diff --git a/Dockerfile b/Dockerfile index 7d212cef1d3259f731b91bec507a1ea699787210..56c9c231175ba9c9c950572ee600e3b2ff844d73 100644 --- a/Dockerfile +++ b/Dockerfile @@ -1,5 +1,6 @@ -FROM markrobinsonuzh/renku:r4.0.0-ubuntu18.04_bioc_renku +FROM markrobinsonuzh/renku:r4.0.0_bioc_renku_bio334ss2020 +# FROM markrobinsonuzh/renku:r4.0.0-ubuntu18.04_bioc_renku # FROM rrrrrok/renkulab:bioc-devel # FROM rockerdev/rstudio:4.0.0 # FROM rocker/rstudio:latest @@ -12,37 +13,37 @@ FROM markrobinsonuzh/renku:r4.0.0-ubuntu18.04_bioc_renku # e.g. the following installs apt-utils and vim; each pkg on its own line, all lines # except for the last end with backslash '\' to continue the RUN line # -USER root +#USER root -RUN chmod -R 777 /usr/local/lib/R/site-library +#RUN chmod -R 777 /usr/local/lib/R/site-library #RUN apt-get update && \ -RUN apt-get install -y --no-install-recommends \ - #apt-utils \ - #libnetcdf-dev \ - netcdf-bin \ - #libhdf5-dev \ - texlive-latex-base \ - texlive-fonts-recommended \ - texlive-fonts-extra \ - nano \ - libgit2-dev \ - manpages \ - man-db \ - #python3.6 \ - #libpng-dev \ - less +#RUN apt-get install -y --no-install-recommends \ +# #apt-utils \ +# #libnetcdf-dev \ +# netcdf-bin \ +# #libhdf5-dev \ +# texlive-latex-base \ +# texlive-fonts-recommended \ +# texlive-fonts-extra \ +# nano \ +# libgit2-dev \ +# manpages \ +# man-db \ +# #python3.6 \ +# #libpng-dev \ +# less -USER ${NB_USER} +#USER ${NB_USER} # install the R dependencies -COPY install.R /tmp/ -RUN R -f /tmp/install.R +#COPY install.R /tmp/ +#RUN R -f /tmp/install.R # install conda packages -COPY conda-packages.txt /tmp/ -RUN conda install --channel bioconda --file /tmp/conda-packages.txt +#COPY conda-packages.txt /tmp/ +#RUN conda install --channel bioconda --file /tmp/conda-packages.txt # install the python dependencies -COPY requirements.txt /tmp/ -RUN pip3 install -r /tmp/requirements.txt +#COPY requirements.txt /tmp/ +#RUN pip3 install -r /tmp/requirements.txt