Dockerfile

FROM openjdk:8

LABEL authors="will.rowe@stfc.ac.uk" \
    description="Docker image containing all requirements for drax pipeline"

# Install container-wide requrements gcc, pip, zlib, libssl, make, libncurses, fortran77, g++, R
RUN apt-get update && \
    apt-get install -y --no-install-recommends \
        g++ \
        gcc \
        gfortran \
        libbz2-dev \
        libcurl4-openssl-dev \
        libgsl-dev \
        libgsl2 \
        liblzma-dev \
        libncurses5-dev \
        libpcre3-dev \
        libreadline-dev \
        libssl-dev \
        make \
        python-dev \
        zlib1g-dev \
    && rm -rf /var/lib/apt/lists/*

# Install pip
RUN curl -fsSL https://bootstrap.pypa.io/get-pip.py -o /opt/get-pip.py && \
    python /opt/get-pip.py && \
    rm /opt/get-pip.py

# Install conda and install what we can
RUN echo 'export PATH=/opt/conda/bin:$PATH' > /etc/profile.d/conda.sh && \
    wget --quiet https://repo.continuum.io/miniconda/Miniconda3-4.3.31-Linux-x86_64.sh -O ~/miniconda.sh && \
    /bin/bash ~/miniconda.sh -b -p /opt/conda && \
    rm ~/miniconda.sh
ENV PATH /opt/conda/bin:$PATH
RUN conda config --add channels defaults && \
    conda config --add channels conda-forge && \
    conda config --add channels bioconda
RUN curl -fsSL https://raw.githubusercontent.com/will-rowe/drax/master/drax-conda-environment.yml -o drax-conda-environment.yml
RUN conda install -y --file drax-conda-environment.yml