Dokku Jupyterhub

The goal of this project is to run a dockerized jupyterhub instance on a dokku server.

Dokku will create and handle the docker network for the communication between jupyterhub and the jupyter notebooks (spawned as separate docker containers). Dokku performs a Dockerfile-deploy.

The spawned notebook image is based on a Docker image build from the images/Dockerfile after each deploy.

Data-Persistence is achieved by bind mounting directories from the dokku host to the notebook containers. See jupyterhub_config.py for all settings.

Dokku requirements

The following plugins are required and must be installed on your dokku host:

• post-deploy-script @lebalz
• postgres
• letsencrypt

Create jupyterhub

Expecting dokku service name is set via 'APP', e.g. APP="jupyterhub"

APP="jupyterhub"
DOMAIN="your.domain.com"
# create app
############

dokku apps:create $APP
# ensure docker networks can be used
dokku config:set $APP DOCKER_SCHEDULER=docker-local

# configure port map for accessing hub
dokku config:set $APP DOKKU_PROXY_PORT_MAP="http:80:8000"

# mount docker socket to spawn new containers
dokku storage:mount $APP /var/run/docker.sock:/var/run/docker.sock

# add a domain to it
dokku domains:add $APP $DOMAIN

# create network
dokku network:create $APP
dokku network:set $APP bind-all-interfaces true

# attach the network to the app
dokku network:set $APP attach-post-create $APP

# configure env variables for the network
dokku config:set $APP DOCKER_NETWORK_NAME=$APP
dokku config:set $APP HUB_IP=$APP.web

# create postgres service
dokku postgres:create $APP
dokku postgres:link $APP $APP
## The URI should start with postgresql:// instead of postgres://. SQLAlchemy used to accept both, but has removed support for the postgres name.
DB_URL=$(dokku config:get $APP DATABASE_URL)
dokku config:set --no-restart $APP DATABASE_URL="${DB_URL//postgres:\/\//postgresql:\/\/}"

# configure post deploy script
dokku config:set --no-restart $APP DOKKU_POST_DEPLOY_SCRIPT_DEPENDENCIES="images/Dockerfile;images/playsound_extension.py;images/gtts_extension.py;images/overrides.json"

# STOARGE AND DATA PERSISTENCE
##############################

mkdir -p /var/lib/dokku/data/storage/$APP/data
dokku storage:mount $APP /var/lib/dokku/data/storage/$APP/data:/data

## create shared directories
mkdir -p /var/lib/dokku/data/storage/$APP/data/shared
mkdir -p /var/lib/dokku/data/storage/$APP/data/colab

## grant user jovian:users access to shared mounted volumes
chown -R 1000:100 /var/lib/dokku/data/storage/$APP/data/shared
chown -R 1000:100 /var/lib/dokku/data/storage/$APP/data/colab

# increase max body upload size
dokku nginx:set $APP client-max-body-size 30m


# AUTHENTICATORS - OAUTH
########################
### edit your credentials: `nano /home/dokku/$APP/ENV`

## github oauth config
# dokku config:set $APP OAUTH_CALLBACK_URL="https://$DOMAIN/hub/oauth_callback"
# dokku config:set $APP GITHUB_CLIENT_ID="XXXXXXXXXXXXXX"
# dokku config:set $APP GITHUB_CLIENT_SECRET="XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX"

## azure active directory
dokku config:set $APP AAD_TENANT_ID="xxxxxx-xxxxxx-xxxxxxx"
dokku config:set $APP AAD_OAUTH_CALLBACK_URL="https://$DOMAIN/hub/oauth_callback"
dokku config:set $APP AAD_CLIENT_ID="xxxxxx-xxxxxx-xxxxxxx"
dokku config:set $APP AAD_CLIENT_SECRET="xxxxxx-xxxxxx-xxxxxxx"

Images

Make sure all used images are available on the system. Either pull them yourself or setup your own image (e.g. with a postdeploy script).

Pull yourself

1. rename the POST_DEPLOY_SCRIPT, otherwise it will try to build the image... (mv POST_DEPLOY_SCRIPT _POST_DEPLOY_SCRIPT)
2. pull an image and configure your jupyterhub to use it:

docker pull jupyter/scipy-notebook:latest

# and set the network as default
dokku config:set $APP DOCKER_JUPYTER_IMAGE="jupyter/scipy-notebook:latest"

Setup postdeploy script

(ensure you have the post-deploy-script plugin installed on your dokku host)

1. Add a POST_DEPLOY_SCRIPT to the root (already done here).
2. Configure a DOCKER_JUPYTER_IMAGE on your host (e.g. dokku config:set $APP DOCKER_JUPYTER_IMAGE="jupyter/lebalz:latest")
3. Setup your [images/Dockerfile]
4. Make sure that all your Dependencies to build your image are configured proberly on your dokku host under DOKKU_POST_DEPLOY_SCRIPT_DEPENDENCIES:

dokku config:set --no-restart $APP DOKKU_POST_DEPLOY_SCRIPT_DEPENDENCIES="images/Dockerfile;images/playsound_extension.py;images/gtts_extension.py;images/overrides.json"

initial local setup

git remote add dokku dokku@<your-ip>:jupyterhub

Letsencrypt

Make sure:

• you have set a domain and your page is reachable
• no pagerules with permanent redirects e.g. from Cloudflare exists

MAIL="[email protected]"
dokku config:set --no-restart $APP DOKKU_LETSENCRYPT_EMAIL=$MAIL
dokku letsencrypt $APP

Jupyterlab Settings

Jupyterlab Docs

--> edit the overrides.json.