app.py

import gradio as gr
import torch
import numpy as np
from transformers import AutoModelForCausalLM, AutoTokenizer
from janus.models import VLChatProcessor
from PIL import Image
import spaces

# Suppress specific warnings
import warnings
warnings.filterwarnings("ignore", category=FutureWarning)

# Medical Imaging Analysis Configuration
MEDICAL_CONFIG = {
    "echo_guidelines": "ASE 2023 Standards",
    "histo_guidelines": "CAP Protocols 2024",
    "cardiac_params": ["LVEF", "E/A Ratio", "Wall Motion"],
    "histo_params": ["Nuclear Atypia", "Mitotic Count", "Stromal Invasion"]
}

# Initialize Medical Imaging Model
model_path = "deepseek-ai/Janus-Pro-1B"

class MedicalImagingAdapter(torch.nn.Module):
    def __init__(self, base_model):
        super().__init__()
        self.base_model = base_model
        # Cardiac-specific projections
        self.cardiac_proj = torch.nn.Linear(2048, 2048)
        # Histopathology-specific projections
        self.histo_proj = torch.nn.Linear(2048, 2048)
        
    def forward(self, *args, **kwargs):
        outputs = self.base_model(*args, **kwargs)
        return outputs

vl_gpt = AutoModelForCausalLM.from_pretrained(model_path, trust_remote_code=True)
vl_gpt.language_model = MedicalImagingAdapter(vl_gpt.language_model)

if torch.cuda.is_available():
    vl_gpt = vl_gpt.to(torch.bfloat16).cuda()

vl_chat_processor = VLChatProcessor.from_pretrained(model_path)

# **Fix: Set legacy=False in tokenizer to use the new behavior**
vl_chat_processor.tokenizer = AutoTokenizer.from_pretrained(model_path, legacy=False)

# Medical Image Processing Pipelines
def preprocess_echo(image):
    """Process echocardiography images"""
    img = Image.fromarray(image).convert('L')  # Grayscale
    return np.array(img.resize((512, 512)))

def preprocess_histo(image):
    """Process histopathology slides"""
    img = Image.fromarray(image)
    return np.array(img.resize((1024, 1024)))

@torch.inference_mode()
@spaces.GPU(duration=120)
def analyze_medical_case(image, clinical_context, modality):
    # Preprocess based on modality
    processed_img = preprocess_echo(image) if modality == "Echo" else preprocess_histo(image)
    
    # Create modality-specific prompt
    system_prompt = f"""
    Analyze this {modality} image following {MEDICAL_CONFIG['echo_guidelines' if modality=='Echo' else 'histo_guidelines']}.
    Clinical Context: {clinical_context}
    """
    
    conversation = [{
        "role": "<|Radiologist|>" if modality == "Echo" else "<|Pathologist|>",
        "content": system_prompt,
        "images": [processed_img],
    }, {"role": "<|AI_Assistant|>", "content": ""}]

    inputs = vl_chat_processor(
        conversations=conversation,
        images=[Image.fromarray(processed_img)],
        force_batchify=True
    ).to(vl_gpt.device)

    outputs = vl_gpt.generate(
        inputs_embeds=vl_gpt.prepare_inputs_embeds(**inputs),
        attention_mask=inputs.attention_mask,
        max_new_tokens=512,
        temperature=0.1,
        top_p=0.9,
        repetition_penalty=1.5
    )
    
    report = vl_chat_processor.tokenizer.decode(outputs[0].cpu().tolist(), skip_special_tokens=True)
    return format_medical_report(report, modality)

def format_medical_report(text, modality):
    # Structure report based on modality
    sections = {
        "Echo": [
            ("Chamber Dimensions", "LVEDD", "LVESD"),
            ("Valvular Function", "Aortic Valve", "Mitral Valve"),
            ("Hemodynamics", "E/A Ratio", "LVEF")
        ],
        "Histo": [
            ("Architecture", "Gland Formation", "Stromal Pattern"),
            ("Cellular Features", "Nuclear Atypia", "Mitotic Count"),
            ("Diagnostic Impression", "Tumor Grade", "Margin Status")
        ]
    }
    
    formatted = f"**{modality} Analysis Report**\n\n"
    for section in sections[modality]:
        header = section[0]
        formatted += f"### {header}\n"
        for sub in section[1:]:
            if sub in text:
                start = text.find(sub)
                end = text.find("\n\n", start)
                formatted += f"- **{sub}:** {text[start+len(sub)+1:end].strip()}\n"
    return formatted

# Medical Imaging Interface
with gr.Blocks(title="Cardiac & Histopathology AI", theme=gr.themes.Soft()) as demo:
    gr.Markdown("""
    ## Medical Imaging Analysis Platform
    *Analyzes echocardiograms and histopathology slides - Research Use Only*
    """)
    
    with gr.Row():
        with gr.Column():
            image_input = gr.Image(label="Upload Medical Image")
            modality_select = gr.Radio(
                ["Echo", "Histo"], 
                label="Image Modality",
                info="Select 'Echo' for cardiac ultrasound, 'Histo' for biopsy slides"
            )
            clinical_input = gr.Textbox(
                label="Clinical Context",
                placeholder="e.g., 'Assess LV function' or 'Evaluate for malignancy'"
            )
            analyze_btn = gr.Button("Analyze Case", variant="primary")
        
        with gr.Column():
            report_output = gr.Markdown(label="AI Clinical Report")
    
    # Preloaded examples
    gr.Examples(
        examples=[
            ["Evaluate LV systolic function", "case1.png", "Echo"],
            ["Assess mitral valve function", "case2.jpg", "Echo"],
            ["Analyze for malignant features", "case3.png", "Histo"],
            ["Evaluate tumor margins", "case4.png", "Histo"]
        ],
        inputs=[clinical_input, image_input, modality_select],
        label="Example Medical Cases"
    )

    # **Fixed: Removed @demo.func and used .click() correctly**
    analyze_btn.click(
        analyze_medical_case,
        [image_input, clinical_input, modality_select],
        report_output
    )

demo.launch(share=True)