Dockerfile

ENV DEBIAN_VERSION=buster-20200327
ENV ODGI_COMMIT=5e18490156f08368dae0b25a69e0cf5efa5427ca
ENV SPODGI_COMMIT=84a1af531e5381216eeb5035e284167ed886da21

FROM debian:${DEBIAN_VERSION} as odgi_build
WORKDIR "/tmp"
RUN DEBIAN_FRONTEND=noninteractive \
    && apt-get update -y \
    && apt-get install -y --no-install-recommends \
      build-essential \
      ca-certificates \
      cmake \
      git \
      python3-dev \
      zlib1g-dev \
    && rm -fr /var/lib/apt/lists/* && \
    && update-ca-certificates && \
    && git clone --recursive https://github.com/vgteam/odgi.git \
    && cd odgi \
    && git checkout "${ODGI_COMMIT}" \
    && cmake -H. -Bbuild \
    && cmake --build build -- -j 3 \
    && cp bin/odgi /usr/bin

WORKDIR "/tmp"
ENV PYTHONPATH=:/tmp/odgi/lib/
RUN DEBIAN_FRONTEND=noninteractive \
    && git clone https://github.com/pangenome/spodgi \
    && cd spodgi
    && git checkout "${SPODGI_COMMIT}" \
    && python3 setup.py install