app.py

import gradio as gr
import numpy as np
import os
import cv2
import matplotlib.pyplot as plt
from huggingface_hub import snapshot_download
import rasterio
from rasterio.enums import Resampling
from rasterio.plot import reshape_as_image
import sys

# Download the entire repository to a subdirectory
repo_id = "truthdotphd/cloud-detection"
repo_subdir = "."
repo_dir = snapshot_download(repo_id=repo_id, local_dir=repo_subdir)

# Add the repository directory to the Python path
sys.path.append(repo_dir)

# Import the necessary functions from the downloaded modules
try:
    from omnicloudmask import predict_from_array
except ImportError:
    omnicloudmask_dir = os.path.join(repo_dir, "omnicloudmask")
    if os.path.exists(omnicloudmask_dir):
        sys.path.append(omnicloudmask_dir)
        from omnicloudmask import predict_from_array
    else:
        raise ImportError("Could not find the omnicloudmask module in the downloaded repository")

def visualize_rgb(red_file, green_file, blue_file, nir_file):
    """
    Create and display an RGB visualization immediately after images are uploaded.
    """
    if not all([red_file, green_file, blue_file, nir_file]):
        return None
    
    try:
        # Get dimensions from red band to use for resampling
        with rasterio.open(red_file) as src:
            target_height = src.height
            target_width = src.width
        
        # Load bands
        blue_data = load_band(blue_file)
        green_data = load_band(green_file)
        red_data = load_band(red_file)
        
        # Compute max values for each channel for dynamic normalization
        red_max = np.max(red_data)
        green_max = np.max(green_data)
        blue_max = np.max(blue_data)
        
        # Create RGB image for visualization with dynamic normalization
        rgb_image = np.zeros((red_data.shape[0], red_data.shape[1], 3), dtype=np.float32)
        
        # Normalize each channel individually
        epsilon = 1e-10
        rgb_image[:, :, 0] = red_data / (red_max + epsilon)
        rgb_image[:, :, 1] = green_data / (green_max + epsilon)
        rgb_image[:, :, 2] = blue_data / (blue_max + epsilon)
        
        # Clip values to 0-1 range
        rgb_image = np.clip(rgb_image, 0, 1)
        
        # Apply contrast enhancement for better visualization
        p2 = np.percentile(rgb_image, 2)
        p98 = np.percentile(rgb_image, 98)
        rgb_image_enhanced = np.clip((rgb_image - p2) / (p98 - p2), 0, 1)
        
        # Convert to uint8 for display
        rgb_display = (rgb_image_enhanced * 255).astype(np.uint8)
        
        return rgb_display
    except Exception as e:
        print(f"Error generating RGB preview: {e}")
        return None


def visualize_jp2(file_path):
    """
    Visualize a single JP2 file.
    """
    with rasterio.open(file_path) as src:
        # Read the data
        data = src.read(1)
        
        # Normalize the data for visualization
        data = (data - np.min(data)) / (np.max(data) - np.min(data))
        
        # Apply a colormap for better visualization
        cmap = plt.get_cmap('viridis')
        colored_image = cmap(data)
        
        # Convert to 8-bit for display
        return (colored_image[:, :, :3] * 255).astype(np.uint8)

def load_band(file_path, resample=False, target_height=None, target_width=None):
    """
    Load a single band from a raster file with optional resampling.
    """
    with rasterio.open(file_path) as src:
        if resample and target_height is not None and target_width is not None:
            band_data = src.read(
                out_shape=(src.count, target_height, target_width),
                resampling=Resampling.bilinear
            )[0].astype(np.float32)
        else:
            band_data = src.read()[0].astype(np.float32)
    
    return band_data

def prepare_input_array(red_file, green_file, blue_file, nir_file):
    """
    Prepare a stacked array of satellite bands for cloud mask prediction.
    """
    # Get dimensions from red band to use for resampling
    with rasterio.open(red_file) as src:
        target_height = src.height
        target_width = src.width
    
    # Load bands (resample NIR band to match 10m resolution)
    blue_data = load_band(blue_file)
    green_data = load_band(green_file)
    red_data = load_band(red_file)
    nir_data = load_band(
        nir_file, 
        resample=True, 
        target_height=target_height, 
        target_width=target_width
    )
    
    # Print band shapes for debugging
    print(f"Band shapes - Blue: {blue_data.shape}, Green: {green_data.shape}, Red: {red_data.shape}, NIR: {nir_data.shape}")
    
    # Compute max values for each channel for dynamic normalization
    red_max = np.max(red_data)
    green_max = np.max(green_data)
    blue_max = np.max(blue_data)
    
    print(f"Max values - Red: {red_max}, Green: {green_max}, Blue: {blue_max}")
    
    # Create RGB image for visualization with dynamic normalization
    rgb_image = np.zeros((red_data.shape[0], red_data.shape[1], 3), dtype=np.float32)
    
    # Normalize each channel individually
    # Add a small epsilon to avoid division by zero
    epsilon = 1e-10
    rgb_image[:, :, 0] = red_data / (red_max + epsilon)
    rgb_image[:, :, 1] = green_data / (green_max + epsilon)
    rgb_image[:, :, 2] = blue_data / (blue_max + epsilon)
    
    # Clip values to 0-1 range
    rgb_image = np.clip(rgb_image, 0, 1)
    
    # Optional: Apply contrast enhancement for better visualization
    p2 = np.percentile(rgb_image, 2)
    p98 = np.percentile(rgb_image, 98)
    rgb_image_enhanced = np.clip((rgb_image - p2) / (p98 - p2), 0, 1)
    
    # Stack bands in CHW format for cloud mask prediction (red, green, nir)
    prediction_array = np.stack([red_data, green_data, nir_data], axis=0)
    
    return prediction_array, rgb_image_enhanced


def visualize_cloud_mask(rgb_image, pred_mask):
    """
    Create a visualization of the cloud mask overlaid on the RGB image.
    """
    # Ensure pred_mask has the right dimensions
    if pred_mask.ndim > 2:
        pred_mask = np.squeeze(pred_mask)
    
    print(f"RGB image shape: {rgb_image.shape}, Pred mask shape: {pred_mask.shape}")
    
    # Ensure mask has the same spatial dimensions as the image
    if pred_mask.shape != rgb_image.shape[:2]:
        pred_mask = cv2.resize(
            pred_mask.astype(np.float32), 
            (rgb_image.shape[1], rgb_image.shape[0]),
            interpolation=cv2.INTER_NEAREST
        ).astype(np.uint8)
        print(f"Resized mask shape: {pred_mask.shape}")
    
    # Define colors for each class
    colors = {
        0: [0, 255, 0],      # Clear - Green
        1: [255, 255, 255],  # Thick Cloud - White
        2: [200, 200, 200],  # Thin Cloud - Light Gray
        3: [100, 100, 100]   # Cloud Shadow - Dark Gray
    }
    
    # Create a color-coded mask
    mask_vis = np.zeros((pred_mask.shape[0], pred_mask.shape[1], 3), dtype=np.uint8)
    for class_idx, color in colors.items():
        mask_vis[pred_mask == class_idx] = color
    
    # Create a blended visualization
    alpha = 0.5
    blended = cv2.addWeighted((rgb_image * 255).astype(np.uint8), 1-alpha, mask_vis, alpha, 0)
    
    # Get the width of the blended image for the legend
    image_width = blended.shape[1]
    
    # Create a legend with the same width as the image
    legend = np.ones((100, image_width, 3), dtype=np.uint8) * 255
    legend_text = ["Clear", "Thick Cloud", "Thin Cloud", "Cloud Shadow"]
    legend_colors = [colors[i] for i in range(4)]
    
    for i, (text, color) in enumerate(zip(legend_text, legend_colors)):
        cv2.rectangle(legend, (10, 10 + i*20), (30, 30 + i*20), color, -1)
        cv2.putText(legend, text, (40, 25 + i*20), cv2.FONT_HERSHEY_SIMPLEX, 0.5, (0, 0, 0), 1)
    
    # Combine image and legend
    final_output = np.vstack([blended, legend])
    
    return final_output
    
def process_satellite_images(red_file, green_file, blue_file, nir_file, batch_size, patch_size, patch_overlap):
    """
    Process the satellite images and detect clouds.
    """
    if not all([red_file, green_file, blue_file, nir_file]):
        return None, None, "Please upload all four channel files (Red, Green, Blue, NIR)"

    # Prepare input array and RGB image for visualization
    input_array, rgb_image = prepare_input_array(red_file, green_file, blue_file, nir_file)
    
    # Convert RGB image to format suitable for display
    rgb_display = (rgb_image * 255).astype(np.uint8)
    
    # Predict cloud mask using omnicloudmask
    pred_mask = predict_from_array(
        input_array, 
        batch_size=batch_size,
        patch_size=patch_size,
        patch_overlap=patch_overlap
    )
    
    # Calculate class distribution
    if pred_mask.ndim > 2:
        flat_mask = np.squeeze(pred_mask)
    else:
        flat_mask = pred_mask
    
    clear_pixels = np.sum(flat_mask == 0)
    thick_cloud_pixels = np.sum(flat_mask == 1)
    thin_cloud_pixels = np.sum(flat_mask == 2)
    cloud_shadow_pixels = np.sum(flat_mask == 3)
    total_pixels = flat_mask.size
    
    stats = f"""
    Cloud Mask Statistics:
    - Clear: {clear_pixels} pixels ({clear_pixels/total_pixels*100:.2f}%)
    - Thick Cloud: {thick_cloud_pixels} pixels ({thick_cloud_pixels/total_pixels*100:.2f}%)
    - Thin Cloud: {thin_cloud_pixels} pixels ({thin_cloud_pixels/total_pixels*100:.2f}%)
    - Cloud Shadow: {cloud_shadow_pixels} pixels ({cloud_shadow_pixels/total_pixels*100:.2f}%)
    - Total Cloud Cover: {(thick_cloud_pixels + thin_cloud_pixels)/total_pixels*100:.2f}%
    """
    
    # Visualize the cloud mask on the original image
    visualization = visualize_cloud_mask(rgb_image, flat_mask)
    
    return rgb_display, visualization, stats


# Create Gradio interface with default examples
demo = gr.Interface(
    fn=process_satellite_images,
    inputs=[
        gr.File(label="Red Channel (JP2)"),
        gr.File(label="Green Channel (JP2)"),
        gr.File(label="Blue Channel (JP2)"),
        gr.File(label="NIR Channel (JP2)"),
        gr.Slider(minimum=1, maximum=32, value=1, step=1, label="Batch Size", info="Higher values use more memory but process faster"),
        gr.Slider(minimum=500, maximum=2000, value=1000, step=100, label="Patch Size", info="Size of image patches for processing"),
        gr.Slider(minimum=100, maximum=500, value=300, step=50, label="Patch Overlap", info="Overlap between patches to avoid edge artifacts")
    ],
    outputs=[
        gr.Image(label="Original RGB Image"),
        gr.Image(label="Cloud Detection Visualization"),
        gr.Textbox(label="Statistics")
    ],
    title="Satellite Cloud Detection",
    description="""
    Upload separate JP2 files for Red, Green, Blue, and NIR channels to detect clouds in satellite imagery.
    
    This application uses the OmniCloudMask model to classify each pixel as:
    - Clear (0)
    - Thick Cloud (1)
    - Thin Cloud (2)
    - Cloud Shadow (3)
    
    The model works best with imagery at 10-50m resolution. For higher resolution imagery, downsampling is recommended.
    """,
    examples=[
        ["jp2s/B04.jp2", "jp2s/B03.jp2", "jp2s/B02.jp2", "jp2s/B8A.jp2", 1, 1000, 300]
    ]
)

# Launch the app
demo.launch(debug=True)