Dockerfile

# ------------------------------------------------------------------------------
# Use the R base image
# ------------------------------------------------------------------------------
FROM rocker/r-base:latest

# ------------------------------------------------------------------------------
# Switch to /code as our working directory
# ------------------------------------------------------------------------------
WORKDIR /code

# ------------------------------------------------------------------------------
# 1) Install system dependencies + Miniconda
# ------------------------------------------------------------------------------
RUN apt-get update -y && \
    apt-get install -y --no-install-recommends \
        wget \
        bzip2 \
    && rm -rf /var/lib/apt/lists/*

# Install Miniconda to /opt/conda
RUN wget --quiet https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh -O /tmp/miniconda.sh \
    && /bin/bash /tmp/miniconda.sh -b -p /opt/conda \
    && rm /tmp/miniconda.sh \
    && /opt/conda/bin/conda clean -afy

# Make sure conda is on PATH
ENV PATH=/opt/conda/bin:$PATH

# ------------------------------------------------------------------------------
# 2) Install required R packages
#    (We add reticulate + a few extras such as DT and shinydashboard
#     since your app uses them.)
# ------------------------------------------------------------------------------
RUN install2.r --error \
    shiny \
    dplyr \
    ggplot2 \
    readr \
    ggExtra \
    DT \
    parallel \
    shinydashboard \
    reticulate \
    remotes

# ------------------------------------------------------------------------------
# 3) Copy your local code (including app.R and CODEBASE) into the container
# ------------------------------------------------------------------------------
COPY . .

# If your fastrerandomize package is on GitHub and not installed yet,
# uncomment and adjust the GitHub URL as appropriate:
RUN Rscript -e "remotes::install_github('cjerzak/fastrerandomize-software/fastrerandomize')"

# ------------------------------------------------------------------------------
# 4) (Optional) Pre-build the conda environment inside the Docker image
#    by calling your 'build_backend()' function. 
#    This ensures that JAX/numpy are already installed.
# ------------------------------------------------------------------------------
RUN Rscript -e "library(fastrerandomize); fastrerandomize::build_backend(conda='auto')"

# ------------------------------------------------------------------------------
# 5) Expose the Shiny port and set default command to run the Shiny app
# ------------------------------------------------------------------------------
EXPOSE 7860
CMD ["R", "--quiet", "-e", "shiny::runApp('/code', host='0.0.0.0', port=7860)"]