minerva_servers/Singularity.rstudio at master · BEFH/minerva_servers · GitHub

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Bootstrap: docker
From: rocker/rstudio:4.5.1

%post
    # lua-posix lua-posix-dev \
    #  tcl tcl-dev tcl8.6 tcl8.6-dev libtcl8.6 \
    #  lua5.1 liblua5.1-0-dev liblua5.1-0
    apt-get update && \
    apt-get install -y wget less openssh-client exa fish && \
    apt-get clean
    echo "lock-type=linkbased" > /etc/rstudio/file-locks
    wget -O Miniforge3.sh "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh" && \
    bash Miniforge3.sh -b -p /opt/conda && \
    rm Miniforge3.sh && \
    echo "done"

%environment
    #export MODULEPATH=/usr/share/lmod/lmod/modulefiles/Core:/opt/hpc/packages/minerva-centos7/modulefiles:/opt/hpc/packages/minerva-common/modulefiles
    export RS_CONDAENV=${RS_CONDAENV:-$CONDA_DEFAULT_ENV}

%apprun rserver
    echo "enabling conda" && \
      . /opt/conda/etc/profile.d/conda.sh && \
      . /opt/conda/etc/profile.d/mamba.sh && \
      alias ll='ls -l' && \
      echo "activating env $RS_CONDAENV" && \
      conda activate $RS_CONDAENV && \
      echo "starting RStudio Server" && \
      exec /usr/lib/rstudio-server/bin/rserver "${@}"

%apprun bash
    echo "Enabling conda" && \
      . /opt/conda/etc/profile.d/conda.sh && \
      . /opt/conda/etc/profile.d/mamba.sh && \
      alias ll='ls -l' && \
      echo "activating env $RS_CONDAENV" && \
      conda activate $RS_CONDAENV && \
      echo "starting BASH" && \
      /bin/bash

%runscript
    echo "Enabling conda" && \
      . /opt/conda/etc/profile.d/conda.sh && \
      . /opt/conda/etc/profile.d/mamba.sh && \
      echo "starting RStudio Server" && \
      exec rserver "${@}"