docker-compose.yaml

# HOST_UID=$(id -u) PY_VER=3.11 DJ_VERSION=$(grep -oP '\d+\.\d+\.\d+' datajoint/version.py) docker compose --profile test up --build --exit-code-from djtest djtest
services:
  db:
    image: datajoint/mysql:${MYSQL_VER:-8.0}
    environment:
      - MYSQL_ROOT_PASSWORD=${DJ_PASS:-password}
    command: mysqld --default-authentication-plugin=mysql_native_password
    # ports:
    #   - "3306:3306"
    # volumes:
    #   - ./mysql/data:/var/lib/mysql
    healthcheck:
      test: [ "CMD", "mysqladmin", "ping", "-h", "localhost" ]
      timeout: 30s
      retries: 5
      interval: 15s
  minio:
    image: minio/minio:${MINIO_VER:-RELEASE.2025-02-28T09-55-16Z}
    environment:
      - MINIO_ACCESS_KEY=datajoint
      - MINIO_SECRET_KEY=datajoint
    # ports:
    #   - "9000:9000"
    # volumes:
    #   - ./minio/config:/root/.minio
    #   - ./minio/data:/data
    command: server --address ":9000" /data
    healthcheck:
      test:
        - "CMD"
        - "curl"
        - "--fail"
        - "http://minio:9000/minio/health/live"
      timeout: 30s
      retries: 5
      interval: 15s
  app:
    image: datajoint/datajoint:${DJ_VERSION:-latest}
    build:
      context: .
      dockerfile: Dockerfile
      args:
        PY_VER: ${PY_VER:-3.8}
        HOST_UID: ${HOST_UID:-1000}
    depends_on:
      db:
        condition: service_healthy
      minio:
        condition: service_healthy
    environment:
      - DJ_HOST=db
      - DJ_USER=root
      - DJ_PASS=password
      - DJ_TEST_HOST=db
      - DJ_TEST_USER=datajoint
      - DJ_TEST_PASSWORD=datajoint
      - S3_ENDPOINT=minio:9000
      - S3_ACCESS_KEY=datajoint
      - S3_SECRET_KEY=datajoint
      - S3_BUCKET=datajoint.test
      - PYTHON_USER=dja
      - JUPYTER_PASSWORD=datajoint
    working_dir: /src
    user: ${HOST_UID:-1000}:mambauser
    volumes:
      - .:/src
  djtest:
    extends:
      service: app
    profiles: ["test"]
    command:
      - sh
      - -c
      - |
        set -e
        pip install -q -e ".[test]"
        pip freeze | grep datajoint
        pytest --cov-report term-missing --cov=datajoint tests