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ARG GITHUB_PAT
FROM rocker/r2u:22.04
ENV RUSTUP_HOME=/usr/local/rustup \
CARGO_HOME=/usr/local/cargo \
PATH=/usr/local/cargo/bin:$PATH
# Install system packages
RUN set -eux; \
apt-get update; \
apt-get install -y --no-install-recommends \
git \
sudo \
sqlite3 \
ca-certificates \
gcc \
libc6-dev \
wget \
&& sed -i.bkp -e 's/%sudo\s\+ALL=(ALL\(:ALL\)\?)\s\+ALL/%sudo ALL=NOPASSWD:ALL/g' /etc/sudoers \
&& sed -i -e '/^suppressMessages(bspm::enable())$/i options(bspm.sudo=TRUE)' /etc/R/Rprofile.site \
; \
\
url="https://static.rust-lang.org/rustup/dist/x86_64-unknown-linux-gnu/rustup-init"; \
wget "$url"; \
chmod +x rustup-init; \
./rustup-init -y --no-modify-path --default-toolchain beta --default-host x86_64-unknown-linux-gnu; \
rm rustup-init; \
chmod -R a+w $RUSTUP_HOME $CARGO_HOME; \
rustup --version; \
cargo --version; \
rustc --version; \
\
apt-get remove -y --auto-remove \
wget \
; \
rm -rf /var/lib/apt/lists/*;
# Install R packages
RUN install2.r --error -s --deps TRUE htmltools tibble dplyr purrr rlang glue this.path DBI pool RSQLite remotes promises assertthat log here zeallot dbplyr stringr tidyverse
RUN Rscript -e "install.packages('b64', repos = c('https://extendr.r-universe.dev', getOption('repos')))"
RUN Rscript -e "install.packages('uwu', repos = c('https://josiahparry.r-universe.dev', getOption('repos')))"
RUN --mount=type=secret,id=GITHUB_PAT GITHUB_PAT=$(cat /run/secrets/GITHUB_PAT) \
installGithub.r jrosell/ambhtmx devOpifex/ambiorix devOpifex/scilis devOpifex/signaculum
# Prepare the user
ENV HOME=/workspace \
PATH=/workspace/.local/bin:$PATH
WORKDIR /workspace
COPY . .
# Entry
EXPOSE 7860
CMD R -e "print(nchar(Sys.getenv('GITHUB_PAT'))); source('app.R'); "
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