LNX-docker-compose.yaml

# docker compose -f LNX-docker-compose.yaml --env-file LNX.env up --exit-code-from app --build
version: '2.2'
x-net: &net
  networks:
    - main
services:
  db:
    <<: *net
    image: datajoint/mysql:${MYSQL_TAG}
    environment:
      - MYSQL_ROOT_PASSWORD=simple
  minio:
    <<: *net
    environment:
      - MINIO_ACCESS_KEY=datajoint
      - MINIO_SECRET_KEY=datajoint
    image: minio/minio:$MINIO_VER
    # ports:
    #   - "9000:9000"
    # To persist MinIO data and config
    # volumes:
    #   - ./minio/data:/data
    #   - ./minio/config:/root/.minio
    command: server /data
    healthcheck:
      test: ["CMD", "curl", "--fail", "http://minio:9000/minio/health/live"]
      timeout: 5s
      retries: 60
      interval: 1s
  fakeservices.datajoint.io:
    <<: *net
    image: datajoint/nginx:v0.2.4
    environment:
    - ADD_db_TYPE=DATABASE
    - ADD_db_ENDPOINT=db:3306
    - ADD_minio_TYPE=MINIO
    - ADD_minio_ENDPOINT=minio:9000
    - ADD_minio_PORT=80 # allow unencrypted connections
    - ADD_minio_PREFIX=/datajoint
    - ADD_browser_TYPE=MINIOADMIN
    - ADD_browser_ENDPOINT=minio:9000
    - ADD_browser_PORT=80 # allow unencrypted connections
    depends_on:
      db:
        condition: service_healthy
      minio:
        condition: service_healthy
  app:
    <<: *net
    environment:
    - MATLAB_LICENSE
    - MATLAB_USER
    - DJ_HOST=fakeservices.datajoint.io
    - DJ_USER=root
    - DJ_PASS=simple
    - DJ_TEST_HOST=fakeservices.datajoint.io
    - DJ_TEST_USER=datajoint
    - DJ_TEST_PASSWORD=datajoint
    - S3_ENDPOINT=fakeservices.datajoint.io
    - S3_ACCESS_KEY=datajoint
    - S3_SECRET_KEY=datajoint
    - S3_BUCKET=datajoint.test
    image: raphaelguzman/matlab:${MATLAB_VERSION}-MIN
    depends_on:
      fakeservices.datajoint.io:
        condition: service_healthy
    user: ${MATLAB_UID}:${MATLAB_GID}
    working_dir: /tmp
    command:
      - /bin/bash
      - -c
      - |
        set -e
        export ORIG_DIR=$$(pwd)
        mkdir ~/Documents
        cd /src
        # package into toolbox, and install
        matlab -nodisplay -r "
          try\
            websave([tempdir 'GHToolbox.mltbx'],\
                    ['https://github.com/datajoint/GHToolbox' \
                     '/releases/download/' subsref(webread(['https://api.github.com/repos' \
                                                            '/datajoint/GHToolbox' \
                                                            '/releases/latest']),\
                                                   substruct('.', 'tag_name')) \
                     '/GHToolbox.mltbx']);\
            matlab.addons.toolbox.installToolbox([tempdir 'GHToolbox.mltbx']);\
            fid = fopen('README.md', 'r');\
            docs = fread(fid, '*char')';\
            fclose(fid);\
            ghtb.package('DataJoint',\
                        'Raphael Guzman',\
                        'raphael.h.guzman@gmail.com',\
                        ['Scientific workflow management framework built on top of a ' \
                         'relational database.'],\
                        docs,\
                        {'.vscode', '.git*', '*.env', '*.yaml', 'tests', 'mym', 'docs-parts',\
                         '*.txt', '*.prf', '*.md', 'notebook'},\
                        @() strjoin(arrayfun(@(x) num2str(x),\
                                             cell2mat(struct2cell(dj.version)),\
                                             'uni', false),\
                                     '.'),\
                        {'+dj', 'erd.m'});\
            matlab.addons.toolbox.installToolbox('DataJoint.mltbx');\
            cd(getenv('ORIG_DIR'));\
            addpath('tests');\
            dir(fileparts(which('erd')));\
            res=run(Main);\
            disp(res);\
            if all([res.Passed])  exit, else exit(1), end;\
            ,\
          catch ME,\
            disp(getReport(ME, 'extended'));\
            exit(1);\
            ,\
          end;\
        "
    mac_address: $MATLAB_HOSTID
    volumes:
      - ./tests:/tmp/tests
      - .:/src
networks:
  main: