OmicPath/docker-compose.yml at main · moebouassida/OmicPath · GitHub

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# ── OmicPath Docker Compose ───────────────────────────────────────────────────
# Services:
#   api     - OmicPath FastAPI inference server (LLM via Groq API)

version: "3.9"

services:

  api:
    build:
      context: .
      dockerfile: Dockerfile
      target: runtime
    image: omicpath:latest
    container_name: omicpath-api
    ports:
      - "8000:8000"
    volumes:
      - ./checkpoints:/app/checkpoints:ro      # model weights (read-only)
      - ./config:/app/config:ro                # config (read-only)
      - ./data/rna/processed:/app/data/rna/processed:ro
      - ./logs:/app/logs                       # audit logs (writable)
      - ./results:/app/results                 # evaluation results
    environment:
      - CONFIG_PATH=config/config.yaml
      - CKPT_PATH=checkpoints/best_fold2.pt
      - CALIB_PATH=checkpoints/calibration_ensemble.json
      - LLM_BACKEND=openrouter
      - LLM_MODEL=anthropic/claude-sonnet-4-5
      - MAX_PATCHES=2048
      - OPENROUTER_API_KEY=${OPENROUTER_API_KEY:?OPENROUTER_API_KEY is required}
    restart: unless-stopped
    healthcheck:
      test: ["CMD", "python", "-c",
             "import requests; requests.get('http://localhost:8000/health').raise_for_status()"]
      interval: 30s
      timeout: 10s
      retries: 3
      start_period: 60s

  # Optional: Prometheus monitoring
  prometheus:
    image: prom/prometheus:latest
    container_name: omicpath-prometheus
    ports:
      - "9090:9090"
    volumes:
      - ./prometheus.yml:/etc/prometheus/prometheus.yml:ro
    restart: unless-stopped
    profiles: ["monitoring"]   # only starts with: docker compose --profile monitoring up

  # Optional: Grafana dashboard
  grafana:
    image: grafana/grafana:latest
    container_name: omicpath-grafana
    ports:
      - "3000:3000"
    environment:
      - GF_SECURITY_ADMIN_PASSWORD=omicpath
    volumes:
      - grafana_data:/var/lib/grafana
    restart: unless-stopped
    profiles: ["monitoring"]

volumes:
  grafana_data: