rstudio

rstudio/Dockerfile → rstudio/3.6.1.Dockerfile

 FROM rocker/r-ver:3.6.1
 
 ARG RSTUDIO_VERSION
-#ENV RSTUDIO_VERSION=${RSTUDIO_VERSION:-1.2.1335}
+ENV RSTUDIO_VERSION=${RSTUDIO_VERSION:-1.2.5019}
 ARG S6_VERSION
 ARG PANDOC_TEMPLATES_VERSION
 ENV S6_VERSION=${S6_VERSION:-v1.21.7.0}
 ENV S6_BEHAVIOUR_IF_STAGE2_FAILS=2
 ENV PATH=/usr/lib/rstudio-server/bin:$PATH
-ENV PANDOC_TEMPLATES_VERSION=${PANDOC_TEMPLATES_VERSION:-2.6}
+ENV PANDOC_TEMPLATES_VERSION=${PANDOC_TEMPLATES_VERSION:-2.9}
 
 ## Download and install RStudio server & dependencies
 ## Attempts to get detect latest version, otherwise falls back to version given in $VER

rstudio/devel/Dockerfile → rstudio/devel.Dockerfile

@@ -17,6 +17,7 @@ RUN apt-get update \
     file \
     git \
     libapparmor1 \
+    libclang-dev \
     libcurl4-openssl-dev \
     libedit2 \
     libssl-dev \
@@ -27,7 +28,6 @@ RUN apt-get update \
     python-setuptools \
     sudo \
     wget \
-    libclang-dev \
   && if [ -z "$RSTUDIO_VERSION" ]; \
     then RSTUDIO_URL="https://www.rstudio.org/download/latest/stable/server/bionic/rstudio-server-latest-amd64.deb"; \
     else RSTUDIO_URL="http://download2.rstudio.org/server/bionic/amd64/rstudio-server-${RSTUDIO_VERSION}-amd64.deb"; fi \

rstudio/latest.Dockerfile

+FROM rocker/r-ver:3.6.2
+
+ARG RSTUDIO_VERSION
+#ENV RSTUDIO_VERSION=${RSTUDIO_VERSION:-1.2.5033}
+ARG S6_VERSION
+ARG PANDOC_TEMPLATES_VERSION
+ENV S6_VERSION=${S6_VERSION:-v1.21.7.0}
+ENV S6_BEHAVIOUR_IF_STAGE2_FAILS=2
+ENV PATH=/usr/lib/rstudio-server/bin:$PATH
+ENV PANDOC_TEMPLATES_VERSION=${PANDOC_TEMPLATES_VERSION:-2.9}
+
+## Download and install RStudio server & dependencies
+## Attempts to get detect latest version, otherwise falls back to version given in $VER
+## Symlink pandoc, pandoc-citeproc so they are available system-wide
+RUN apt-get update \
+  && apt-get install -y --no-install-recommends \
+    file \
+    git \
+    libapparmor1 \
+    libclang-dev \
+    libcurl4-openssl-dev \
+    libedit2 \
+    libssl-dev \
+    lsb-release \
+    multiarch-support \
+    psmisc \
+    procps \
+    python-setuptools \
+    sudo \
+    wget \
+  && if [ -z "$RSTUDIO_VERSION" ]; \
+    then RSTUDIO_URL="https://www.rstudio.org/download/latest/stable/server/bionic/rstudio-server-latest-amd64.deb"; \
+    else RSTUDIO_URL="http://download2.rstudio.org/server/bionic/amd64/rstudio-server-${RSTUDIO_VERSION}-amd64.deb"; fi \
+  && wget -q $RSTUDIO_URL \
+  && dpkg -i rstudio-server-*-amd64.deb \
+  && rm rstudio-server-*-amd64.deb \
+  ## Symlink pandoc & standard pandoc templates for use system-wide
+  && ln -s /usr/lib/rstudio-server/bin/pandoc/pandoc /usr/local/bin \
+  && ln -s /usr/lib/rstudio-server/bin/pandoc/pandoc-citeproc /usr/local/bin \
+  && git clone --recursive --branch ${PANDOC_TEMPLATES_VERSION} https://github.com/jgm/pandoc-templates \
+  && mkdir -p /opt/pandoc/templates \
+  && cp -r pandoc-templates*/* /opt/pandoc/templates && rm -rf pandoc-templates* \
+  && mkdir /root/.pandoc && ln -s /opt/pandoc/templates /root/.pandoc/templates \
+  && apt-get clean \
+  && rm -rf /var/lib/apt/lists/ \
+  ## RStudio wants an /etc/R, will populate from $R_HOME/etc
+  && mkdir -p /etc/R \
+  ## Write config files in $R_HOME/etc
+  && echo '\n\
+    \n# Configure httr to perform out-of-band authentication if HTTR_LOCALHOST \
+    \n# is not set since a redirect to localhost may not work depending upon \
+    \n# where this Docker container is running. \
+    \nif(is.na(Sys.getenv("HTTR_LOCALHOST", unset=NA))) { \
+    \n  options(httr_oob_default = TRUE) \
+    \n}' >> /usr/local/lib/R/etc/Rprofile.site \
+  && echo "PATH=${PATH}" >> /usr/local/lib/R/etc/Renviron \
+  ## Need to configure non-root user for RStudio
+  && useradd rstudio \
+  && echo "rstudio:rstudio" | chpasswd \
+	&& mkdir /home/rstudio \
+	&& chown rstudio:rstudio /home/rstudio \
+	&& addgroup rstudio staff \
+  ## Prevent rstudio from deciding to use /usr/bin/R if a user apt-get installs a package
+  &&  echo 'rsession-which-r=/usr/local/bin/R' >> /etc/rstudio/rserver.conf \
+  ## use more robust file locking to avoid errors when using shared volumes:
+  && echo 'lock-type=advisory' >> /etc/rstudio/file-locks \
+  ## configure git not to request password each time
+  && git config --system credential.helper 'cache --timeout=3600' \
+  && git config --system push.default simple \
+  ## Set up S6 init system
+  && wget -P /tmp/ https://github.com/just-containers/s6-overlay/releases/download/${S6_VERSION}/s6-overlay-amd64.tar.gz \
+  && tar xzf /tmp/s6-overlay-amd64.tar.gz -C / \
+  && mkdir -p /etc/services.d/rstudio \
+  && echo '#!/usr/bin/with-contenv bash \
+          \n## load /etc/environment vars first: \
+  		  \n for line in $( cat /etc/environment ) ; do export $line ; done \
+          \n exec /usr/lib/rstudio-server/bin/rserver --server-daemonize 0' \
+          > /etc/services.d/rstudio/run \
+  && echo '#!/bin/bash \
+          \n rstudio-server stop' \
+          > /etc/services.d/rstudio/finish \
+  && mkdir -p /home/rstudio/.rstudio/monitored/user-settings \
+  && echo 'alwaysSaveHistory="0" \
+          \nloadRData="0" \
+          \nsaveAction="0"' \
+          > /home/rstudio/.rstudio/monitored/user-settings/user-settings \
+  && chown -R rstudio:rstudio /home/rstudio/.rstudio
+
+COPY userconf.sh /etc/cont-init.d/userconf
+
+## running with "-e ADD=shiny" adds shiny server
+COPY add_shiny.sh /etc/cont-init.d/add
+COPY disable_auth_rserver.conf /etc/rstudio/disable_auth_rserver.conf
+COPY pam-helper.sh /usr/lib/rstudio-server/bin/pam-helper
+
+EXPOSE 8787
+
+## automatically link a shared volume for kitematic users
+VOLUME /home/rstudio/kitematic
+
+CMD ["/init"]