Repository for building Icesat2 Hackweek 2020 JupyterHub environment (Docker Image) with GitHub Actions CI
Docker images publically available here: https://hub.docker.com/repository/docker/uwhackweeks/icesat2
This repository contains configuration for the standard environment used during the Icesat2 2020 Hackweek. When you log into the Icesat2 JupyterHub you are running a virtual machine with Ubuntu 18.04, a variety of command line tools like vim and git, a conda Python environment with compatibly package versions, and JupyterLab extensions such as ipywidgets and ipyleaflet. By packaging everything up with Docker we help ensure that code written during the hackweek is reproducible and can be run on different physical hardware today and in the future.
If you'd like to run exactly the same environment on your local machine you must have Docker installed on your computer. Running the following command from a terminal will launch JupyterLab in your browser:
docker run -it -v $PWD:/home/jovyan --rm -p 8888:8888 uwhackweeks/icesat2:2020.06.15 jupyter lab --ip 0.0.0.0
Consult the Docker documentation for details on the docker run command. The key thing to note is that we're using the same Docker image used during the hackweek (uwhackweeks/icesat2:2020.06.15). And you map the current directory to your jupyter home folder with -v $PWD:/home/jovyan.
You might be interested in installing just the Python conda environment from the 2020 hackweek. We provide a lock file so that you can install exactly the same packages on Linux:
conda create -n icesat2020 --file=https://raw.githubusercontent.com/ICESAT-2HackWeek/jupyter-image-2020/2020.06.15/conda-linux-64.lock
For Linux, MacOSX, or Windows, if you're not concerned with package versions and simply want to have the same libraries installed on your system you can run:
wget https://raw.githubusercontent.com/ICESAT-2HackWeek/jupyter-image-2020/2020.06.15/environment.yml
conda env create environment.yml
Note that you may have to comment out certain packages from the environment.yml if they are not available for your particular operating system.
Once you have installed the conda environment, you can install JupyterLab extensions with:
conda activate icesat2020
jupyter labextension install --clean @jupyter-widgets/jupyterlab-manager \
@jupyterlab/server-proxy \
@jupyterlab/geojson-extension \
@pyviz/jupyterlab_pyviz \
jupyter-matplotlib \
jupyter-leaflet \
dask-labextension
We also installed a few packages not on conda-forge, which are in a pip requirements.txt
pip install -r https://raw.githubusercontent.com/ICESAT-2HackWeek/jupyter-image-2020/master/requirements.txt
Now you are ready to run jupyter lab to work with various notebooks and projects in the same environment on your local computer 🎉
- Software Carpentry reference for setting up various tools like git and conda: https://uwescience.github.io/2020-05-11-uw-online/#setup