Dockerfile

FROM debian:9.4

LABEL org.label-schema.license="LGPL-3.0" \
      org.label-schema.vcs-url="https://TBA" \
      org.label-schema.vendor="TBA" \
      maintainer="Augustin Luna <TBA>"

COPY r-requirements.txt /

ARG R_VERSION
ARG BUILD_DATE
ENV BUILD_DATE ${BUILD_DATE:-2018-03-15}
ENV R_VERSION=${R_VERSION:-3.4.3} \
    LC_ALL=en_US.UTF-8 \
    LANG=en_US.UTF-8 \
    TERM=xterm

RUN apt-get update \
  && apt-get install -y --no-install-recommends \
    bash-completion \
    ca-certificates \
    file \
    fonts-texgyre \
    g++ \
    gfortran \
    git \
    gsfonts \
    htop \
    libblas-dev \
    libbz2-1.0 \
    libcurl3 \
    libicu57 \
    libjpeg62-turbo \
    libopenblas-dev \
    libpangocairo-1.0-0 \
    libpcre3 \
    libpng16-16 \
    libreadline7 \
    libtiff5 \
    liblzma5 \
    links \
    locales \
    make \
    nano \
    unzip \
    wget \
    zip \
    zlib1g \
  && echo "en_US.UTF-8 UTF-8" >> /etc/locale.gen \
  && locale-gen en_US.utf8 \
  && /usr/sbin/update-locale LANG=en_US.UTF-8 \
  && BUILDDEPS="curl \
    default-jdk \
    libbz2-dev \
    libcairo2-dev \
    libcurl4-openssl-dev \
    libpango1.0-dev \
    libjpeg-dev \
    libicu-dev \
    libpcre3-dev \
    libpng-dev \
    libreadline-dev \
    libssl-dev \
    libtiff5-dev \
    liblzma-dev \
    libx11-dev \
    libxml2-dev \
    libxt-dev \
    perl \
    tcl8.6-dev \
    tk8.6-dev \
    texinfo \
    texlive-extra-utils \
    texlive-fonts-recommended \
    texlive-fonts-extra \
    texlive-latex-recommended \
    x11proto-core-dev \
    xauth \
    xfonts-base \
    xvfb \
    zlib1g-dev" \
  && apt-get install -y --no-install-recommends $BUILDDEPS \
  && cd tmp/ \
  ## Download source code
  && curl -O https://cran.r-project.org/src/base/R-3/R-${R_VERSION}.tar.gz \
  ## Extract source code
  && tar -xf R-${R_VERSION}.tar.gz \
  && cd R-${R_VERSION} \
  ## Set compiler flags
  && R_PAPERSIZE=letter \
    R_BATCHSAVE="--no-save --no-restore" \
    R_BROWSER=xdg-open \
    PAGER=/usr/bin/pager \
    PERL=/usr/bin/perl \
    R_UNZIPCMD=/usr/bin/unzip \
    R_ZIPCMD=/usr/bin/zip \
    R_PRINTCMD=/usr/bin/lpr \
    LIBnn=lib \
    AWK=/usr/bin/awk \
    CFLAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \
    CXXFLAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \
  ## Configure options
  ./configure --enable-R-shlib \
               --enable-memory-profiling \
               --with-readline \
               --with-blas \
               --with-tcltk \
               --disable-nls \
               --without-recommended-packages \
  ## Build and install
  && make \
  && make install \
  ## Add a default CRAN mirror
  && echo "options(repos = c(CRAN = 'https://cran.rstudio.com/'), download.file.method = 'libcurl')" >> /usr/local/lib/R/etc/Rprofile.site \
  ## Add a library directory (for user-installed packages)
  && mkdir -p /usr/local/lib/R/site-library \
  && chown root:staff /usr/local/lib/R/site-library \
  && chmod g+wx /usr/local/lib/R/site-library \
  ## Fix library path
  && echo "R_LIBS_USER='/usr/local/lib/R/site-library'" >> /usr/local/lib/R/etc/Renviron \
  && echo "R_LIBS=\${R_LIBS-'/usr/local/lib/R/site-library:/usr/local/lib/R/library:/usr/lib/R/library'}" >> /usr/local/lib/R/etc/Renviron

## Install packages from date-locked MRAN snapshot of CRAN
RUN [ -z "$BUILD_DATE" ] && BUILD_DATE=$(TZ="America/Los_Angeles" date -I) || true \
  && MRAN=https://mran.microsoft.com/snapshot/${BUILD_DATE} \
  && echo MRAN=$MRAN >> /etc/environment \
  && export MRAN=$MRAN \
  && echo "options(repos = c(CRAN='$MRAN'), download.file.method = 'libcurl')" >> /usr/local/lib/R/etc/Rprofile.site \
  ## Use littler installation scripts
  && Rscript -e "install.packages(c('littler', 'docopt', 'devtools', 'stringr'), repo = '$MRAN')" \
  && ln -s /usr/local/lib/R/site-library/littler/examples/install2.r /usr/local/bin/install2.r \
  && ln -s /usr/local/lib/R/site-library/littler/examples/installGithub.r /usr/local/bin/installGithub.r \
  && ln -s /usr/local/lib/R/site-library/littler/bin/r /usr/local/bin/r

## Install additional dependencies
RUN export $(cat /etc/environment) \
  && Rscript -e "options(repos = c(CRAN='$MRAN'), download.file.method = 'libcurl'); source('https://gist.githubusercontent.com/cannin/6b8c68e7db19c4902459/raw/installPackages.R'); installPackages(file='/r-requirements.txt', repos='$MRAN')"

## Clean up from R source install
RUN cd / \
  && rm -rf /tmp/* \
  && apt-get remove --purge -y $BUILDDEPS \
  && apt-get autoremove -y \
  && apt-get autoclean -y \
  && rm -rf /var/lib/apt/lists/*

CMD ["R"]