flappie ubuntu 18.04 docker

Dockerfile

FROM ubuntu:18.04
RUN groupadd -g 1001 -r flappie && useradd -r -u 999 -g flappie flappie

# Install flappie
RUN apt-get update \
    && apt-get install -y libcunit1 libhdf5-100 libopenblas-base cmake libcunit1-dev libhdf5-dev libopenblas-dev git git-lfs \
    && git lfs install \
    && git clone https://github.com/nanoporetech/flappie \
    && cd flappie \
    && git lfs install \
    && make flappie

# Remove devtools
RUN apt-get remove -y build-essential cmake libcunit1-dev libhdf5-dev libopenblas-dev \
    && apt-get autoremove -y \
    && apt-get clean

RUN cp /flappie/build/flappie /usr/local/bin/
USER flappie:flappie
ENTRYPOINT ["flappie"]

You don't need to set up a port mapping, just a mount for where your data is, so something like:

docker run <image id> -v <host dir>:/data  /data

will run flappie on the data in your <host dir>. The docker documentation has a wealth on information concerning the running of containers.