FROM r-base:4.1.2

# Install several CRAN packages using package manager.
RUN apt update \
    && apt install --assume-yes \
    r-cran-dplyr=1.0.7-2 \
    r-bioc-deseq2=1.34.0+dfsg-1 \
    r-cran-biocmanager=1.30.16+dfsg-3 \
    r-cran-devtools=2.4.3-1

# Example how to install specific package using R.
RUN R -e "BiocManager::install('apeglm', dependencies=TRUE, version='3.14')"

# Make a directory in the Docker image and copy scripts to it.
WORKDIR /analysis/
COPY ./example/ /analysis/

# Run unit tests.
CMD R --quiet -e 'testthat::test_dir("test")'