julia-docker

FROM 007ba7/usb-rapid-02

USER root

# R pre-requisites
RUN apt-get update && \
    apt-get install -y --no-install-recommends \
    fonts-dejavu \
    tzdata \
    gfortran \
    gcc && apt-get clean && \
    rm -rf /var/lib/apt/lists/*

# Julia dependencies
# install Julia packages in /opt/julia instead of $HOME
ENV JULIA_PKGDIR=/opt/julia
ENV JULIA_VERSION=1.0.1
ENV CONDA_DIR=/conda

#COPY ./julia-1.0.1-linux-x86_64.tar.gz /tmp/julia-1.0.1-linux-x86_64.tar.gz

RUN mkdir /opt/julia-${JULIA_VERSION} && \
    cd /tmp && \
    wget -q https://julialang-s3.julialang.org/bin/linux/x64/`echo ${JULIA_VERSION} | cut -d. -f 1,2`/julia-${JULIA_VERSION}-linux-x86_64.tar.gz && \
#    echo "bea4570d7358016d8ed29d2c15787dbefaea3e746c570763e7ad6040f17831f3 *julia-${JULIA_VERSION}-linux-x86_64.tar.gz" | sha256sum -c - && \
    tar xzf julia-${JULIA_VERSION}-linux-x86_64.tar.gz -C /opt/julia-${JULIA_VERSION} --strip-components=1 && \
    rm /tmp/julia-${JULIA_VERSION}-linux-x86_64.tar.gz
RUN ln -fs /opt/julia-*/bin/julia /usr/local/bin/julia

# Show Julia where conda libraries are \
RUN mkdir /etc/julia && \
    echo "push!(Libdl.DL_LOAD_PATH, \"$CONDA_DIR/lib\")" >> /etc/julia/juliarc.jl && \
    # Create JULIA_PKGDIR \
    mkdir $JULIA_PKGDIR && \
    chown $NB_USER $JULIA_PKGDIR && \
#    fix-permissions $JULIA_PKGDIR
    chown -R ${NB_USER}:users $JULIA_PKGDIR

USER $NB_UID
RUN echo $NB_UID


# Add Julia packages. Only add HDF5 if this is not a test-only build since
# it takes roughly half the entire build time of all of the images on Travis
# to add this one package and often causes Travis to timeout.
#
# Install IJulia as jovyan and then move the kernelspec out
# to the system share location. Avoids problems with runtime UID change not
# taking effect properly on the .local folder in the jovyan home dir.
RUN julia -e 'import Pkg; Pkg.update()' && \
    (test $TEST_ONLY_BUILD || julia -e 'import Pkg; Pkg.add("HDF5")') && \
    julia -e 'import Pkg; Pkg.add("Gadfly")' && \
    julia -e 'import Pkg; Pkg.add("RDatasets")' && \
    julia -e 'import Pkg; Pkg.add("IJulia")' && \
    # Precompile Julia packages \
    julia -e 'using IJulia' && \
    # move kernelspec out of home \
    mv $HOME/.local/share/jupyter/kernels/julia* $CONDA_DIR/envs/gdf/share/jupyter/kernels/ && \
    chmod -R go+rx $CONDA_DIR/envs/gdf/share/jupyter/kernels && \
    rm -rf $HOME/.local && \
#    fix-permissions $JULIA_PKGDIR $CONDA_DIR/share/jupyter
    chown -R ${NB_USER}:users $JULIA_PKGDIR
    
USER root    
RUN mv /home/jovyan/.julia /opt/julia
RUN sed s/'\/home\/jovyan'/'\/opt\/julia'/g /conda/envs/gdf/share/jupyter/kernels/julia-1.0/kernel.json > /kernel.json
RUN mv /kernel.json /conda/envs/gdf/share/jupyter/kernels/julia-1.0
RUN chown -R ${NB_USER}:users /opt/julia/.julia

USER $NB_UID