Add dockerfile for combined py r image

531/py-r/Dockerfile

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+FROM jupyter/minimal-notebook:2023-10-20
+
+ENV XDG_DATA_HOME=/tmp/local/share
+ENV XDG_CACHE_HOME=/tmp/cache
+ENV XDG_CONFIG_HOME=/tmp/config
+ENV JUPYTER_RUNTIME_DIR /tmp/runtime
+ENV JUPYTER_ALLOW_INSECURE_WRITES true
+ENV JUPYTER_CONFIG_DIR=/tmp/jupyter_config
+ENV NPM_CONFIG_CACHE=/tmp/npm
+ENV NO_UPDATE_NOTIFIER=true
+ENV IPYTHONDIR=/tmp/ipython
+ENV YARN_CACHE_FOLDER=/tmp/yarn_cache
+
+USER root
+# Install dependencies and various libraries
+RUN apt-get update && apt-get -y upgrade
+RUN apt-get clean && rm -rf /var/lib/apt/lists/*
+
+# Suppress the opt-in dialog for announcements.  
+# https://stackoverflow.com/questions/75511508/how-to-stop-this-message-would-you-like-to-receive-official-jupyter-news
+RUN jupyter labextension disable @jupyterlab/apputils-extension:announcements
+RUN mamba install --yes \
+    'altair-all' \
+    'vega_datasets' \
+    'otter-grader' \
+    'r-base>=4.1' \
+    'r-essentials' \
+    'r-devtools' \
+    'r-gert' \
+    'r-usethis' \
+    'r-testthat' \
+    'r-startup' \
+    'r-rmarkdown' \
+    'r-stringi' \
+    'r-tidyverse' \
+    'r-hmisc' \
+    'r-rjson' \
+    'r-ggally' \
+    'r-ggthemes' \
+    'r-cowplot' \
+    'r-irkernel' && \
+    mamba clean --all -f -y && \
+    fix-permissions "${CONDA_DIR}" && \
+    fix-permissions "/home/${NB_USER}"
+
+# This seems to be needed for Jupyterlab to get the anywidget extension installed
+# although the package is technically already installed as part of altair-all.
+# This package is needed to show altair charts offline, such as in CBTF.
+# Each notebook need to start with `alt.renderers.enable('jupyter', offline=True)`
+RUN python -m pip install anywidget
+RUN pip3 cache purge
+
+COPY jupyter_server_config.py /etc/jupyter/
+
+USER jovyan
+CMD ["start.sh", "jupyter", "lab"]

531/py-r/jupyter_server_config.py

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+import os
+
+c = get_config()  # type: ignore # noqa F821
+
+c.ServerApp.base_url = "/"
+if "WORKSPACE_BASE_URL" in os.environ:
+    c.NotebookApp.base_url = os.environ["WORKSPACE_BASE_URL"]
+
+c.ServerApp.port = 8080
+c.ServerApp.ip = "0.0.0.0"
+c.ServerApp.open_browser = False
+c.ServerApp.password = ""
+c.ServerApp.token = ""
+c.ServerApp.allow_origin = "*"
+
+# RTC appears to be broken in the current version of `jupyter-collaboration`:
+# https://github.com/jupyterlab/jupyter-collaboration/issues/162
+# This opt-in will only be useful once the underlying issue is resolved.
+enable_rtc = bool(os.environ.get("ENABLE_REAL_TIME_COLLABORATION", False))
+c.YDocExtension.disable_rtc = not enable_rtc
+
+# `LAUNCH_FILE_NAME` can be set to open a specific file when the workspace is opened.
+if "LAUNCH_FILE_NAME" in os.environ:
+    # The "RTC" drive needs to be used if real-time collaboration is enabled.
+    # This isn't documented, but is discussed in these issues:
+    # https://github.com/jupyterlab/jupyter-collaboration/issues/202
+    # https://github.com/jupyterlab/jupyter-collaboration/issues/183
+    drive = "RTC:" if enable_rtc else ""
+    c.LabApp.default_url= f"/lab/tree/{drive}{os.environ['LAUNCH_FILE_NAME']}"
+
+c.FileContentsManager.delete_to_trash = False
+c.FileCheckpoints.checkpoint_dir = "/tmp/ipynb_checkpoints"