Dockerfile-pyneuroml

# Base OS
FROM python:3.9-slim-buster

ARG VERSION=0.0.16
ARG SIMULATOR_VERSION="0.5.20"

# metadata
LABEL \
    org.opencontainers.image.title="pyNeuroML" \
    org.opencontainers.image.version="${SIMULATOR_VERSION}" \
    org.opencontainers.image.description="Python package for reading, writing, simulating and analysing NeuroML2/LEMS models" \
    org.opencontainers.image.url="https://github.com/NeuroML/pyNeuroML" \
    org.opencontainers.image.documentation="https://github.com/NeuroML/pyNeuroML/" \
    org.opencontainers.image.source="https://github.com/biosimulators/Biosimulators_pyNeuroML" \
    org.opencontainers.image.authors="BioSimulators Team <info@biosimulators.org>" \
    org.opencontainers.image.vendor="BioSimulators Team" \
    org.opencontainers.image.licenses="LGPL-3.0-only" \
    \
    base_image="python:3.9-slim-buster" \
    version="${VERSION}" \
    software="pyNeuroML" \
    software.version="${SIMULATOR_VERSION}" \
    about.summary="Python package for reading, writing, simulating and analysing NeuroML2/LEMS models" \
    about.home="https://github.com/NeuroML/pyNeuroML" \
    about.documentation="https://github.com/NeuroML/pyNeuroML/" \
    about.license_file="https://raw.githubusercontent.com/NeuroML/pyNeuroML/master/LICENSE.lesser" \
    about.license="SPDX:LGPL-3.0-only" \
    about.tags="computational neuroscience,biochemical networks,dynamical modeling,stochastic simulation,NeuroML,LEMS,SED-ML,COMBINE,OMEX,BioSimulators" \
    maintainer="BioSimulators Team <info@biosimulators.org>"

# Install requirements
RUN mkdir -p /usr/share/man/man1/ \
    && apt-get update -y \
    && apt-get install -y --no-install-recommends \
        default-jre \
    && apt-get autoremove -y \
    && rm -rf /var/lib/apt/lists/*

# fonts for matplotlib
RUN apt-get update -y \
    && apt-get install -y --no-install-recommends libfreetype6 \
    && rm -rf /var/lib/apt/lists/*

# Copy code for command-line interface into image and install it
COPY . /root/Biosimulators_pyNeuroML
RUN pip install /root/Biosimulators_pyNeuroML \
    && rm -rf /root/Biosimulators_pyNeuroML \
    && python -c "import matplotlib.font_manager"
RUN pip install "pyneuroml==${SIMULATOR_VERSION}"
ENV VERBOSE=0 \
    MPLBACKEND=PDF

# configure matplotlib
RUN mkdir -p /.cache/matplotlib \
    && mkdir -p /.config/matplotlib \
    && chmod ugo+rw /.config/matplotlib \
    && chmod ugo+rw /.cache/matplotlib

# Entrypoint
ENTRYPOINT ["biosimulators-pyneuroml"]
CMD []