Spaces:
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The issue: Missing launch() call or wrong server setup for Gradio.
Browse filesI see the issue! The app initializes perfectly (twice even!), but then exits with code 0 instead of staying running. The problem is that Hugging Face Spaces expects the app to keep running, but it's completing and exiting.
The issue: Missing launch() call or wrong server setup for Gradio.
Key Fix: Removed the if __name__ == "__main__" block that was causing the script to exit. Hugging Face Spaces will automatically run the mounted Gradio app.
app.py
CHANGED
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@@ -8,7 +8,7 @@ import chromadb
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from sentence_transformers import SentenceTransformer
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import gradio as gr
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# Database
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DB_PATH = "./medqa_db"
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ZIP_PATH = "./medqa_db.zip"
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@@ -19,88 +19,34 @@ if not os.path.exists(DB_PATH) and os.path.exists(ZIP_PATH):
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zip_ref.extractall(".")
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print("Database extracted successfully!")
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#
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print(f"Loading database from: {DB_PATH}")
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client = chromadb.PersistentClient(path=DB_PATH)
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collection = client.get_collection("medqa")
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print(f"Collection loaded with {collection.count()} items")
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print(
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model = SentenceTransformer('ncbi/MedCPT-Query-Encoder')
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print("Initialization complete!")
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#
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def
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"""Simple web interface for testing"""
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if not query.strip():
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return "Please enter a
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try:
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embedding = model.encode(query).tolist()
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results = collection.query(
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query_embeddings=[embedding],
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n_results=int(num_results)
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)
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if not results['documents'][0]:
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return "No results found."
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output = ""
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for i in range(len(results['documents'][0])):
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output += f"\n{'='*60}\n"
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output += f"Example {i+1}\n"
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output += f"{'='*60}\n"
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output += results['documents'][0][i] + "\n"
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output += f"\nAnswer: {results['metadatas'][0][i].get('answer', 'N/A')}\n"
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output += f"Similarity: {1 - results['distances'][0][i]:.3f}\n"
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return output
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except Exception as e:
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return f"Error: {str(e)}"
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#
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with gr.Blocks(title="MedQA Search") as demo:
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gr.Markdown("# MedQA Search - USMLE Question Database")
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gr.Markdown("Search for similar USMLE Step 1 questions using semantic similarity")
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with gr.Row():
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with gr.Column():
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query_input = gr.Textbox(
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label="Medical Topic or Clinical Scenario",
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placeholder="e.g., hyponatremia",
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lines=2
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)
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num_results_slider = gr.Slider(
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minimum=1,
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maximum=5,
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value=3,
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step=1,
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label="Number of Examples"
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)
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search_btn = gr.Button("Search", variant="primary")
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with gr.Column():
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output_text = gr.Textbox(
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label="Similar USMLE Questions",
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lines=25,
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max_lines=50
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)
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search_btn.click(
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fn=search_interface,
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inputs=[query_input, num_results_slider],
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outputs=output_text
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)
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gr.Examples(
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examples=[
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["hyponatremia", 3],
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["myocardial infarction", 2],
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["diabetic ketoacidosis", 3]
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],
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inputs=[query_input, num_results_slider]
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)
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# FastAPI for API endpoints
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app = FastAPI(title="MedQA Search API")
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app.add_middleware(
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@@ -121,20 +67,16 @@ class SearchResponse(BaseModel):
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@app.get("/")
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async def root():
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return {
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"message": "MedQA Search API
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"status": "running",
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"collection_count": collection.count()
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}
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@app.post("/search_medqa", response_model=SearchResponse)
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async def search_medqa(request: SearchRequest):
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"""Search MedQA database for similar USMLE questions"""
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try:
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embedding = model.encode(request.query).tolist()
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results = collection.query(
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query_embeddings=[embedding],
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n_results=request.num_results
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)
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formatted_results = []
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for i in range(len(results['documents'][0])):
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@@ -142,16 +84,24 @@ async def search_medqa(request: SearchRequest):
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"example_number": i + 1,
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"question": results['documents'][0][i],
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"answer": results['metadatas'][0][i].get('answer', 'N/A'),
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"distance": results['distances'][0][i]
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})
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return SearchResponse(results=formatted_results)
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except Exception as e:
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raise HTTPException(status_code=500, detail=str(e))
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# Mount Gradio
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app = gr.mount_gradio_app(app, demo, path="/")
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from sentence_transformers import SentenceTransformer
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import gradio as gr
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# Database setup
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DB_PATH = "./medqa_db"
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ZIP_PATH = "./medqa_db.zip"
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zip_ref.extractall(".")
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print("Database extracted successfully!")
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# Load database and model
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print(f"Loading database from: {DB_PATH}")
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client = chromadb.PersistentClient(path=DB_PATH)
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collection = client.get_collection("medqa")
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print(f"Collection loaded with {collection.count()} items")
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print("Loading MedCPT model...")
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model = SentenceTransformer('ncbi/MedCPT-Query-Encoder')
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print("Initialization complete!")
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# Search function for Gradio
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def search_gradio(query, num_results=3):
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if not query.strip():
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return "Please enter a query."
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try:
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embedding = model.encode(query).tolist()
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results = collection.query(query_embeddings=[embedding], n_results=int(num_results))
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output = ""
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for i in range(len(results['documents'][0])):
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output += f"\n{'='*60}\nExample {i+1}\n{'='*60}\n"
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output += results['documents'][0][i] + "\n"
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output += f"\nAnswer: {results['metadatas'][0][i].get('answer', 'N/A')}\n"
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output += f"Similarity: {1 - results['distances'][0][i]:.3f}\n"
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return output
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except Exception as e:
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return f"Error: {str(e)}"
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# FastAPI app
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app = FastAPI(title="MedQA Search API")
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app.add_middleware(
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@app.get("/")
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async def root():
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return {
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"message": "MedQA Search API",
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"status": "running",
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"collection_count": collection.count()
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}
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@app.post("/search_medqa", response_model=SearchResponse)
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async def search_medqa(request: SearchRequest):
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try:
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embedding = model.encode(request.query).tolist()
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results = collection.query(query_embeddings=[embedding], n_results=request.num_results)
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formatted_results = []
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for i in range(len(results['documents'][0])):
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"example_number": i + 1,
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"question": results['documents'][0][i],
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"answer": results['metadatas'][0][i].get('answer', 'N/A'),
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"distance": results['distances'][0][i]
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})
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return SearchResponse(results=formatted_results)
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except Exception as e:
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raise HTTPException(status_code=500, detail=str(e))
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# Gradio interface
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demo = gr.Interface(
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fn=search_gradio,
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inputs=[
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gr.Textbox(label="Medical Query", placeholder="e.g., hyponatremia", lines=2),
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gr.Slider(1, 5, value=3, step=1, label="Number of Results")
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],
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outputs=gr.Textbox(label="Similar USMLE Questions", lines=20),
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title="MedQA Search - USMLE Question Database",
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description="Search for similar USMLE Step 1 questions using semantic similarity",
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examples=[["hyponatremia", 3], ["myocardial infarction", 2]]
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)
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# Mount Gradio to FastAPI
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app = gr.mount_gradio_app(app, demo, path="/")
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