Configuration

Enabling JupyterLab

JupyterLab is the next-generation of Jupyter notebooks and provides a more flexible and powerful user-interface. To enable JupyterLab, go to Advanced configuration while installing, and check the jupyterLab checkbox.

Usage

The Jupyter package provides a pre-configured development environment based around Jupyter notebooks. Using these notebook, you are able to develop using Python, Scala and R.

Below are some tutorials describing how to use Jupyter notebooks for various different things:

Installing custom packages

In some cases the pre-installed libraries are not enough. Jupyter notebooks allow you to run abitary shell commands directly from inside the notebook. In order to run a command, in this case pip install plotly, prefix the command with a exclamation mark, like so: !pip install plotly. Installing plotly

You should then be able to use the library as you normally would. Using plotly

Note: in most cases the method outlined above will work, but if it doesn't see the following link for more details: https://jakevdp.github.io/blog/2017/12/05/installing-python-packages-from-jupyter/

Connecting a Jupyter notebook to Apache Spark

Prerequisites

  1. Knowledge of how to install a package [Link to package install tutorial] is useful, but not needed

Creating the Spark cluster

First, we need to create a Apache Spark cluster. We will do this by installing the spark package, but you can also connect to any publically accessible Spark cluster.

Fill in the Application name and URL as desired. If you need more than one worker, or more resources are required for the workers and master, go to the Advanced configuration section, and change these to your desired values. [Image of spark install form with values filled in]

When the application is running, copy the Spark master URL in the Application notes section. This will later be used to specify which cluster the notebook will attempt to connect to. [Image of the Spark application with emphasis on the master URL]

Creating the notebook

It is now time to install Jupyter. Navigate back to the package library, and go to the Jupyter installation page. Fill in the Application name and URL once again.

Connecting to Apache Spark

Now go to the Advanced configuration section and paste in the Spark master URL you obtained in one of the previous steps. The package is now ready to be installed, so go ahead and press Install.

Jupyter application overview

Click on the link in the URL column in order to access the Jupyter notebook. In order to test the connection to Spark, you first need to create a notebook. Then, you can use the following code sample in order to use Spark:

import pyspark
import random

def inside(p):
    x, y = random.random(), random.random()
    return x*x + y*y < 1

sc = pyspark.SparkContext(appName="Pi")
num_samples = 1000000

count = sc.parallelize(range(0, num_samples)).filter(inside).count()
pi = 4 * count / num_samples
print(pi)

sc.stop()

While running the application, you can vists the Spark cluster dashboard by first navigating to the application overview for the previously created Spark application, and the visiting the URL in the application overview. [Image of the Spark dashboard overview] Here you will be able to see all applications registered with your Spark Cluster, and you are able to access the Spark logs. (This should probably be a tutorial on its own)

How to add new packages

In case you are missing some packages from the default application image, you can add those packages yourself by creating a custom docker image. See this tutorial for generic instructions on how to add packages.

After having read the tutorial above, you can use the dockerfile below as a starting point when creating the dockerfile that adds new packages.

# See the value of dockerImage in
#
#   https://github.com/Uninett/helm-charts/blob/master/repos/stable/jupyter/values.yaml
#
# to determine the latest base image

FROM quay.io/uninett/jupyter-spark:20180823-3aaba68

# Install system packages
USER root
RUN apt update && apt install -y vim

# Install other packages
USER notebook
RUN pip install scikit-learn

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