## Note: This setup is for Linux OS only. However, they can be 
## adapted for a Mac OS by changing the Docker images.
#
#
## To deploy a local COPO instance, follow the steps below:
#
## Step #1 - Create local Docker images
## The .env file contains environment variables. Ensure that both the .env file and the 
## local.copo.compose.linux.yaml file are in the same directory before running the command below.
#
# $ export $(cat .env) > /dev/null 2>&1; docker compose -f local.copo.compose.linux.yaml up -d
#
## Step #2  - Run Django management commands in the terminal 
## to set up the database and create a superuser (for a new deployment with empty DB only)
# $ docker ps
# $ docker exec -it <copo-web-container-id> bash

# $ python manage.py makemigrations
# $ python manage.py makemigrations allauth
# $ python manage.py migrate
# $ python manage.py setup_groups
# $ python manage.py createcachetable
# $ python manage.py setup_sequencing_centres
# $ python manage.py social_accounts

## Step #3 - Initialise MongoDB replica set as 'copo_admin' user.
# $ docker ps
# $ docker exec -it <mongo-container-id> bash
#
# :/# mongosh
# > use admin
# admin> db.auth("copo_admin", "password")
# admin> rs.initiate()
#
## Step #4 - Return to the "copo-web-container" to run 
## the other Django management commands
#
## Exit the <mongo-container> by inputting:
#  CTRL + P then CTRL + Q
#
## Enter the <copo-web-container>
# $ docker ps
# $ docker exec -it <copo-web-container-id> bash

# $ python manage.py setup_schemas
# $ python manage.py setup_associated_profile_types
# $ python manage.py setup_profile_types
# $ python manage.py setup_news
#
# $ python manage.py createsuperuser
#
## Step #5 - Run Celery commands to populate data in the database
## Switch to root user if not already it
# sudo -i

# Execute various celery commands...which relate to reads, single-cell etc.
# celery -A src call src.apps.copo_single_cell_submission.tasks.update_singlecell_schema
# celery -A src call src.apps.copo_core.tasks.update_ena_read_checklist
# celery -A src call src.apps.copo_core.tasks.update_ena_checklist
# celery -A src call src.apps.copo_core.tasks.update_ena_read_platform

version: "3.9"
services:
  web:
    image: local_copo_web:v1.0.0 # Replace with your local image name
    command: >
      bash -c "code-server serve-local --disable-telemetry --auth  none --host 0.0.0.0 --port 8000"
    ports:
      - "8000:8000"
    environment:
      - ENVIRONMENT_TYPE=local
      - ASPERA_PLUGIN_DIRECTORY=aspera_linux_plugin
      - SECRET_KEY=${vault_copo_web_secret_key}
      - MEDIA_PATH=media/
      - DEBUG=true
      - REDIS_HOST=copo_redis
      - REDIS_PORT=6379
      - WEBIN_USER=${vault_copo_webin_user}
      - WEBIN_USER_PASSWORD=${vault_copo_webin_user_password}
      - ENA_SERVICE=https://wwwdev.ebi.ac.uk/ena/submit/drop-box/submit/
      - MONGO_USER=copo_user
      - MONGO_USER_PASSWORD=password
      - MONGO_DB=copo_mongo
      - MONGO_HOST=copo_mongo
      - MONGO_PORT=27017
      - MONGO_MAX_POOL_SIZE=100
      - POSTGRES_DB=copo
      - POSTGRES_USER=copo_user
      - POSTGRES_PORT=5432
      - POSTGRES_SERVICE=copo_postgres
      - POSTGRES_PASSWORD=password
      - ORCID_SECRET=${vault_copo_orcid_secret_key}
      - ORCID_CLIENT=${vault_copo_orcid_client_id}
      - NIH_API_KEY=${vault_copo_nih_api_key}
      - PUBLIC_NAME_SERVICE_API_KEY=${vault_copo_public_name_service_api_key}
      - MAIL_PASSWORD=${vault_copo_mail_password}
      - MAIL_PORT=587
      - MAIL_ADDRESS=data@earlham.ac.uk
      - MAIL_SERVER=outlook.office365.com
      - MAIL_USERNAME=eidata@nbi.ac.uk
      - ALLOWED_HOSTS=
      - PUBLIC_NAME_SERVICE=https://id.tol.sanger.ac.uk/api/v3/
      - ENA_ENDPOINT_REPORT=https://wwwdev.ebi.ac.uk/ena/submit/report/
      - ASPERA_PATH=/root/.aspera/cli
      - BIOIMAGE_PATH=${vault_copo_bioimage_path}
      - BIOIMAGE_SERVER=bs-upload@fasp.ebi.ac.uk
      - BIOIMAGE_PASSWORD=${vault_copo_bioimage_password}
      - ECS_SECRET_KEY=${vault_ecs_secret_key}
      - ECS_ACCESS_KEY_ID=${vault_ecs_access_key}
      - ECS_ENDPOINT=http://minio.copodev.cyverseuk.org
      - ECS_ENDPOINT_EXTERNAL=http://minio.copodev.cyverseuk.org
      - ENA_V2_SERVICE_SYNC=https://wwwdev.ebi.ac.uk/ena/submit/webin-v2/submit
      - ENA_V2_SERVICE_ASYNC=https://wwwdev.ebi.ac.uk/ena/submit/webin-v2/submit/queue
      - ENA_V1_SAMPLE_SERVICE=https://wwwdev.ebi.ac.uk/ena/submit/drop-box/samples
      - B2DROP_PERMITS=/copo/b2drop/permits
      - DJANGO_SUPERUSER_USERNAME=admin
      - DJANGO_SUPERUSER_PASSWORD=admin
      - DJANGO_SUPERUSER_EMAIL=admin@test.com
      - http_protocol=http
      - ZENODOURL=https://zenodo.org/api
      - ZENODOTOKEN=${ZENODOTOKEN}    
    depends_on:
      - copo_redis
      - copo_postgres
      - copo_mongo
    healthcheck:
      test: ["CMD", "curl", "-f", "http://localhost:8000"]
      interval: 1m
      timeout: 10s
      retries: 3
      start_period: 30s  
    volumes:
      # Replace with the absolute path to your local COPO project directory
      - /<path-to-project-directory>/COPO-production:/copo
  
  copo_redis:
    image: redis:6.2.8
  
  copo_postgres:
    image: postgres:15
    ports:
      - "5432:5432"  
    environment:
      - POSTGRES_DB=copo
      - POSTGRES_USER=copo_user
      - POSTGRES_PASSWORD=password
  
  copo_mongo:
    image: copo/copo-mongo-mac:v8.0.1
    command: mongod --replSet rs0 --bind_ip_all --keyFile /data/replica.key
    entrypoint:
       - bash
       - -c
       - |
          openssl rand -base64 756 > /data/replica.key
          chmod 400 /data/replica.key
          chown 999:999 /data/replica.key
          exec docker-entrypoint.sh $$@
    hostname: copo-mongo-server
    ports:
      - "27017:27017"
    environment:
      - MONGO_INITDB_ROOT_USERNAME=copo_admin
      - MONGO_INITDB_ROOT_PASSWORD=password
      - MONGO_USER=copo_user
      - MONGO_USER_PASSWORD=password
      - MONGO_DB=copo_mongo
  
  copo_minio:
    image: quay.io/minio/minio 
    command: server /data --console-address ":9001"
    hostname: minio
    environment:
      MINIO_ROOT_USER: copo@nbi.ac.uk
      MINIO_ROOT_PASSWORD: ${vault_ecs_secret_key}
    ports:
      - "9000:9000"
      - "9001:9001"