skience2023/Dockerfile.skience203 at main · zomungGITHUB/skience2023 · GitHub

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FROM jupyter/minimal-notebook:python-3.10
#ARG JUPYTERHUB_VERSION=2.3.1

MAINTAINER Iris Christadler <christadler@geophysik.uni-muenchen.de

RUN python3 -m pip install jupyter notebook nbclassic

# add conda-forge channel and move it to top of channel list
RUN conda install -c conda-forge --yes 'python=3.10'
RUN conda install -c conda-forge --yes cartopy
RUN conda install -c conda-forge --yes folium
RUN conda install -c conda-forge --yes ipython
#RUN conda install -c conda-forge --yes jupyter
RUN conda install -c conda-forge --yes 'msnoise=1.6'
RUN conda install -c conda-forge --yes 'sqlalchemy<2.0'
RUN conda install -c conda-forge --yes 'obspy=1.4'
RUN conda install -c conda-forge --yes pandas
RUN conda install -c conda-forge --yes pdbpp
RUN conda install -c conda-forge --yes pycwt
RUN conda install -c conda-forge --yes pytest
RUN conda install -c conda-forge --yes pytest-json-report
RUN conda install -c conda-forge --yes statsmodels
RUN conda install -c conda-forge --yes tqdm
RUN conda install -c conda-forge --yes netcdf4
RUN conda install -c conda-forge --yes cmasher
RUN conda install -c conda-forge --yes xarray
RUN conda install -c conda-forge --yes pytables
RUN conda install -c conda-forge --yes llvmlite
RUN conda install -c conda-forge --yes numba
RUN conda install -c conda-forge --yes git

RUN python3 -m pip install 'obspycsv>=0.7'
RUN python3 -m pip install 'qopen>=4.3'
RUN python3 -m pip install git+https://github.com/ROBelgium/MSNoise.git
RUN python3 -m pip install dynamic_yaml
RUN python3 -m pip install disba

#RUN pip3 install --no-cache pytest pytest-json-report
#RUN conda install -c conda-forge cartopy_offlinedata --yes
#RUN conda install -c conda-forge nbgitpuller --yes

# Install rate and state toolkit
RUN pip install https://github.com/jrleeman/rsfmodel/archive/master.zip

# Install the jupyter dashboards.
RUN pip install jupyter_dashboards && \
  jupyter dashboards quick-setup --sys-prefix && \
  jupyter nbextension enable jupyter_dashboards --py --sys-prefix

# Install the code folding plugin.
RUN conda install --yes -c conda-forge jupyter_contrib_nbextensions && \
  jupyter contrib nbextension install --user && \
  jupyter nbextension enable codefolding/main

# install ipympl
RUN python3 -m pip install ipympl
RUN python3 -m pip install nodejs
RUN jupyter labextension install @jupyter-widgets/jupyterlab-manager
RUN jupyter labextension install jupyter-matplotlib

# copy notebooks
ADD --chown=jovyan:users 01_Monday /home/jovyan/01_Monday/
ADD --chown=jovyan:users 02_Tuesday /home/jovyan/02_Tuesday/
ADD --chown=jovyan:users 03_Wednesday /home/jovyan/03_Wednesday/
ADD --chown=jovyan:users 04_Thursday /home/jovyan/04_Thursday/
ADD --chown=jovyan:users 05_Friday /home/jovyan/05_Friday/

#RUN rm -rf /home/jovyan/work

# Set a default backend for matplotlib!
# Attention! This is the wrong matplotlib backend, it will only work in notebook mode not lab!
RUN mkdir -p ~/.config/matplotlib && touch ~/.config/matplotlib/matplotlibrc && printf "\nbackend: nbagg\n" >> ~/.config/matplotlib/matplotlibrc

# Build the font cache so its already done in the notebooks.
RUN python -c "from matplotlib.font_manager import FontManager; FontManager()"

# Ignore all Pythonwarnings to hide them from the user
#ENV PYTHONWARNINGS ignore