Dockerfile.bioc

FROM jupyter/r-notebook:r-4.3.1

USER root

RUN apt update -qq 
RUN apt install python3-dev build-essential -y 

# install bioc deps from @almahmoud
RUN curl -O https://raw.githubusercontent.com/Bioconductor/bioconductor_docker/devel/bioc_scripts/install_bioc_sysdeps.sh
RUN bash install_bioc_sysdeps.sh 3.18 

# update conda
RUN conda update -y -c conda-forge libsqlite

# install bioc deps from @almahmoud
RUN pip install -r <(curl -s https://raw.githubusercontent.com/BiocPy/BiocWorkshop2024/master/requirements.txt) 
RUN curl -s https://raw.githubusercontent.com/BiocPy/BiocWorkshop2024/master/rpackages.R | Rscript -