FROM ubuntu:focal
LABEL maintainer="guillaume.postic@univ-evry.fr"

RUN apt-get -qy update && \
    apt-get -qy install \
    make \
    cmake \
    gcc \
    g++ \
    libx11-dev \
    libboost-dev

RUN apt-get -qy install libeigen3-dev libperl5.30

# Useful installs and settings when running Docker in interactive mode
  # Set timezone
ENV TZ=Europe/Paris
RUN ln -snf /usr/share/zoneinfo/$TZ /etc/localtime && echo $TZ > /etc/timezone
  # Other packages
RUN apt-get remove -qy vim-tiny && \
    apt-get -qy install \
    vim \
    wget \
    htop \
    screen \
    python3 \
    git \
    bash-completion && \
    apt-get autoremove -qy && \
    apt-get clean && \
    rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/*

  # Extend bash history
RUN sed -i 's/HISTSIZE\=1000/HISTSIZE\=1000000/' /root/.bashrc && \
    sed -i 's/HISTFILESIZE\=2000/HISTFILESIZE\=2000000/' /root/.bashrc
  # Modify .bashrc for (improved) autocompletion
RUN sed -i '/^#.*bash_completion/s/^#//' /root/.bashrc && \
    sed -i '$ s/^#//' /root/.bashrc
  # Change the default shell in screen to bash
RUN echo "shell \"/bin/bash\"" > /root/.screenrc
  # Vim: default syntax highlighting + highlight search
RUN echo "colorscheme default" > /root/.vimrc
RUN echo "set hlsearch" >> /root/.vimrc

# ---------------------------
# Install external librairies
# ---------------------------
COPY extlib/* /tmp/

  # Install IBM ILOG CPLEX Optimization Studio
RUN printf "\n\n1\n\n\n\n\n2\n\n" | /tmp/cplex_studio2210.linux_x86_64.bin

  # Install NUPACK
RUN cd /tmp && \
    tar -xzf nupack3.2.2.tar.gz && \
    cd nupack3.2.2 && \
    mkdir build && \
    cd build && \
    cmake ../ && \
    make && \
    make install

  # Install ViennaRNA
RUN cd /tmp && \
    tar -xzf ViennaRNA-2.5.1.tar.gz && \
    cd ViennaRNA-2.5.1 && \
    ./configure && \
    make && \
    make install

RUN rm -rf /tmp/*

# ----------------
# Install C-RCPred
# ----------------
COPY test/ /home/test
COPY src/ /home/src
COPY Makefile /home/
RUN cd /home && make