Dockerfile

# Versions pinned as CRAN snapshot as of 2023-01-18
ARG R_REPOS="https://packagemanager.posit.co/cran/__linux__/jammy/2024-06-19/"

FROM rocker/shiny-verse:4.3

RUN install2.r --error --skipinstalled cowplot devtools shiny DT plotly bslib thematic showtext shinycssloaders aws.s3 conductor \
    && rm -Rf /tmp/downloaded_packages

RUN installGithub.r --update FALSE ColinFay/glouton

RUN mkdir /app/

COPY app/ /app/
RUN rm -f /app/.Rprofile
RUN rm -f /app/.Renviron

WORKDIR /app/

ARG COSCINE_16S_READ
ARG COSCINE_16S_SECRET
ARG COSCINE_GENOME_READ
ARG COSCINE_GENOME_SECRET

ENV COSCINE_16S_READ   $COSCINE_16S_READ
ENV COSCINE_16S_SECRET $COSCINE_16S_SECRET
ENV COSCINE_GENOME_READ   $COSCINE_GENOME_READ
ENV COSCINE_GENOME_SECRET $COSCINE_GENOME_SECRET

EXPOSE 3838/tcp

ENTRYPOINT [ "R", "-e", "shiny::runApp('.', host = '0.0.0.0', port = 3838)" ]