cytomine.template

# -------------------------------------------------- #
# Update these to configure your instance
global:
  urls:
    constant:
      CORE: cytomine.local
      IMAGE_SERVER: ims.cytomine.local
      UPLOAD: upload.cytomine.local

  urls_with_scheme:
    constant:
      CORE: http://cytomine.local
      IMAGE_SERVER: http://ims.cytomine.local
      UPLOAD: http://upload.cytomine.local

  host_paths:
      constant:
        PROJECT_DATA_PATH: ./data

  smtp:
    constant:
      HOST: mail.smtp
      PORT: 587
      USER: user
      PASS: password

# -------------------------------------------------- # 
# Only update variables below if you know what you are doing

  versions:
    constant: 
      CYTOMINE_COMMERCIAL: CE2023.1

  images:
    constant:
      BIOFORMAT: cytomine/bioformat:v1.2.0
      CORE: cytomine/core:4.4.0
      MONGO: cytomine/mongo:0.1.0
      NGINX: cytomine/nginx:2.0.0
      PIMS_CACHE: redis:7.0.8
      PIMS: cytomine/pims-ce-package:0.2.0
      POSTGIS: cytomine/postgis:1.3.0
      RABBITMQ: rabbitmq:3.10
      WEB_UI: cytomine/web_ui:2.6.2

  internal_docker_urls: # must match respective container hostnames from compose file
    constant: 
      WEB_UI: web_ui
      CORE: core:8080
      PIMS: pims:5000
      RABBITMQ: rabbitmq
      BIOFORMAT: bioformat
      MONGO: mongo
      NGINX: nginx
      PIMS_CACHE: pims_cache
      POSTGIS: postgis

  container_paths:
    constant:
      IMAGES: /data/images
      UPLOADED: /tmp/uploaded

  javamelody:
    constant:
      DATA_PATH: /javamelody-core # inside container
      USER: admin
    auto:
      PASS:
        type: openssl
        length: 32

  postgres:
    constant:
      PORT: 5432
      DB_NAME: docker
      USER: docker
    auto:
      PASS:
        type: openssl
        length: 32

  mongodb:
    constant:
      USER: mongoadmin
      DB_NAME: cytomine
      PORT: 27017
    auto:
      PASS:
        type: openssl
        length: 32

  keys:
    auto:
      IMAGE_SERVER_PRIVATE: random_uuid
      IMAGE_SERVER_PUBLIC: random_uuid


  image_metadata:
    constant:
      PREFIXES: |-
        APERIO=APERIO.
        TIFF=TIFF.
        HAMAMATSU=HAMAMATSU.
        OPENSLIDE=OPENSLIDE.
        EXIF=EXIF.
        LEICA=LEICA.
        JFIF=JFIF.
        FILE=FILE.
        PNG=PNG.
        XMP=XMP.
        VENTANA=VENTANA.
        DICOM=DICOM.
        MIRAX=MIRAX.
        ICC_PROFILE=ICC_PROFILE.
        OME=OME.

services:
  default:
    core:
      constant:
        METADATA_PREFIXES_FILE_URI: /app/metaPrefix.properties
      auto:
        SERVER_ID: random_uuid
        JWT_SECRET:
          type: secret
          length: 256
          whitelist: abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXYZ0123456789'+.;^_~
        ADMIN_PASSWORD:
          type: openssl
          length: 32
        ADMIN_PRIVATE_KEY: random_uuid
        ADMIN_PUBLIC_KEY: random_uuid
        SUPER_ADMIN_PRIVATE_KEY: random_uuid
        SUPER_ADMIN_PUBLIC_KEY: random_uuid
        RABBITMQ_PRIVATE_KEY: random_uuid
        RABBITMQ_PUBLIC_KEY: random_uuid
      global:
        IMAGE_SERVER_PRIVATE_KEY: keys.IMAGE_SERVER_PRIVATE
        IMAGE_SERVER_PUBLIC_KEY: keys.IMAGE_SERVER_PUBLIC
        POSTGIS_HOST: internal_docker_urls.POSTGIS
        POSTGIS_PORT: postgres.PORT
        POSTGIS_DB_NAME: postgres.DB_NAME
        POSTGIS_USER: postgres.USER
        POSTGIS_PASS: postgres.PASS
        SMTP_HOST: smtp.HOST
        SMTP_PORT: smtp.PORT
        SMTP_USER: smtp.USER
        SMTP_PASS: smtp.PASS
        MONGO_HOST: internal_docker_urls.MONGO
        MONGO_PORT: mongodb.PORT
        MONGO_USER: mongodb.USER
        MONGO_PASS: mongodb.PASS
        MONGO_DB_NAME: mongodb.DB_NAME
        JAVAMELODY_PATH: javamelody.DATA_PATH
        JAVAMELODY_USER: javamelody.USER
        JAVAMELODY_PASS: javamelody.PASS
        SERVER_URL: urls_with_scheme.CORE
        REVERSE_PROXY_URL: internal_docker_urls.NGINX
        IMAGE_SERVER_URL: urls_with_scheme.IMAGE_SERVER
        URL_CORE: urls.CORE
        URL_IMS1: urls.IMAGE_SERVER
        INSTANCE_HOST_WEBSITE_URL: urls_with_scheme.CORE
        STORAGE_PATH: container_paths.IMAGES
        METADATA_PREFIXES: image_metadata.PREFIXES

    mongo:
      global:
        MONGO_INITDB_ROOT_USERNAME: mongodb.USER
        MONGO_INITDB_ROOT_PASSWORD: mongodb.PASS
        MONGO_INIT_DATABASE: mongodb.DB_NAME

    bioformat:
      constant:
        BIOFORMAT_PORT: 4321

    pims:
      constant:
        WEB_CONCURRENCY: 16
        MAX_REQUESTS: 0
        LOG_CONFIG_FILE: /app/logging.yml
        DEFAULT_IMAGE_SIZE_SAFETY_MODE: SAFE_REJECT
        DEFAULT_ANNOTATION_ORIGIN: LEFT_TOP
        OUTPUT_SIZE_LIMIT: 10000
        task_queue_enabled: false
        cache_enabled: true
      global: 
        CYTOMINE_PUBLIC_KEY: keys.IMAGE_SERVER_PUBLIC
        CYTOMINE_PRIVATE_KEY: keys.IMAGE_SERVER_PRIVATE
        ROOT: container_paths.IMAGES
        PENDING_PATH: container_paths.UPLOADED
        PIMS_URL: urls_with_scheme.IMAGE_SERVER
        REVERSE_PROXY_URL: internal_docker_urls.NGINX
        URL_CORE: urls.CORE
        URL_IMAGE_SERVER: urls.IMAGE_SERVER
        URL_UPLOAD: urls.UPLOAD

    web_ui:
      global:
        URL_CORE: urls_with_scheme.CORE
        URL_UPLOAD: urls_with_scheme.UPLOAD
        CYTOMINE_COMMERCIAL_VERSION: versions.CYTOMINE_COMMERCIAL
        METADATA_PREFIXES: image_metadata.PREFIXES

    postgis:
      global:
        POSTGRES_USER: postgres.USER
        POSTGRES_PASSWORD: postgres.PASS
        POSTGRES_DB: postgres.DB_NAME

    nginx:
      global:
        INTERNAL_URLS_WEB_UI: internal_docker_urls.WEB_UI
        INTERNAL_URLS_CORE: internal_docker_urls.CORE
        INTERNAL_URLS_IMS: internal_docker_urls.PIMS
        URLS_CORE: urls.CORE
        URLS_IMAGE_SERVER: urls.IMAGE_SERVER
        URLS_UPLOAD: urls.UPLOAD
        UPLOAD_PATH: container_paths.UPLOADED

    etc_hosts_rewriter:
      constant:
        PROXY_HOSTNAME: nginx
      global:
        URL_CORE: urls.CORE
        URL_IMS1: urls.IMAGE_SERVER
        URL_UPLOAD: urls.UPLOAD