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torch\nfrom torchvision import transforms\nfrom PIL import Image\nfrom transformers import AutoImageProcessor, AutoModel\nimport os\n\nprint(\"Libraries imported successfully.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:21:37.729542Z","iopub.execute_input":"2026-01-06T16:21:37.730356Z","iopub.status.idle":"2026-01-06T16:22:03.518461Z","shell.execute_reply.started":"2026-01-06T16:21:37.730332Z","shell.execute_reply":"2026-01-06T16:22:03.517789Z"},"id":"e0be86bc","outputId":"2a72226e-dbce-4598-9cb5-5af360c21da0","papermill":{"duration":28.442817,"end_time":"2026-01-02T12:22:38.010225","exception":false,"start_time":"2026-01-02T12:22:09.567408","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"6e2c6ade","cell_type":"code","source":"import torch\nimport pandas as pd\nfrom sklearn.preprocessing import LabelEncoder\n\n# 2. Set up the PyTorch device\ndevice = torch.device('cuda' if torch.cuda.is_available() else 'cpu')\nprint(f\"PyTorch device set to: {device}\")\n\nDATA_PATH='/kaggle/input/csiro-biomass'\n\n# 4. Define the MODEL_PATH constant for the DinoV2 model\nMODEL_PATH = '/kaggle/input/dino/transformers/default/1'\nprint(f\"MODEL_PATH set to: '{MODEL_PATH}'\")\n\n# 5. Define the TARGET_COLS constant\nTARGET_COLS = ['Dry_Green_g', 'Dry_Dead_g', 'Dry_Clover_g', 'GDM_g', 'Dry_Total_g']\nprint(f\"TARGET_COLS set to: {TARGET_COLS}\")\n\n# 6. Preprocess train_df to a wide format\n# a. Create a base train_wide_df with unique combinations of features\ntrain_wide_df = train_df[['image_path', 'Sampling_Date', 'State', 'Species', 'Pre_GSHH_NDVI', 'Height_Ave_cm']].drop_duplicates().reset_index(drop=True)\n\n# Encode Categorical Features\nstate_encoder = LabelEncoder()\ntrain_wide_df['State_Label'] = state_encoder.fit_transform(train_wide_df['State'])\nnum_states = len(state_encoder.classes_)\n\nspecies_encoder = LabelEncoder()\ntrain_wide_df['Species_Label'] = species_encoder.fit_transform(train_wide_df['Species'])\nnum_species = len(species_encoder.classes_)\n\nprint(f\"Encoded {num_states} states and {num_species} species.\")\n\n# b. Pivot the original train_df\npivoted_train_df = train_df.pivot(index='image_path', columns='target_name', values='target')\n\n# c. Merge the pivoted DataFrame with train_wide_df\ntrain_wide_df = pd.merge(train_wide_df, pivoted_train_df, on='image_path', how='left')\n\n# d. Fill any NaN values in the new target columns with 0\ntrain_wide_df[TARGET_COLS] = train_wide_df[TARGET_COLS].fillna(0)\n\nprint(f\"Shape of train_wide_df: {train_wide_df.shape}\")\nprint(\"First 5 rows of train_wide_df:\")\nprint(train_wide_df.head())\n\n# 7. Preprocess test_df for inference\n# a. Create a new DataFrame test_unique_images_df by selecting unique image_path\ntest_unique_images_df = test_df[['image_path', 'sample_id']].drop_duplicates().reset_index(drop=True)\n\n# b. Extract the base image ID from the sample_id column\ntest_unique_images_df['image_id'] = test_unique_images_df['sample_id'].apply(lambda x: x.split('__')[0])\n\nprint(f\"Shape of test_unique_images_df: {test_unique_images_df.shape}\")\nprint(\"First 5 rows of test_unique_images_df:\")\nprint(test_unique_images_df.head())","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:03.519284Z","iopub.execute_input":"2026-01-06T16:22:03.519852Z","iopub.status.idle":"2026-01-06T16:22:03.566610Z","shell.execute_reply.started":"2026-01-06T16:22:03.519821Z","shell.execute_reply":"2026-01-06T16:22:03.565881Z"},"id":"515ec000","outputId":"32a18977-eb46-4452-ff09-e65c5a542d47","papermill":{"duration":0.083437,"end_time":"2026-01-02T12:22:38.131207","exception":false,"start_time":"2026-01-02T12:22:38.047770","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"905c15e5","cell_type":"code","source":"import torch\nfrom torch.utils.data import Dataset\nfrom torchvision import transforms\nfrom PIL import Image\nimport os\n\nprint(\"Necessary libraries for BiomassDataset imported successfully.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:03.567678Z","iopub.execute_input":"2026-01-06T16:22:03.567995Z","iopub.status.idle":"2026-01-06T16:22:03.575958Z","shell.execute_reply.started":"2026-01-06T16:22:03.567953Z","shell.execute_reply":"2026-01-06T16:22:03.575292Z"},"id":"dea17fd4","outputId":"d18fa350-49e4-431d-ec51-a32c39b2f86e","papermill":{"duration":0.042476,"end_time":"2026-01-02T12:22:38.210530","exception":false,"start_time":"2026-01-02T12:22:38.168054","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"7bed75b7","cell_type":"code","source":"class BiomassDataset(Dataset):\n    def __init__(self, dataframe, image_dir, transforms, target_cols, state_col='State_Label', species_col='Species_Label'):\n        self.dataframe = dataframe\n        self.image_dir = image_dir\n        self.transforms = transforms\n        self.target_cols = target_cols\n        self.state_col = state_col\n        self.species_col = species_col\n\n    def __len__(self):\n        return len(self.dataframe)\n\n    def __getitem__(self, idx):\n        row = self.dataframe.iloc[idx]\n        image_path_relative = row['image_path'] # Get the relative path from the DataFrame\n        full_image_path = os.path.join(self.image_dir, image_path_relative)\n\n        # Debug print: See what path Image.open is attempting to use\n\n        # Load image\n        image = Image.open(full_image_path).convert('RGB')\n        if self.transforms:\n            image = self.transforms(image)\n\n        # Extract biomass targets\n        biomass_targets = torch.tensor(row[self.target_cols].values.astype(float), dtype=torch.float32)\n\n        # Extract NDVI and Height\n        ndvi = torch.tensor(row['Pre_GSHH_NDVI'], dtype=torch.float32).unsqueeze(0)\n        height = torch.tensor(row['Height_Ave_cm'], dtype=torch.float32).unsqueeze(0)\n\n        # Extract State and Species\n        state_label = torch.tensor(row[self.state_col], dtype=torch.long)\n        species_label = torch.tensor(row[self.species_col], dtype=torch.long)\n\n        return {\n            'image': image,\n            'biomass_targets': biomass_targets,\n            'ndvi': ndvi,\n            'height': height,\n            'state': state_label,\n            'species': species_label\n        }\n\nprint(\"BiomassDataset class defined.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:03.576867Z","iopub.execute_input":"2026-01-06T16:22:03.577467Z","iopub.status.idle":"2026-01-06T16:22:03.591638Z","shell.execute_reply.started":"2026-01-06T16:22:03.577443Z","shell.execute_reply":"2026-01-06T16:22:03.590856Z"},"id":"ea66a4ef","outputId":"fcf29aa9-1891-4e0c-8559-5d3a3a993769","papermill":{"duration":0.045938,"end_time":"2026-01-02T12:22:38.293202","exception":false,"start_time":"2026-01-02T12:22:38.247264","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"1fe0e0ac","cell_type":"code","source":"import torch.nn as nn\nfrom transformers import AutoModel\n\nprint(\"nn and AutoModel imported successfully.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:31.452244Z","iopub.execute_input":"2026-01-06T16:22:31.453032Z","iopub.status.idle":"2026-01-06T16:22:31.457355Z","shell.execute_reply.started":"2026-01-06T16:22:31.452999Z","shell.execute_reply":"2026-01-06T16:22:31.456490Z"},"id":"aa957065","outputId":"7a7f1dc9-fcec-44c7-b858-3caadb867e41","papermill":{"duration":0.042157,"end_time":"2026-01-02T12:22:38.371048","exception":false,"start_time":"2026-01-02T12:22:38.328891","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"86794e89","cell_type":"code","source":"class MultiHeadBiomassModel(nn.Module):\n    def __init__(self, model_name=MODEL_PATH, num_biomass_targets=5, num_states=0, num_species=0):\n        super(MultiHeadBiomassModel, self).__init__()\n\n        # Load pre-trained DinoV2 model\n        self.backbone = AutoModel.from_pretrained(model_name)\n\n        # Freeze backbone parameters\n        for param in self.backbone.parameters():\n            param.requires_grad = False\n\n        # Determine embedding dimension from DinoV2 configuration\n        self.embedding_dim = self.backbone.config.hidden_size\n\n        # Define MLP heads\n        self.biomass_head = nn.Sequential(\n            nn.Linear(self.embedding_dim, 256),\n            nn.GELU(),\n            nn.Dropout(0.3),\n            nn.Linear(256, num_biomass_targets)\n        )\n\n        self.ndvi_head = nn.Sequential(\n            nn.Linear(self.embedding_dim, 128),\n            nn.GELU(),\n            nn.Dropout(0.3),\n            nn.Linear(128, 1)\n        )\n\n        self.height_head = nn.Sequential(\n            nn.Linear(self.embedding_dim, 128),\n            nn.GELU(),\n            nn.Dropout(0.3),\n            nn.Linear(128, 1)\n        )\n\n        # New Heads for Categorical Features\n        self.state_head = nn.Sequential(\n            nn.Linear(self.embedding_dim, 128),\n            nn.GELU(),\n            nn.Dropout(0.3),\n            nn.Linear(128, num_states)\n        )\n\n        self.species_head = nn.Sequential(\n            nn.Linear(self.embedding_dim, 128),\n            nn.GELU(),\n            nn.Dropout(0.3),\n            nn.Linear(128, num_species)\n        )\n\n    def forward(self, pixel_values):\n        # Pass image through backbone\n        outputs = self.backbone(pixel_values=pixel_values)\n\n        # Extract [CLS] token embedding\n        # In DinoV2, the pooled output (CLS token) is typically the first token of the last_hidden_state\n        cls_embedding = outputs.last_hidden_state[:, 0, :]\n\n        # Get predictions from each head\n        biomass_pred = self.biomass_head(cls_embedding)\n        ndvi_pred = self.ndvi_head(cls_embedding)\n        height_pred = self.height_head(cls_embedding)\n        state_pred = self.state_head(cls_embedding)\n        species_pred = self.species_head(cls_embedding)\n\n        return {\n            'biomass': biomass_pred,\n            'ndvi': ndvi_pred,\n            'height': height_pred,\n            'state': state_pred,\n            'species': species_pred\n        }\n\nprint(\"MultiHeadBiomassModel class defined.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:33.406293Z","iopub.execute_input":"2026-01-06T16:22:33.406602Z","iopub.status.idle":"2026-01-06T16:22:33.415720Z","shell.execute_reply.started":"2026-01-06T16:22:33.406574Z","shell.execute_reply":"2026-01-06T16:22:33.414965Z"},"id":"9cf7ea5d","outputId":"8974a895-31ee-45aa-9f59-76f7963418ea","papermill":{"duration":0.045687,"end_time":"2026-01-02T12:22:38.452462","exception":false,"start_time":"2026-01-02T12:22:38.406775","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"5503e9d4","cell_type":"code","source":"import torch.nn.functional as F\n\ndef compute_loss(predictions, targets, loss_weights):\n    # Calculate MSE for biomass predictions\n    biomass_loss = F.mse_loss(predictions['biomass'], targets['biomass_targets'])\n\n    # Calculate MSE for NDVI predictions\n    ndvi_loss = F.mse_loss(predictions['ndvi'], targets['ndvi'])\n\n    # Calculate MSE for height predictions\n    height_loss = F.mse_loss(predictions['height'], targets['height'])\n\n    # Calculate Cross Entropy for State and Species\n    state_loss = F.cross_entropy(predictions['state'], targets['state'])\n    species_loss = F.cross_entropy(predictions['species'], targets['species'])\n\n    # Apply weights and sum the losses\n    total_loss = (\n        loss_weights['biomass'] * biomass_loss +\n        loss_weights['ndvi'] * ndvi_loss +\n        loss_weights['height'] * height_loss +\n        loss_weights.get('state', 0) * state_loss +\n        loss_weights.get('species', 0) * species_loss\n    )\n    return total_loss\n\nprint(\"compute_loss function defined.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:36.948608Z","iopub.execute_input":"2026-01-06T16:22:36.948949Z","iopub.status.idle":"2026-01-06T16:22:36.956736Z","shell.execute_reply.started":"2026-01-06T16:22:36.948919Z","shell.execute_reply":"2026-01-06T16:22:36.955637Z"},"id":"b1cbcccd","outputId":"6c92c1cb-ff2f-49cc-a054-490ae1bd074f","papermill":{"duration":0.043,"end_time":"2026-01-02T12:22:38.531549","exception":false,"start_time":"2026-01-02T12:22:38.488549","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"b79c202f","cell_type":"code","source":"import torch.optim as optim\nfrom tqdm.notebook import tqdm\n\ndef train_one_epoch(model, dataloader, optimizer, loss_weights, device):\n    model.train()  # Set model to training mode\n    total_loss = 0\n\n    for batch in tqdm(dataloader, desc=\"Training\"): # Wrap dataloader with tqdm\n        optimizer.zero_grad()  # Zero the gradients\n\n        # Move data to the appropriate device\n        pixel_values = batch['image'].to(device)\n        biomass_targets = batch['biomass_targets'].to(device)\n        ndvi_targets = batch['ndvi'].to(device)\n        height_targets = batch['height'].to(device)\n        state_targets = batch['state'].to(device)\n        species_targets = batch['species'].to(device)\n\n        # Forward pass\n        predictions = model(pixel_values)\n\n        # Prepare targets dictionary for loss function\n        targets = {\n            'biomass_targets': biomass_targets,\n            'ndvi': ndvi_targets,\n            'height': height_targets,\n            'state': state_targets,\n            'species': species_targets\n        }\n\n        # Calculate loss\n        loss = compute_loss(predictions, targets, loss_weights)\n        total_loss += loss.item()\n\n        # Backward pass and optimization\n        loss.backward()\n        optimizer.step()\n\n    avg_loss = total_loss / len(dataloader)\n    return avg_loss\n\nprint(\"train_one_epoch function defined.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:39.881381Z","iopub.execute_input":"2026-01-06T16:22:39.881710Z","iopub.status.idle":"2026-01-06T16:22:39.888539Z","shell.execute_reply.started":"2026-01-06T16:22:39.881677Z","shell.execute_reply":"2026-01-06T16:22:39.887612Z"},"id":"a1ea40ec","outputId":"3873ff21-2110-4139-af65-d1be9272bfd2","papermill":{"duration":0.043762,"end_time":"2026-01-02T12:22:38.611608","exception":false,"start_time":"2026-01-02T12:22:38.567846","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"2ba12133","cell_type":"code","source":"def validate(model, dataloader, loss_weights, device):\n    model.eval()  # Set model to evaluation mode\n    total_loss = 0\n\n    with torch.no_grad():  # Disable gradient calculations for validation\n        for batch in tqdm(dataloader, desc=\"Validation\"):\n            # Move data to the appropriate device\n            pixel_values = batch['image'].to(device)\n            biomass_targets = batch['biomass_targets'].to(device)\n            ndvi_targets = batch['ndvi'].to(device)\n            height_targets = batch['height'].to(device)\n            state_targets = batch['state'].to(device)\n            species_targets = batch['species'].to(device)\n\n            # Forward pass\n            predictions = model(pixel_values)\n\n            # Prepare targets dictionary for loss function\n            targets = {\n                'biomass_targets': biomass_targets,\n                'ndvi': ndvi_targets,\n                'height': height_targets,\n                'state': state_targets,\n                'species': species_targets\n            }\n\n            # Calculate loss\n            loss = compute_loss(predictions, targets, loss_weights)\n            total_loss += loss.item()\n\n    avg_loss = total_loss / len(dataloader)\n    return avg_loss\n\nprint(\"validate function defined.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:42.141921Z","iopub.execute_input":"2026-01-06T16:22:42.142714Z","iopub.status.idle":"2026-01-06T16:22:42.151923Z","shell.execute_reply.started":"2026-01-06T16:22:42.142669Z","shell.execute_reply":"2026-01-06T16:22:42.151062Z"},"id":"92e63c6f","outputId":"8acdd0fa-7999-407d-b2dd-a57a32dda5d7","papermill":{"duration":0.043359,"end_time":"2026-01-02T12:22:38.690426","exception":false,"start_time":"2026-01-02T12:22:38.647067","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"2fd0abfc","cell_type":"code","source":"from transformers import AutoImageProcessor\nfrom torchvision import transforms\n\n# Initialize the image processor from the DinoV2 model\nprocessor = AutoImageProcessor.from_pretrained(MODEL_PATH, local_files_only=True)\n\n# Define the training transformation pipeline with augmentations\ntrain_transform = transforms.Compose([\n    transforms.RandomResizedCrop(224, scale=(0.8, 1.0)), # Zoom in 80-100%\n    transforms.RandomHorizontalFlip(p=0.5),\n    transforms.RandomVerticalFlip(p=0.5),\n    transforms.RandomRotation(degrees=30),\n    transforms.ColorJitter(brightness=0.2, contrast=0.2, saturation=0.2, hue=0.02),\n    transforms.ToTensor(), # Convert to PyTorch tensor\n    transforms.Normalize(mean=processor.image_mean, std=processor.image_std) # Normalize with DinoV2's mean and std\n])\n\n# Define the validation transformation pipeline (deterministic)\nval_transform = transforms.Compose([\n    transforms.Resize(224),  # DinoV2 models typically expect 224x224 input\n    transforms.CenterCrop(224), # Center crop to DinoV2 expected input size\n    transforms.ToTensor(), # Convert to PyTorch tensor\n    transforms.Normalize(mean=processor.image_mean, std=processor.image_std) # Normalize with DinoV2's mean and std\n])\n\nprint(\"Image processor and transformation pipelines (train & val) defined.\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:46.530349Z","iopub.execute_input":"2026-01-06T16:22:46.530676Z","iopub.status.idle":"2026-01-06T16:22:46.551117Z","shell.execute_reply.started":"2026-01-06T16:22:46.530633Z","shell.execute_reply":"2026-01-06T16:22:46.550289Z"},"id":"e2b3f589","outputId":"c7c1f986-0479-4bdc-eee1-6dcc7fbf6f99","papermill":{"duration":0.585994,"end_time":"2026-01-02T12:22:39.311968","exception":false,"start_time":"2026-01-02T12:22:38.725974","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"cb3bbd5d","cell_type":"code","source":"from torch.utils.data import DataLoader\nfrom sklearn.model_selection import train_test_split\nimport torch.optim as optim\n\n# Define constants for training\nBATCH_SIZE = 16\nNUM_EPOCHS = 20\nLEARNING_RATE = 1e-3\n\n# Define loss weights as specified in the plan\nLOSS_WEIGHTS = {\n    'biomass': 1.0,\n    'ndvi': 0.2,\n    'height': 0.2,\n    'state': 0.1,\n    'species': 0.1\n}\n\n# Split train_wide_df into training and validation sets\ntrain_df_split, val_df_split = train_test_split(train_wide_df, test_size=0.2, random_state=42)\n\n# Create Dataset instances with appropriate transforms\ntrain_dataset = BiomassDataset(train_df_split, DATA_PATH, train_transform, TARGET_COLS)\nval_dataset = BiomassDataset(val_df_split, DATA_PATH, val_transform, TARGET_COLS)\n\n# Create DataLoader instances\n# Temporarily set num_workers=0 for debugging FileNotFoundError with multiprocessing\ntrain_dataloader = DataLoader(train_dataset, batch_size=BATCH_SIZE, shuffle=True, num_workers=0)\nval_dataloader = DataLoader(val_dataset, batch_size=BATCH_SIZE, shuffle=False, num_workers=0)\n\n# Initialize model, optimizer\nmodel = MultiHeadBiomassModel(model_name=MODEL_PATH, num_biomass_targets=len(TARGET_COLS), num_states=num_states, num_species=num_species).to(device)\noptimizer = optim.AdamW(model.parameters(), lr=LEARNING_RATE)\n\nbest_loss = float('inf')\nfor epoch in range(NUM_EPOCHS):\n    print(f\"Epoch {epoch+1}/{NUM_EPOCHS}\")\n    train_loss = train_one_epoch(model, train_dataloader, optimizer, LOSS_WEIGHTS, device)\n    val_loss = validate(model, val_dataloader, LOSS_WEIGHTS, device)\n\n    print(f\"Train Loss: {train_loss:.4f}, Val Loss: {val_loss:.4f}\")\n\n    # Save the model if validation loss improves\n    if val_loss < best_loss:\n        best_loss = val_loss\n        torch.save(model.state_dict(), 'best_model.pth')\n        print(f\"Saved best model with validation loss: {val_loss:.4f}\")\n\nprint(\"Training complete. Best model saved as 'best_model.pth'\")","metadata":{"execution":{"iopub.status.busy":"2026-01-06T16:22:50.036057Z","iopub.execute_input":"2026-01-06T16:22:50.036345Z"},"id":"18e0eb4e","outputId":"4656e883-e70e-4962-8016-b145b92b01d3","papermill":{"duration":420.672878,"end_time":"2026-01-02T12:29:40.022425","exception":false,"start_time":"2026-01-02T12:22:39.349547","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"bad0082e","cell_type":"code","source":"class TestBiomassDataset(Dataset):\n    def __init__(self, dataframe, image_dir, transforms):\n        self.dataframe = dataframe\n        self.image_dir = image_dir\n        self.transforms = transforms\n    def __len__(self,):\n        return len(self.dataframe.drop_duplicates(subset=['image_path']))\n\n    def __getitem__(self, idx):\n        # Get unique image paths\n        unique_images_df = self.dataframe.drop_duplicates(subset=['image_path']).reset_index(drop=True)\n        row = unique_images_df.iloc[idx]\n        image_path = os.path.join(self.image_dir, row['image_path'])\n\n        # Load image\n        image = Image.open(image_path).convert('RGB')\n        if self.transforms:\n            image = self.transforms(image)\n\n        return {\n            'image': image,\n            'image_path': row['image_path'] # Return image_path for mapping predictions\n        }\n\ndef inference(model, dataloader, device, target_cols):\n    model.eval()  # Set model to evaluation mode\n    predictions_list = []\n\n    with torch.no_grad():  # Disable gradient calculations for inference\n        for batch in tqdm(dataloader, desc=\"Inference\"):\n            pixel_values = batch['image'].to(device)\n            image_paths = batch['image_path']\n\n            # Forward pass\n            outputs = model(pixel_values)\n\n            # Process predictions\n            biomass_preds = outputs['biomass'].cpu().numpy()\n\n            # Store predictions with their corresponding image paths\n            for i, img_path in enumerate(image_paths):\n                for j, target_name in enumerate(target_cols):\n                    predictions_list.append({\n                        'image_path': img_path,\n                        'target_name': target_name,\n                        'predicted_value': biomass_preds[i, j]\n                    })\n    return pd.DataFrame(predictions_list)\n\nprint(\"TestBiomassDataset class and inference function defined.\")\n","metadata":{"id":"fa33e35a","outputId":"b3fe801e-2780-4b33-c719-263823ec38dc","papermill":{"duration":0.05149,"end_time":"2026-01-02T12:29:40.116534","exception":false,"start_time":"2026-01-02T12:29:40.065044","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"b1a8ac52","cell_type":"code","source":"test_unique_images_df = test_df[['image_path', 'sample_id']].drop_duplicates().reset_index(drop=True)\ntest_unique_images_df['image_id'] = test_unique_images_df['sample_id'].apply(lambda x: x.split('__')[0])\ntest_df['image_path_target_name'] = test_df['image_path'] + '__' + test_df['target_name']\n\nprint(f\"Shape of test_unique_images_df: {test_unique_images_df.shape}\")\nprint(\"First 5 rows of test_unique_images_df:\")\nprint(test_unique_images_df.head())\nprint(f\"First 5 rows of test_df with new 'image_path_target_name':\")\nprint(test_df.head())","metadata":{"id":"7b9387c8","outputId":"1091aa88-9a85-4e6c-ae02-e0cb3a36cb58","papermill":{"duration":0.052799,"end_time":"2026-01-02T12:29:40.210787","exception":false,"start_time":"2026-01-02T12:29:40.157988","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null},{"id":"719d70fd","cell_type":"code","source":"import torch.nn as nn\n\n# Load the best trained model\nmodel = MultiHeadBiomassModel(model_name=MODEL_PATH, num_biomass_targets=len(TARGET_COLS), num_states=num_states, num_species=num_species).to(device)\nmodel.load_state_dict(torch.load('best_model.pth'))\nmodel.eval()\n\n# Create TestBiomassDataset and DataLoader\n# Use val_transform for inference as it is deterministic\ntest_dataset = TestBiomassDataset(test_df, DATA_PATH, val_transform)\n# Temporarily set num_workers=0 for debugging FileNotFoundError with multiprocessing\ntest_dataloader = DataLoader(test_dataset, batch_size=BATCH_SIZE, shuffle=False, num_workers=0)\n\n# Run inference\npredictions_df = inference(model, test_dataloader, device, TARGET_COLS)\n\n# Prepare submission file\n# We need to map the predicted_value back to the sample_id from the original test_df\npredictions_df['image_path_target_name'] = predictions_df['image_path'] + '__' + predictions_df['target_name']\nsubmission_df = pd.merge(test_df, predictions_df[['image_path_target_name', 'predicted_value']],\n                         on='image_path_target_name', how='left')\n\nsubmission_df = submission_df[['sample_id', 'predicted_value']].rename(columns={'predicted_value': 'target'})\n\nsubmission_df.to_csv('submission.csv', index=False)\nprint(\"Submission DataFrame created.\")\nprint(submission_df.head())","metadata":{"id":"23ca0dfc","outputId":"406221e9-8f73-4aaa-cc5c-f11d79f6cb2c","papermill":{"duration":0.686194,"end_time":"2026-01-02T12:29:40.940786","exception":false,"start_time":"2026-01-02T12:29:40.254592","status":"completed"},"tags":[],"trusted":true},"outputs":[],"execution_count":null}]}