ANTs.2.2.0.neurodocker-bionic.Dockerfile

FROM ghcr.io/fcp-indi/c-pac/ubuntu:bionic-non-free as ANTs
USER root

# install ANTs from Neurodocker
ENV LANG="en_US.UTF-8" \
    LC_ALL="en_US.UTF-8" \
    ANTSPATH="/usr/lib/ants/" \
    PATH="/usr/lib/ants:$PATH"

RUN sed -i -e 's/# en_US.UTF-8 UTF-8/en_US.UTF-8 UTF-8/' /etc/locale.gen \
    && dpkg-reconfigure --frontend=noninteractive locales \
    && update-locale LANG="en_US.UTF-8" \
    && chmod 777 /opt && chmod a+s /opt

RUN apt-get install -y \
    cmake \
    g++ \
    gcc \
    git \
    make \
    zlib1g-dev && \
    echo "Downloading ANTs ..." \
    && mkdir -p /usr/lib/ants \
    && curl -fsSL --retry 5 https://dl.dropbox.com/s/2f4sui1z6lcgyek/ANTs-Linux-centos5_x86_64-v2.2.0-0740f91.tar.gz \
    | tar -xz -C /usr/lib/ants --strip-components 1

# download OASIS templates for niworkflows-ants skullstripping
RUN mkdir /ants_template && \
    curl -sL https://s3-eu-west-1.amazonaws.com/pfigshare-u-files/3133832/Oasis.zip -o /tmp/Oasis.zip && \
    unzip /tmp/Oasis.zip -d /tmp &&\
    mv /tmp/MICCAI2012-Multi-Atlas-Challenge-Data /ants_template/oasis && \
    rm -rf /tmp/Oasis.zip /tmp/MICCAI2012-Multi-Atlas-Challenge-Data

ENTRYPOINT ["/bin/bash"]

# Link libraries for Singularity images
RUN ldconfig

RUN apt-get clean && \
    apt-get autoremove -y && \
    rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/*

FROM scratch
LABEL org.opencontainers.image.description "NOT INTENDED FOR USE OTHER THAN AS A STAGE IMAGE IN A MULTI-STAGE BUILD \
ANTs 2.2.0 stage"
LABEL org.opencontainers.image.source https://github.com/FCP-INDI/C-PAC
COPY --from=ANTs /usr/lib/ants/ /usr/lib/ants/
COPY --from=ANTs /ants_template /ants_template