cell-state-engineering/docker-compose.yml at main · arnavbathla/cell-state-engineering · GitHub

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version: "3.9"

services:
  postgres:
    image: pgvector/pgvector:pg16
    restart: unless-stopped
    environment:
      POSTGRES_DB: cell_state_compiler
      POSTGRES_USER: cellcompiler
      POSTGRES_PASSWORD: cellcompiler
    volumes:
      - pgdata:/var/lib/postgresql/data
    ports:
      - "5432:5432"
    healthcheck:
      test: ["CMD-SHELL", "pg_isready -U cellcompiler -d cell_state_compiler"]
      interval: 5s
      timeout: 5s
      retries: 10

  redis:
    image: redis:7-alpine
    restart: unless-stopped
    volumes:
      - redis-data:/data
    ports:
      - "6379:6379"
    healthcheck:
      test: ["CMD", "redis-cli", "ping"]
      interval: 5s
      timeout: 5s
      retries: 10

  api:
    build:
      context: ./apps/api
      dockerfile: Dockerfile
    restart: unless-stopped
    env_file: .env
    environment:
      DATABASE_URL: postgresql+psycopg2://cellcompiler:cellcompiler@postgres:5432/cell_state_compiler
      REDIS_URL: redis://redis:6379/0
      GENOME_MODEL_SERVICE_URL: http://genome-model-service:8100
    ports:
      - "8000:8000"
    volumes:
      - ./data/uploads:/app/uploads
      - ./data/demo_sequences:/app/data/demo_sequences:ro
      - ./scripts:/scripts:ro
    depends_on:
      postgres:
        condition: service_healthy
      redis:
        condition: service_healthy
    healthcheck:
      test: ["CMD", "curl", "-f", "http://localhost:8000/health"]
      interval: 10s
      timeout: 5s
      retries: 15
    command: >
      sh -c "alembic upgrade head && uvicorn app.main:app --host 0.0.0.0 --port 8000 --workers 2"

  worker:
    build:
      context: ./apps
      dockerfile: worker/Dockerfile
    restart: unless-stopped
    env_file: .env
    environment:
      DATABASE_URL: postgresql+psycopg2://cellcompiler:cellcompiler@postgres:5432/cell_state_compiler
      REDIS_URL: redis://redis:6379/0
      GENOME_MODEL_SERVICE_URL: http://genome-model-service:8100
    volumes:
      - ./data/uploads:/app/uploads
      - ./data/demo_sequences:/app/data/demo_sequences:ro
    depends_on:
      postgres:
        condition: service_healthy
      redis:
        condition: service_healthy
    command: python worker.py

  genome-model-service:
    build:
      context: ./apps/genome-model-service
      dockerfile: Dockerfile
    restart: unless-stopped
    env_file: .env
    environment:
      EVO2_PROVIDER: local
      EVO2_MODEL_NAME: evo2_1b_base
      EVO2_DEVICE: cpu
    ports:
      - "8100:8100"
    volumes:
      - evo2-model-cache:/root/.cache/evo2
      - hf-model-cache:/root/.cache/huggingface
    healthcheck:
      test: ["CMD", "curl", "-f", "http://localhost:8100/health"]
      interval: 20s
      timeout: 15s
      retries: 10

  web:
    build:
      context: ./apps/web
      dockerfile: Dockerfile
    restart: unless-stopped
    environment:
      NEXT_PUBLIC_API_BASE_URL: http://localhost:8000/api/v1
    ports:
      - "3000:3000"
    depends_on:
      - api

volumes:
  pgdata:
  redis-data:
  evo2-model-cache:
  hf-model-cache: