axs[2].axis("off")
+
+        plt.tight_layout()
+
+        # Save or show
+        if output_dir:
+            plt.savefig(os.path.join(output_dir, f"prediction_{idx}.png"))
+            plt.close()
+        else:
+            plt.show()
+
+
+def train_MaskRCNN_model(
+    images_dir,
+    labels_dir,
+    output_dir,
+    num_channels=3,
+    pretrained=True,
+    batch_size=4,
+    num_epochs=10,
+    learning_rate=0.005,
+    seed=42,
+    val_split=0.2,
+    visualize=False,
+):
+    """
+    Train and evaluate Mask R-CNN model for instance segmentation.
+
+    Args:
+        images_dir (str): Directory containing image GeoTIFF files.
+        labels_dir (str): Directory containing label GeoTIFF files.
+        output_dir (str): Directory to save model checkpoints and results.
+        num_channels (int, optional): Number of input channels. If None, auto-detected.
+        pretrained (bool): Whether to use pretrained backbone.
+        batch_size (int): Batch size for training.
+        num_epochs (int): Number of training epochs.
+        learning_rate (float): Initial learning rate.
+        seed (int): Random seed for reproducibility.
+        val_split (float): Fraction of data to use for validation (0-1).
+        visualize (bool): Whether to generate visualizations of model predictions.
+
+    Returns:
+        None: Model weights are saved to output_dir.
+    """
+
+    # Set random seeds for reproducibility
+    torch.manual_seed(seed)
+    np.random.seed(seed)
+    random.seed(seed)
+    torch.backends.cudnn.deterministic = True
+    torch.backends.cudnn.benchmark = False
+
+    # Create output directory
+    os.makedirs(output_dir, exist_ok=True)
+
+    # Get device
+    device = torch.device("cuda") if torch.cuda.is_available() else torch.device("cpu")
+    print(f"Using device: {device}")
+
+    # Get all image and label files
+    image_files = sorted(
+        [
+            os.path.join(images_dir, f)
+            for f in os.listdir(images_dir)
+            if f.endswith(".tif")
+        ]
+    )
+    label_files = sorted(
+        [
+            os.path.join(labels_dir, f)
+            for f in os.listdir(labels_dir)
+            if f.endswith(".tif")
+        ]
+    )
+
+    print(f"Found {len(image_files)} image files and {len(label_files)} label files")
+
+    # Ensure matching files
+    if len(image_files) != len(label_files):
+        print("Warning: Number of image files and label files don't match!")
+        # Find matching files by basename
+        basenames = [os.path.basename(f) for f in image_files]
+        label_files = [
+            os.path.join(labels_dir, os.path.basename(f))
+            for f in image_files
+            if os.path.exists(os.path.join(labels_dir, os.path.basename(f)))
+        ]
+        image_files = [
+            f
+            for f, b in zip(image_files, basenames)
+            if os.path.exists(os.path.join(labels_dir, b))
+        ]
+        print(f"Using {len(image_files)} matching files")
+
+    # Split data into train and validation sets
+    train_imgs, val_imgs, train_labels, val_labels = train_test_split(
+        image_files, label_files, test_size=val_split, random_state=seed
+    )
+
+    print(f"Training on {len(train_imgs)} images, validating on {len(val_imgs)} images")
+
+    # Create datasets
+    train_dataset = ObjectDetectionDataset(
+        train_imgs, train_labels, transforms=get_transform(train=True)
+    )
+    val_dataset = ObjectDetectionDataset(
+        val_imgs, val_labels, transforms=get_transform(train=False)
+    )
+
+    # Create data loaders
+    train_loader = DataLoader(
+        train_dataset,
+        batch_size=batch_size,
+        shuffle=True,
+        collate_fn=collate_fn,
+        num_workers=4,
+    )
+
+    val_loader = DataLoader(
+        val_dataset,
+        batch_size=batch_size,
+        shuffle=False,
+        collate_fn=collate_fn,
+        num_workers=4,
+    )
+
+    # Initialize model (2 classes: background and building)
+    model = get_instance_segmentation_model(
+        num_classes=2, num_channels=num_channels, pretrained=pretrained
+    )
+    model.to(device)
+
+    # Set up optimizer
+    params = [p for p in model.parameters() if p.requires_grad]
+    optimizer = torch.optim.SGD(
+        params, lr=learning_rate, momentum=0.9, weight_decay=0.0005
+    )
+
+    # Set up learning rate scheduler
+    lr_scheduler = torch.optim.lr_scheduler.StepLR(optimizer, step_size=5, gamma=0.8)
+
+    # Training loop
+    best_iou = 0
+    for epoch in range(num_epochs):
+        # Train one epoch
+        train_loss = train_one_epoch(model, optimizer, train_loader, device, epoch)
+
+        # Update learning rate
+        lr_scheduler.step()
+
+        # Evaluate
+        eval_metrics = evaluate(model, val_loader, device)
+
+        # Print metrics
+        print(
+            f"Epoch {epoch+1}/{num_epochs}: Train Loss: {train_loss:.4f}, Val Loss: {eval_metrics['loss']:.4f}, Val IoU: {eval_metrics['IoU']:.4f}"
+        )
+
+        # Save best model
+        if eval_metrics["IoU"] > best_iou:
+            best_iou = eval_metrics["IoU"]
+            print(f"Saving best model with IoU: {best_iou:.4f}")
+            torch.save(model.state_dict(), os.path.join(output_dir, "best_model.pth"))
+
+        # Save checkpoint every 10 epochs
+        if (epoch + 1) % 10 == 0:
+            torch.save(
+                {
+                    "epoch": epoch,
+                    "model_state_dict": model.state_dict(),
+                    "optimizer_state_dict": optimizer.state_dict(),
+                    "scheduler_state_dict": lr_scheduler.state_dict(),
+                    "best_iou": best_iou,
+                },
+                os.path.join(output_dir, f"checkpoint_epoch_{epoch+1}.pth"),
+            )
+
+    # Save final model
+    torch.save(model.state_dict(), os.path.join(output_dir, "final_model.pth"))
+
+    # Load best model for evaluation and visualization
+    model.load_state_dict(torch.load(os.path.join(output_dir, "best_model.pth")))
+
+    # Final evaluation
+    final_metrics = evaluate(model, val_loader, device)
+    print(
+        f"Final Evaluation - Loss: {final_metrics['loss']:.4f}, IoU: {final_metrics['IoU']:.4f}"
+    )
+
+    # Visualize results
+    if visualize:
+        print("Generating visualizations...")
+        visualize_predictions(
+            model,
+            val_dataset,
+            device,
+            num_samples=5,
+            output_dir=os.path.join(output_dir, "visualizations"),
+        )
+    print(f"Training complete!. Trained model saved to {output_dir}")
+
+
+def inference_on_geotiff(
+    model,
+    geotiff_path,
+    output_path,
+    window_size=512,
+    overlap=256,
+    confidence_threshold=0.5,
+    batch_size=4,
+    num_channels=3,
+    device=None,
+    **kwargs,
+):
+    """
+    Perform inference on a large GeoTIFF using a sliding window approach with improved blending.
+
+    Args:
+        model (torch.nn.Module): Trained model for inference.
+        geotiff_path (str): Path to input GeoTIFF file.
+        output_path (str): Path to save output mask GeoTIFF.
+        window_size (int): Size of sliding window for inference.
+        overlap (int): Overlap between adjacent windows.
+        confidence_threshold (float): Confidence threshold for predictions (0-1).
+        batch_size (int): Batch size for inference.
+        num_channels (int): Number of channels to use from the input image.
+        device (torch.device, optional): Device to run inference on. If None, uses CUDA if available.
+        **kwargs: Additional arguments.
+
+    Returns:
+        tuple: Tuple containing output path and inference time in seconds.
+    """
+    if device is None:
+        device = (
+            torch.device("cuda") if torch.cuda.is_available() else torch.device("cpu")
+        )
+
+    # Put model in evaluation mode
+    model.to(device)
+    model.eval()
+
+    # Open the GeoTIFF
+    with rasterio.open(geotiff_path) as src:
+        # Read metadata
+        meta = src.meta
+        height = src.height
+        width = src.width
+
+        # Update metadata for output raster
+        out_meta = meta.copy()
+        out_meta.update(
+            {"count": 1, "dtype": "uint8"}  # Single band for mask  # Binary mask
+        )
+
+        # We'll use two arrays:
+        # 1. For accumulating predictions
+        pred_accumulator = np.zeros((height, width), dtype=np.float32)
+        # 2. For tracking how many predictions contribute to each pixel
+        count_accumulator = np.zeros((height, width), dtype=np.float32)
+
+        # Calculate the number of windows needed to cover the entire image
+        steps_y = math.ceil((height - overlap) / (window_size - overlap))
+        steps_x = math.ceil((width - overlap) / (window_size - overlap))
+
+        # Ensure we cover the entire image
+        last_y = height - window_size
+        last_x = width - window_size
+
+        total_windows = steps_y * steps_x
+        print(
+            f"Processing {total_windows} windows with size {window_size}x{window_size} and overlap {overlap}..."
+        )
+
+        # Create progress bar
+        pbar = tqdm(total=total_windows)
+
+        # Process in batches
+        batch_inputs = []
+        batch_positions = []
+        batch_count = 0
+
+        start_time = time.time()
+
+        # Slide window over the image - make sure we cover the entire image
+        for i in range(steps_y + 1):  # +1 to ensure we reach the edge
+            y = min(i * (window_size - overlap), last_y)
+            y = max(0, y)  # Prevent negative indices
+
+            if y > last_y and i > 0:  # Skip if we've already covered the entire height
+                continue
+
+            for j in range(steps_x + 1):  # +1 to ensure we reach the edge
+                x = min(j * (window_size - overlap), last_x)
+                x = max(0, x)  # Prevent negative indices
+
+                if (
+                    x > last_x and j > 0
+                ):  # Skip if we've already covered the entire width
+                    continue
+
+                # Read window
+                window = src.read(window=Window(x, y, window_size, window_size))
+
+                # Check if window is valid
+                if window.shape[1] != window_size or window.shape[2] != window_size:
+                    # This can happen at image edges - adjust window size
+                    current_height = window.shape[1]
+                    current_width = window.shape[2]
+                    if current_height == 0 or current_width == 0:
+                        continue  # Skip empty windows
+                else:
+                    current_height = window_size
+                    current_width = window_size
+
+                # Normalize and prepare input
+                image = window.astype(np.float32) / 255.0
+
+                # Handle different number of bands
+                if image.shape[0] > num_channels:
+                    image = image[:num_channels]
+                elif image.shape[0] < num_channels:
+                    padded = np.zeros(
+                        (num_channels, current_height, current_width), dtype=np.float32
+                    )
+                    padded[: image.shape[0]] = image
+                    image = padded
+
+                # Convert to tensor
+                image_tensor = torch.tensor(image, device=device)
+
+                # Add to batch
+                batch_inputs.append(image_tensor)
+                batch_positions.append((y, x, current_height, current_width))
+                batch_count += 1
+
+                # Process batch when it reaches the batch size or at the end
+                if batch_count == batch_size or (i == steps_y and j == steps_x):
+                    # Forward pass
+                    with torch.no_grad():
+                        outputs = model(batch_inputs)
+
+                    # Process each output in the batch
+                    for idx, output in enumerate(outputs):
+                        y_pos, x_pos, h, w = batch_positions[idx]
+
+                        # Create weight matrix that gives higher weight to center pixels
+                        # This helps with smooth blending at boundaries
+                        y_grid, x_grid = np.mgrid[0:h, 0:w]
+
+                        # Calculate distance from each edge
+                        dist_from_left = x_grid
+                        dist_from_right = w - x_grid - 1
+                        dist_from_top = y_grid
+                        dist_from_bottom = h - y_grid - 1
+
+                        # Combine distances (minimum distance to any edge)
+                        edge_distance = np.minimum.reduce(
+                            [
+                                dist_from_left,
+                                dist_from_right,
+                                dist_from_top,
+                                dist_from_bottom,
+                            ]
+                        )
+
+                        # Convert to weight (higher weight for center pixels)
+                        # Normalize to [0, 1]
+                        edge_distance = np.minimum(edge_distance, overlap / 2)
+                        weight = edge_distance / (overlap / 2)
+
+                        # Get masks for predictions above threshold
+                        if len(output["scores"]) > 0:
+                            # Get all instances that meet confidence threshold
+                            keep = output["scores"] > confidence_threshold
+                            masks = output["masks"][keep].squeeze(1)
+
+                            # Combine all instances into one mask
+                            if len(masks) > 0:
+                                combined_mask = torch.max(masks, dim=0)[0] > 0.5
+                                combined_mask = (
+                                    combined_mask.cpu().numpy().astype(np.float32)
+                                )
+
+                                # Apply weight to prediction
+                                weighted_pred = combined_mask * weight
+
+                                # Add to accumulators
+                                pred_accumulator[
+                                    y_pos : y_pos + h, x_pos : x_pos + w
+                                ] += weighted_pred
+                                count_accumulator[
+                                    y_pos : y_pos + h, x_pos : x_pos + w
+                                ] += weight
+
+                    # Reset batch
+                    batch_inputs = []
+                    batch_positions = []
+                    batch_count = 0
+
+                    # Update progress bar
+                    pbar.update(len(outputs))
+
+        # Close progress bar
+        pbar.close()
+
+        # Calculate final mask by dividing accumulated predictions by counts
+        # Handle division by zero
+        mask = np.zeros((height, width), dtype=np.uint8)
+        valid_pixels = count_accumulator > 0
+        if np.any(valid_pixels):
+            # Average predictions where we have data
+            mask[valid_pixels] = (
+                pred_accumulator[valid_pixels] / count_accumulator[valid_pixels] > 0.5
+            ).astype(np.uint8)
+
+        # Record time
+        inference_time = time.time() - start_time
+        print(f"Inference completed in {inference_time:.2f} seconds")
+
+        # Save output
+        with rasterio.open(output_path, "w", **out_meta) as dst:
+            dst.write(mask, 1)
+
+        print(f"Saved prediction to {output_path}")
+
+        return output_path, inference_time
+
+
+def object_detection(
+    input_path,
+    output_path,
+    model_path,
+    window_size=512,
+    overlap=256,
+    confidence_threshold=0.5,
+    batch_size=4,
+    num_channels=3,
+    pretrained=True,
+    device=None,
+    **kwargs,
+):
+    """
+    Perform object detection on a GeoTIFF using a pre-trained Mask R-CNN model.
+
+    Args:
+        input_path (str): Path to input GeoTIFF file.
+        output_path (str): Path to save output mask GeoTIFF.
+        model_path (str): Path to trained model weights.
+        window_size (int): Size of sliding window for inference.
+        overlap (int): Overlap between adjacent windows.
+        confidence_threshold (float): Confidence threshold for predictions (0-1).
+        batch_size (int): Batch size for inference.
+        num_channels (int): Number of channels in the input image and model.
+        pretrained (bool): Whether to use pretrained backbone for model loading.
+        device (torch.device, optional): Device to run inference on. If None, uses CUDA if available.
+        **kwargs: Additional arguments passed to inference_on_geotiff.
+
+    Returns:
+        None: Output mask is saved to output_path.
+    """
+    # Load your trained model
+    if device is None:
+        device = (
+            torch.device("cuda") if torch.cuda.is_available() else torch.device("cpu")
+        )
+    model = get_instance_segmentation_model(
+        num_classes=2, num_channels=num_channels, pretrained=pretrained
+    )
+    model.load_state_dict(torch.load(model_path, map_location=device))
+    model.to(device)
+    model.eval()
+
+    inference_on_geotiff(
+        model=model,
+        geotiff_path=input_path,
+        output_path=output_path,
+        window_size=window_size,  # Adjust based on your model and memory
+        overlap=overlap,  # Overlap to avoid edge artifacts
+        confidence_threshold=confidence_threshold,
+        batch_size=batch_size,  # Adjust based on your GPU memory
+        num_channels=num_channels,
+        device=device,
+        **kwargs,
+    )