docker-compose.yml

version: "3"

services:
  db:
    image: mariadb:10.11
    ports:
      - "127.0.0.1:23306:3306"
    env_file:
      - studio/config.production/.env
    volumes:
      - db_data:/var/lib/mysql
    environment:
      TZ: Asia/Tokyo
    restart: always

  studio:
    build:
      context: .
      dockerfile: studio/config/docker/Dockerfile
    working_dir: /app
    volumes:
      # optinist data outputs directories
      - ../optinist-docker-volumes/.snakemake/:/app/.snakemake
      - ../optinist-docker-volumes/logs/:/app/logs
      - ../optinist-docker-volumes/studio_data/:/app/studio_data

      # external datasets directories
      - ../experiments_datasets/:/app/experiments_datasets
      - ../experiments_public/:/app/experiments_public
    ports:
      - "127.0.0.1:8000:8000"
    command: >
        bash -c "
          sh init_docker_services.sh &&
          alembic upgrade head &&
          python main.py --host 0.0.0.0 --port 8000
        "
    user: optinist
    environment:
      PYTHONPATH: /app/
      TZ: Asia/Tokyo
      OPTINIST_DIR: /app/studio_data
      POETRY_VIRTUALENVS_CREATE: false
      CONDA_CHANNEL_PRIORITY: strict
    depends_on:
      - db
    restart: always

  expdb_batch:
    build:
      context: .
      dockerfile: studio/config/docker/Dockerfile
    working_dir: /app
    volumes:
      # optinist data outputs directories
      - ../optinist-docker-volumes/.snakemake/:/app/.snakemake
      - ../optinist-docker-volumes/logs/:/app/logs
      - ../optinist-docker-volumes/studio_data/:/app/studio_data

      # external datasets directories
      - ../experiments_datasets/:/app/experiments_datasets
      - ../experiments_public/:/app/experiments_public

    # Note: No ports exposed for batch processing containers.
    # ports:
    #   - "127.0.0.1:8000:8000"
    tty: true
    stdin_open: true

    command: >
        bash -c "
          sh init_docker_services.sh &&
          alembic upgrade head &&
          sh cron/deploy_crontab.sh &&
          /bin/sh
        "
    user: optinist
    environment:
      PYTHONPATH: /app/
      TZ: Asia/Tokyo
      OPTINIST_DIR: /app/studio_data
      POETRY_VIRTUALENVS_CREATE: false
      CONDA_CHANNEL_PRIORITY: strict
    depends_on:
      - db
    restart: always

  db-cron:
    build:
      context: studio/
      dockerfile: config/docker/Dockerfile.db-cron
    env_file:
      - studio/config.production/.env
    volumes:
      - ../optinist-docker-volumes/backups/db/:/root/backups-db
    command: ash -c "rsyslogd && crond -f"
    environment:
      TZ: Asia/Tokyo
    depends_on:
      - db
    restart: always

volumes:
  db_data: