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Dockerfile
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ARG PYTHON_VERSION=python-3.10
ARG BASE_IMAGE=jupyter/scipy-notebook
FROM $BASE_IMAGE:$PYTHON_VERSION
LABEL org.opencontainers.image.source="https://github.com/MaastrichtU-IDS/jupyterlab"
ENV TZ=Europe/Amsterdam \
JUPYTER_ENABLE_LAB=yes \
PYTHONUNBUFFERED=1
# GRANT_SUDO=yes
# CHOWN_HOME=yes \
# CHOWN_HOME_OPTS='-R'
# Install yarn for handling npm packages
RUN npm install --global yarn
# Enable yarn global add:
ENV PATH="$PATH:$HOME/.yarn/bin"
# Install extensions for JupyterLab with conda and pip
# Multi conda kernels: # https://stackoverflow.com/questions/53004311/how-to-add-conda-environment-to-jupyter-lab
RUN mamba install --quiet -y \
openjdk=11 \
maven \
ipython-sql \
jupyterlab-git \
jupyterlab-lsp \
jupyter-lsp-python \
# jupyterlab \
# ipywidgets \
# jupyter_bokeh \
# jupyterlab-drawio \
jupyterlab_rise \
nb_conda_kernels \
'jupyter-server-proxy>=3.1.0'
# mamba install -y -c plotly 'plotly>=4.8.2'
## Install BeakerX kernels? Requires python 3.7
# mamba install -y -c beakerx beakerx_kernel_java beakerx_kernel_scala
RUN pip install --upgrade pip && \
pip install --upgrade \
jupyterlab-spreadsheet-editor \
hatch \
jupyterlab-github \
jupyterlab-system-monitor
# jupyterlab_latex \
# mitosheet3
## Could also be interesting to install:
# jupyterlab_theme_solarized_dark \
# elyra (pipeline builder for Kubeflow and Airflow)
# Change to root user to install things
USER root
RUN apt-get update && \
apt-get install -y tzdata curl wget unzip bzip2 zsh vim htop gfortran \
python3-dev libpq-dev libclang-dev
# Install Java kernel
RUN wget -O /opt/ijava-kernel.zip https://github.com/SpencerPark/IJava/releases/download/v1.3.0/ijava-1.3.0.zip && \
unzip /opt/ijava-kernel.zip -d /opt/ijava-kernel && \
cd /opt/ijava-kernel && \
python install.py --sys-prefix && \
rm /opt/ijava-kernel.zip
# Install VS Code server and extensions
RUN curl -fsSL https://code-server.dev/install.sh | sh
RUN code-server --install-extension redhat.vscode-yaml \
--install-extension ms-python.python \
--install-extension anwar.resourcemonitor \
--install-extension rintoj.json-organizer \
--install-extension zaaack.markdown-editor \
--install-extension garlicbreadcleric.document-preview \
--install-extension bungcip.better-toml \
--install-extension vscjava.vscode-java-pack \
--install-extension ginfuru.ginfuru-better-solarized-dark-theme \
--install-extension oderwat.indent-rainbow \
--install-extension mechatroner.rainbow-csv \
--install-extension GrapeCity.gc-excelviewer \
--install-extension yzhang.markdown-all-in-one \
--install-extension redhat.vscode-xml \
--install-extension ms-mssql.mssql \
# --install-extension ms-azuretools.vscode-docker \
--install-extension eamodio.gitlens
RUN cd /opt && \
export EXT_VERSION=0.1.2 && \
wget https://open-vsx.org/api/vemonet/stardog-rdf-grammars/$EXT_VERSION/file/vemonet.stardog-rdf-grammars-$EXT_VERSION.vsix && \
code-server --install-extension vemonet.stardog-rdf-grammars-$EXT_VERSION.vsix
## Not compatible with web yet: https://github.com/janisdd/vscode-edit-csv/issues/67
# RUN cd /opt && \
# export EXT_VERSION=0.6.4 && \
# wget https://github.com/janisdd/vscode-edit-csv/releases/download/v$EXT_VERSION/vscode-edit-csv-$EXT_VERSION.vsix && \
# code-server --install-extension vscode-edit-csv-$EXT_VERSION.vsix
# Install open source gitpod VSCode? https://github.com/gitpod-io/openvscode-releases/blob/main/Dockerfile
# ENV OPENVSCODE_SERVER_ROOT=/opt/openvscode \
# RELEASE_TAG=openvscode-server-v1.62.3
# ENV LANG=C.UTF-8 \
# LC_ALL=C.UTF-8 \
# EDITOR=code \
# VISUAL=code \
# GIT_EDITOR="code --wait" \
# OPENVSCODE_SERVER_ROOT=${OPENVSCODE_SERVER_ROOT}
# RUN wget https://github.com/gitpod-io/openvscode-server/releases/download/${RELEASE_TAG}/${RELEASE_TAG}-linux-x64.tar.gz && \
# tar -xzf ${RELEASE_TAG}-linux-x64.tar.gz && \
# mv -f ${RELEASE_TAG}-linux-x64 ${OPENVSCODE_SERVER_ROOT} && \
# rm -f ${RELEASE_TAG}-linux-x64.tar.gz
# Install oc, kubectl and Helm
RUN cd /tmp && \
wget https://mirror.openshift.com/pub/openshift-v4/clients/oc/latest/linux/oc.tar.gz && \
tar xvf oc.tar.gz && \
mv oc kubectl /usr/local/bin/ && \
wget https://github.com/kubeflow/kfctl/releases/download/v1.2.0/kfctl_v1.2.0-0-gbc038f9_linux.tar.gz && \
tar -xzf kfctl_v1.2.0-0-gbc038f9_linux.tar.gz && \
mv kfctl /usr/local/bin/ && \
wget https://get.helm.sh/helm-v3.8.2-linux-386.tar.gz && \
tar -xzf helm-*-linux-386.tar.gz && \
mv linux-386/helm /usr/local/bin/
# Add JupyterLab and VSCode settings
COPY icons/*.svg /etc/jupyter/
COPY jupyter_notebook_config.py /etc/jupyter/jupyter_notebook_config.py
RUN fix-permissions $CONDA_DIR && \
fix-permissions /home/$NB_USER && \
fix-permissions /home/$NB_USER/.local && \
fix-permissions /opt && \
fix-permissions /etc/jupyter
# Switch back to the notebook user to finish installation
USER ${NB_UID}
# Add config files for JupyterLab and VSCode
COPY settings.json /home/$NB_USER/.local/share/code-server/User/settings.json
# RUN mkdir -p ~/.jupyter/lab/user-settings/@jupyterlab/terminal-extension
# COPY --chown=$NB_USER:100 plugin.jupyterlab-settings /home/$NB_USER/.jupyter/lab/user-settings/@jupyterlab/terminal-extension/plugin.jupyterlab-settings
# COPY themes.jupyterlab-settings /home/$NB_USER/.jupyter/lab/user-settings/@jupyterlab/apputils-extension/themes.jupyterlab-settings
RUN mkdir -p /home/$NB_USER/work
# Update and compile JupyterLab extensions?
# RUN jupyter labextension update --all && \
# jupyter lab build
# Install Oh My ZSH! and custom theme
RUN sh -c "$(curl -fsSL https://raw.github.com/ohmyzsh/ohmyzsh/master/tools/install.sh)"
RUN curl -fsSL -o ~/.oh-my-zsh/custom/themes/biratime.zsh-theme https://raw.github.com/vemonet/biratime/main/biratime.zsh-theme
RUN sed -i 's/^ZSH_THEME=".*"$/ZSH_THEME="biratime"/g' ~/.zshrc
RUN echo "\`conda config --set changeps1 false\`" >> ~/.oh-my-zsh/plugins/virtualenv/virtualenv.plugin.zsh
RUN echo 'setopt NO_HUP' >> ~/.zshrc
ENV SHELL=/bin/zsh
USER root
RUN chsh -s /bin/zsh
USER ${NB_UID}
# Add some local scripts/shortcuts
ADD bin/* ~/.local/bin/
ENV WORKSPACE="/home/${NB_USER}/work"
WORKDIR ${WORKSPACE}
# Presets for git
RUN git config --global credential.helper "store --file $HOME/.git-credentials" && \
git config --global diff.colorMoved zebra && \
git config --global fetch.prune true && \
git config --global pull.rebase false
ADD README.ipynb $WORKSPACE
CMD [ "start-notebook.sh", "--no-browser", "--ip=0.0.0.0", "--config=/etc/jupyter/jupyter_notebook_config.py" ]
# ENTRYPOINT ["jupyter", "lab", "--allow-root", "--ip=0.0.0.0", "--port=8888", "--no-browser", "--config=/etc/jupyter/jupyter_notebook_config.py"]