Dockerfile_gudhi_installation

FROM ubuntu:20.04

# Update and upgrade distribution
RUN apt-get update && \
    apt-get upgrade -y

# Tools necessary for installing and configuring Ubuntu
RUN apt-get install -y \
    apt-utils \
    locales \
    tzdata

# Timezone
RUN echo "Europe/Paris" | tee /etc/timezone && \
    ln -fs /usr/share/zoneinfo/Europe/Paris /etc/localtime && \
    dpkg-reconfigure -f noninteractive tzdata

# Locale with UTF-8 support
RUN echo en_US.UTF-8 UTF-8 >> /etc/locale.gen && \
    locale-gen && \
    update-locale LC_ALL=en_US.UTF-8 LANG=en_US.UTF-8
ENV LANG en_US.UTF-8
ENV LANGUAGE en_US:en
ENV LC_ALL en_US.UTF-8

# Update again
RUN apt-get update

# Required for Gudhi compilation
RUN apt-get install -y make \
    g++ \
    cmake \
    graphviz \
    perl \
    texlive-bibtex-extra \
    biber \
    libboost-all-dev \
    libeigen3-dev \
    libgmp3-dev \
    libmpfr-dev \
    libtbb-dev \
    libcgal-dev \
    locales \
    python3 \
    python3-pip \
    python3-pytest \
    python3-tk \
    python3-pybind11 \
    libfreetype6-dev \
    pkg-config \
    curl

RUN curl -LO "https://github.com/CGAL/cgal/releases/download/v5.1/CGAL-5.1.tar.xz" \
    && tar xf CGAL-5.1.tar.xz \
    && mkdir build \
    && cd build \
    && cmake -DCMAKE_BUILD_TYPE=Release ../CGAL-5.1/ \
    && make install \
    && cd .. \
    && rm -rf build CGAL-5.1

RUN pip3 install \
    numpy \
    matplotlib \
    scipy \
    Cython \
    POT \
    scikit-learn

# apt clean up
RUN apt autoremove && rm -rf /var/lib/apt/lists/*

RUN curl -LO "https://github.com/GUDHI/gudhi-devel/releases/download/tags%2Fgudhi-release-3.3.0/gudhi.3.3.0.tar.gz" \
&& tar xf gudhi.3.3.0.tar.gz \
&& cd gudhi.3.3.0 \
&& mkdir build && cd build && cmake -DCMAKE_BUILD_TYPE=Release -DWITH_GUDHI_PYTHON=OFF -DPython_ADDITIONAL_VERSIONS=3 ..  \
&& make all test install \
&& cmake -DWITH_GUDHI_PYTHON=ON . \
&& cd python \
&& python3 setup.py install