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Merged
chicocvenancio merged 2 commits into from
May 22, 2021
Merged

Add RStudio to the base image #64

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c6ade7a
Upgrade user image
yuvipanda Apr 17, 2021
94f03f3
Add RStudio to the base image
yuvipanda May 22, 2021
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Add RStudio to the base image 
Uses github.com/jupyterhub/jupyter-rsession-proxy/ to provide
RStudio :)

You can test this with:

$ docker build -t paws images/singleuser
$ docker run -p 8888:8888 paws jupyter notebook --ip=0.0.0.0

This should start a notebook server, and print a URL with a token
you can use to connect to the docker container & test the image.
Since this uses port forwarding, it'll most likely only work if you
are running docker locally (and not via docker-machine)
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@yuvipanda
yuvipanda committed May 22, 2021
commit 94f03f3fd7a733492bc252aab7058c4fe83a8a56
29 changes: 29 additions & 0 deletions images/singleuser/Dockerfile
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Expand Up @@ -71,6 +71,24 @@ RUN apt-get install --yes \
vim \
mariadb-client > /dev/null


# Needed by RStudio
RUN apt-get update -qq --yes && \
apt-get install --yes --no-install-recommends -qq \
psmisc \
sudo \
libapparmor1 \
lsb-release \
libclang-dev > /dev/null
# Install RStudio
# 1.3.959 is latest version that works with jupyter-rsession-proxy
# See https://github.com/jupyterhub/jupyter-rsession-proxy/issues/93#issuecomment-725874693
ENV RSTUDIO_URL https://download2.rstudio.org/server/bionic/amd64/rstudio-server-1.3.959-amd64.deb
RUN curl --silent --location --fail ${RSTUDIO_URL} > /tmp/rstudio.deb && \
dpkg -i /tmp/rstudio.deb && \
rm /tmp/rstudio.deb


# Machine-learning type stuff
RUN apt-get install --yes \
# For scipy & friends
Expand Down Expand Up @@ -102,6 +120,14 @@ RUN apt-get install --yes \
ENV R_LIBS_USER /srv/r
RUN install -d -o ${NB_USER} -g ${NB_USER} ${R_LIBS_USER}

# R_LIBS_USER is set by default in /etc/R/Renviron, which RStudio loads.
# We uncomment the default, and set what we wanna - so it picks up
# the packages we install. Without this, RStudio doesn't see the packages
# that R does.
# Stolen from https://github.com/jupyterhub/repo2docker/blob/6a07a48b2df48168685bb0f993d2a12bd86e23bf/repo2docker/buildpacks/r.py
RUN sed -i -e '/^R_LIBS_USER=/s/^/#/' /etc/R/Renviron && \
echo "R_LIBS_USER=${R_LIBS_USER}" >> /etc/R/Renviron

# Create venv directory, and let users install into it
ENV VENV_DIR /srv/paws
RUN install -d -o ${NB_USER} -g ${NB_USER} ${VENV_DIR}
Expand All @@ -123,6 +149,9 @@ RUN python -m bash_kernel.install --sys-prefix

# Set CRAN mirror to rspm before we install anything
COPY Rprofile.site /usr/lib/R/etc/Rprofile.site
# RStudio needs its own config
COPY rsession.conf /etc/rstudio/rsession.conf


# Install the R Kernel
RUN r -e "install.packages('IRkernel', version='1.1.1')" && \
Expand Down
3 changes: 3 additions & 0 deletions images/singleuser/requirements.txt
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Expand Up @@ -36,3 +36,6 @@ mycli

# Interface with other languages
rpy2

# RStudio
jupyter-rsession-proxy
2 changes: 2 additions & 0 deletions images/singleuser/rsession.conf
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@@ -0,0 +1,2 @@
# Use binary packages!
r-cran-repos=https://packagemanager.rstudio.com/all/__linux__/focal/latest