tidyverse/4.4.2.Dockerfile

+ARG BUILD_ON_IMAGE=glcr.b-data.ch/jupyterlab/r/base
+ARG R_VERSION=4.4.2
+
+FROM ${BUILD_ON_IMAGE}:${R_VERSION}
+
+ARG NCPUS=1
+
+ARG DEBIAN_FRONTEND=noninteractive
+
+ARG BUILD_ON_IMAGE
+ARG BUILD_START
+
+ENV PARENT_IMAGE=${BUILD_ON_IMAGE}:${R_VERSION} \
+    BUILD_DATE=${BUILD_START}
+
+USER root
+
+RUN apt-get update \
+  && apt-get -y install --no-install-recommends \
+    cmake \
+    default-libmysqlclient-dev \
+    #libxml2-dev \
+    libfribidi-dev \
+    libgit2-dev \
+    libharfbuzz-dev \
+    libpq-dev \
+    libsasl2-dev \
+    libsqlite3-dev \
+    libssh2-1-dev \
+    #libtiff-dev \
+    libxtst6 \
+    unixodbc-dev \
+  && install2.r --error --skipinstalled -n $NCPUS BiocManager \
+  && install2.r --error --deps TRUE --skipinstalled -n $NCPUS \
+    tidyverse \
+    dplyr \
+    devtools \
+    formatR \
+  ## dplyr database backends
+  && install2.r --error --skipinstalled -n $NCPUS \
+    arrow \
+    duckdb \
+    fst \
+  ## Get rid of libharfbuzz-dev and its dependencies (incl. python3)
+  && apt-get -y purge libharfbuzz-dev \
+  && apt-get -y autoremove \
+  && apt-get -y install --no-install-recommends libharfbuzz-icu0 \
+  ## Strip libraries of binary packages installed from P3M
+  && RLS=$(Rscript -e "cat(Sys.getenv('R_LIBS_SITE'))") \
+  && strip ${RLS}/*/libs/*.so \
+  ## Clean up
+  && rm -rf /tmp/* \
+  && rm -rf /var/lib/apt/lists/*
+
+## Switch back to ${NB_USER} to avoid accidental container runs as root
+USER ${NB_USER}

verse/.gitlab-ci.yml

 .env:
   variables:
-    R_VERSION: "4.4.1"
+    R_VERSION: "4.4.2"
     CTAN_REPO_BUILD_LATEST: "https://mirror.init7.net/ctan/systems/texlive/tlnet"
     TAG_VERSION_MAJ_MIN: "false"
     TAG_VERSION_MAJ: "false"

verse/4.4.2.Dockerfile

+ARG BUILD_ON_IMAGE=glcr.b-data.ch/jupyterlab/r/tidyverse
+ARG R_VERSION=4.4.2
+ARG CODE_BUILTIN_EXTENSIONS_DIR=/opt/code-server/lib/vscode/extensions
+ARG QUARTO_VERSION=1.6.42
+ARG CTAN_REPO=https://www.texlive.info/tlnet-archive/2025/02/28/tlnet
+
+FROM ${BUILD_ON_IMAGE}:${R_VERSION}
+
+ARG NCPUS=1
+
+ARG DEBIAN_FRONTEND=noninteractive
+
+ARG BUILD_ON_IMAGE
+ARG CODE_BUILTIN_EXTENSIONS_DIR
+ARG QUARTO_VERSION
+ARG CTAN_REPO
+ARG CTAN_REPO_BUILD_LATEST
+ARG BUILD_START
+
+USER root
+
+ENV PARENT_IMAGE=${BUILD_ON_IMAGE}:${R_VERSION} \
+    QUARTO_VERSION=${QUARTO_VERSION} \
+    BUILD_DATE=${BUILD_START}
+
+ENV HOME=/root \
+    PATH=/opt/TinyTeX/bin/linux:/opt/quarto/bin:$PATH
+
+WORKDIR ${HOME}
+
+## Add LaTeX, rticles and bookdown support
+RUN dpkgArch="$(dpkg --print-architecture)" \
+  && apt-get update \
+  && apt-get install -y --no-install-recommends \
+    default-jdk \
+    fonts-roboto \
+    ghostscript \
+    hugo \
+    lbzip2 \
+    libbz2-dev \
+    libglpk-dev \
+    libgmp3-dev \
+    libgl1-mesa-dev \
+    libglu1-mesa-dev \
+    libharfbuzz-dev \
+    libhunspell-dev \
+    libicu-dev \
+    liblzma-dev \
+    #libpcre2-dev \
+    libmagick++-dev \
+    libopenmpi-dev \
+    libpoppler-cpp-dev \
+    librdf0-dev \
+    ## Installing libnode-dev uninstalls nodejs
+    ## https://github.com/jeroen/V8/issues/100
+    #libnode-dev \
+    librsvg2-bin \
+    qpdf \
+    texinfo \
+    ## Python: For h5py wheels (arm64)
+    libhdf5-dev \
+  ## Install R package redland
+  && install2.r --error --skipinstalled -n $NCPUS redland \
+  ## Explicitly install runtime library sub-deps of librdf0-dev
+  && apt-get install -y \
+    libcurl4-openssl-dev \
+    libxslt-dev \
+    librdf0 \
+    redland-utils \
+    rasqal-utils \
+    raptor2-utils \
+  ## Get rid of librdf0-dev and its dependencies (incl. libcurl4-gnutls-dev)
+  && apt-get -y autoremove \
+  ## Install quarto
+  && curl -sLO https://github.com/quarto-dev/quarto-cli/releases/download/v${QUARTO_VERSION}/quarto-${QUARTO_VERSION}-linux-${dpkgArch}.tar.gz \
+  && mkdir -p /opt/quarto \
+  && tar -xzf quarto-${QUARTO_VERSION}-linux-${dpkgArch}.tar.gz -C /opt/quarto --no-same-owner --strip-components=1 \
+  && rm quarto-${QUARTO_VERSION}-linux-${dpkgArch}.tar.gz \
+  ## Exempt quarto from address space limit
+  && sed -i 's/"${QUARTO_DENO}"/prlimit -v=unlimited: "${QUARTO_DENO}"/g' \
+    /opt/quarto/bin/quarto \
+  ## Remove quarto pandoc
+  && rm /opt/quarto/bin/tools/$(uname -m)/pandoc \
+  ## Link to system pandoc
+  && ln -s /usr/bin/pandoc /opt/quarto/bin/tools/$(uname -m)/pandoc \
+  ## Tell APT about the TeX Live installation
+  ## by building a dummy package using equivs
+  && apt-get install -y --no-install-recommends equivs \
+  && cd /tmp \
+  && wget https://github.com/scottkosty/install-tl-ubuntu/raw/master/debian-control-texlive-in.txt \
+  && equivs-build debian-* \
+  && mv texlive-local*.deb texlive-local.deb \
+  && dpkg -i texlive-local.deb \
+  && apt-get -y purge equivs \
+  && apt-get -y autoremove \
+  ## Admin-based install of TinyTeX
+  && CTAN_REPO_ORIG=${CTAN_REPO} \
+  && CTAN_REPO=${CTAN_REPO_BUILD_LATEST:-$CTAN_REPO} \
+  && export CTAN_REPO \
+  && wget -qO- "https://yihui.org/tinytex/install-unx.sh" \
+    | sh -s - --admin --no-path \
+  && mv ${HOME}/.TinyTeX /opt/TinyTeX \
+  && sed -i "s|${HOME}/.TinyTeX|/opt/TinyTeX|g" \
+    /opt/TinyTeX/texmf-var/fonts/conf/texlive-fontconfig.conf \
+  && ln -rs /opt/TinyTeX/bin/$(uname -m)-linux \
+    /opt/TinyTeX/bin/linux \
+  && /opt/TinyTeX/bin/linux/tlmgr path add \
+  && tlmgr update --self \
+  ## TeX packages as requested by the community
+  && curl -sSLO https://yihui.org/gh/tinytex/tools/pkgs-yihui.txt \
+  && tlmgr install $(cat pkgs-yihui.txt | tr '\n' ' ') \
+  && rm -f pkgs-yihui.txt \
+  ## TeX packages as in rocker/verse
+  && tlmgr install \
+    context \
+    pdfcrop \
+  ## TeX packages as in jupyter/scipy-notebook
+  && tlmgr install \
+    cm-super \
+    dvipng \
+  ## TeX packages specific for nbconvert
+  && tlmgr install \
+    oberdiek \
+    titling \
+  && tlmgr path add \
+  && tlmgr option repository ${CTAN_REPO_ORIG} \
+  && Rscript -e "tinytex::r_texmf()" \
+  && chown -R root:${NB_GID} /opt/TinyTeX \
+  && chmod -R g+w /opt/TinyTeX \
+  && chmod -R g+wx /opt/TinyTeX/bin \
+  ## Make the TeX Live fonts available as system fonts
+  && cp /opt/TinyTeX/texmf-var/fonts/conf/texlive-fontconfig.conf \
+    /etc/fonts/conf.d/09-texlive.conf \
+  && fc-cache -fsv \
+  && install2.r --error --skipinstalled -n $NCPUS PKI \
+  ## And some nice R packages for publishing-related stuff
+  && install2.r --error --deps TRUE --skipinstalled -n $NCPUS \
+    blogdown \
+    bookdown \
+    distill \
+    quarto \
+    rticles \
+    rJava \
+    xaringan \
+  ## Install Cairo: R Graphics Device using Cairo Graphics Library
+  ## Install magick: Advanced Graphics and Image-Processing in R
+  && install2.r --error --skipinstalled -n $NCPUS \
+    Cairo \
+    magick \
+  ## Get rid of libharfbuzz-dev
+  && apt-get -y purge libharfbuzz-dev \
+  ## Get rid of libmagick++-dev
+  && apt-get -y purge libmagick++-dev \
+  ## and their dependencies (incl. python3)
+  && apt-get -y autoremove \
+  && apt-get -y install --no-install-recommends \
+    '^libmagick\+\+-6.q16-[0-9]+$' \
+    imagemagick \
+  ## Install code-server extensions
+  && code-server --extensions-dir ${CODE_BUILTIN_EXTENSIONS_DIR} --install-extension quarto.quarto \
+  && code-server --extensions-dir ${CODE_BUILTIN_EXTENSIONS_DIR} --install-extension James-Yu.latex-workshop \
+  && if [ -n "${RSTUDIO_VERSION}" ]; then \
+    ## Check for quarto redundancy
+    if [ -d /opt/quarto ]; then \
+      ## Remove RStudio quarto
+      rm -rf /usr/lib/rstudio-server/bin/quarto; \
+      ## Link to system quarto
+      ln -s /opt/quarto /usr/lib/rstudio-server/bin/quarto; \
+    fi \
+  fi \
+  ## Strip libraries of binary packages installed from P3M
+  && RLS=$(Rscript -e "cat(Sys.getenv('R_LIBS_SITE'))") \
+  && strip ${RLS}/*/libs/*.so \
+  ## Update default PATH settings in /etc/profile.d/00-reset-path.sh
+  && sed -i 's|/opt/code-server/bin|/opt/TinyTeX/bin/linux:/opt/quarto/bin:/opt/code-server/bin|g' /etc/profile.d/00-reset-path.sh \
+  ## Clean up
+  && rm -rf /tmp/* \
+  && rm -rf /var/lib/apt/lists/* \
+    ${HOME}/.config \
+    ${HOME}/.local \
+    ${HOME}/.vscode-remote \
+    ${HOME}/.wget-hsts
+
+## Switch back to ${NB_USER} to avoid accidental container runs as root
+USER ${NB_USER}
+
+ENV CTAN_REPO=${CTAN_REPO}
+
+ENV HOME=/home/${NB_USER}
+
+WORKDIR ${HOME}

verse/latest.Dockerfile

 ARG BUILD_ON_IMAGE=glcr.b-data.ch/jupyterlab/r/tidyverse
 ARG R_VERSION
 ARG CODE_BUILTIN_EXTENSIONS_DIR=/opt/code-server/lib/vscode/extensions
-ARG QUARTO_VERSION=1.5.57
+ARG QUARTO_VERSION=1.6.42
 ARG CTAN_REPO=https://mirror.ctan.org/systems/texlive/tlnet
 
 FROM ${BUILD_ON_IMAGE}:${R_VERSION}
@@ -76,6 +76,9 @@ RUN dpkgArch="$(dpkg --print-architecture)" \
   && mkdir -p /opt/quarto \
   && tar -xzf quarto-${QUARTO_VERSION}-linux-${dpkgArch}.tar.gz -C /opt/quarto --no-same-owner --strip-components=1 \
   && rm quarto-${QUARTO_VERSION}-linux-${dpkgArch}.tar.gz \
+  ## Exempt quarto from address space limit
+  && sed -i 's/"${QUARTO_DENO}"/prlimit -v=unlimited: "${QUARTO_DENO}"/g' \
+    /opt/quarto/bin/quarto \
   ## Remove quarto pandoc
   && rm /opt/quarto/bin/tools/$(uname -m)/pandoc \
   ## Link to system pandoc
@@ -151,6 +154,7 @@ RUN dpkgArch="$(dpkg --print-architecture)" \
   ## and their dependencies (incl. python3)
   && apt-get -y autoremove \
   && apt-get -y install --no-install-recommends \
+    '^libmagick\+\+-6.q16-[0-9]+$' \
     imagemagick \
   ## Install code-server extensions
   && code-server --extensions-dir ${CODE_BUILTIN_EXTENSIONS_DIR} --install-extension quarto.quarto \