singularity-r.def

BootStrap: docker
From: ubuntu:20.04

%labels
  Maintainer Jeremy Nicklas
  R_Version 4.2.1

%apprun R
  exec R "${@}"

%apprun Rscript
  exec Rscript "${@}"

%runscript
  exec R "${@}"

%post
  # Software versions
  export R_VERSION=4.2.1
  echo "export R_VERSION=${R_VERSION}" >> $SINGULARITY_ENVIRONMENT

  # Get dependencies
  apt-get update
  apt-get install -y --no-install-recommends \
    locales

  # Configure default locale
  echo "en_US.UTF-8 UTF-8" >> /etc/locale.gen
  locale-gen en_US.utf8
  /usr/sbin/update-locale LANG=en_US.UTF-8
  export LC_ALL=en_US.UTF-8
  export LANG=en_US.UTF-8

  # Install R
  apt-get update
  apt-get install -y --no-install-recommends \
    software-properties-common \
    dirmngr \
    wget
  wget -qO- https://cloud.r-project.org/bin/linux/ubuntu/marutter_pubkey.asc | \
    tee -a /etc/apt/trusted.gpg.d/cran_ubuntu_key.asc
  add-apt-repository \
    "deb https://cloud.r-project.org/bin/linux/ubuntu $(lsb_release -cs)-cran40/"
  apt-get install -y --no-install-recommends \
    r-base=${R_VERSION}* \
    r-base-core=${R_VERSION}* \
    r-base-dev=${R_VERSION}* \
    r-recommended=${R_VERSION}* \
    r-base-html=${R_VERSION}* \
    r-doc-html=${R_VERSION}* \
    libcurl4-openssl-dev \
    libssl-dev \
    libxml2-dev \
    libcairo2-dev \
    libxt-dev \
    libopenblas-dev

  # Add a default CRAN mirror
  echo "options(repos = c(CRAN = 'https://cran.rstudio.com/'), download.file.method = 'libcurl')" >> /usr/lib/R/etc/Rprofile.site

  # Add a directory for host R libraries
  mkdir -p /library
  echo "R_LIBS_SITE=/library:\${R_LIBS_SITE}" >> /usr/lib/R/etc/Renviron.site

  # Clean up
  rm -rf /var/lib/apt/lists/*

%test

R --quiet -e "stopifnot(getRversion() == '${R_VERSION}')"