FROM rocker/r-ver:4.1.3

LABEL org.opencontainers.image.licenses="GPL-2.0-or-later" \
      org.opencontainers.image.source="https://github.com/rocker-org/rocker-versioned2" \
      org.opencontainers.image.vendor="Rocker Project" \
      org.opencontainers.image.authors="Carl Boettiger <cboettig@ropensci.org>"

ENV S6_VERSION=v2.1.0.2
ENV RSTUDIO_VERSION=2022.02.1+461
ENV DEFAULT_USER=rstudio
ENV PANDOC_VERSION=default
ENV PATH=/usr/lib/rstudio-server/bin:$PATH

# Install OpenJDK
RUN apt-get update && apt-get install -y openjdk-8-jdk-headless openjdk-8-jre-headless

# Install a lot of R packages
ADD https://code-repo.d4science.org/gCubeSystem/r-packages-list/raw/branch/master/install2r-packages.txt /tmp
RUN for f in `cat /tmp/install2r-packages.txt` ; do install2.r --error --skipinstalled --ncpus -1 $f ; done

# Non CRAN repositories
ADD https://code-repo.d4science.org/gCubeSystem/r-packages-list/raw/branch/master/r_non_cran_pkgs.txt /tmp
RUN for l in `cat /tmp/r_non_cran_pkgs.txt` ; do \
    pkg=`echo $l | cut -d : -f 1` ; \
    mirror=`echo $l | cut -d : -f 2-` ; \
    Rscript --slave --no-site-file --no-init-file --no-save --no-restore-history \
    -e "install.packages(pkgs='$pkg', repos=c('$mirror/'));" ; done

# From github
ADD https://code-repo.d4science.org/gCubeSystem/r-packages-list/raw/branch/master/r_github_pkgs.txt /tmp
RUN for g in `cat /tmp/r_github_pkgs.txt` ; do \
    Rscript --slave --no-site-file --no-init-file --no-save --no-restore-history \
    -e " require(devtools); devtools::install_github('$g')" ; done

RUN /rocker_scripts/install_rstudio.sh
RUN /rocker_scripts/install_pandoc.sh

# This part comes from https://github.com/openanalytics/shinyproxy-rstudio-ide-demo/blob/master/Dockerfile
RUN echo "www-frame-origin=disabled" >> /etc/rstudio/disable_auth_rserver.conf
RUN echo "www-verify-user-agent=0" >> /etc/rstudio/disable_auth_rserver.conf

ADD 03_setup_root_path.sh /etc/cont-init.d/03_setup_root_path.sh

# By default RStudio does not give access to all enviornment variables defined in the container (e.g. using ShinyProxy).
# Uncomment the next line, to change this behavior.
ADD 04_copy_env.sh /etc/cont-init.d/04_copy_env.sh
ADD 05_setup_rsession_parameters.sh /etc/cont-init.d/05_setup_rsession_parameters.sh

EXPOSE 8787

CMD ["/init"]