Commit 4718d07c authored by Mark Robinson's avatar Mark Robinson

Update Dockerfile

parent a3fe125d
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
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