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#########################################################
# file-normalizer stage
# In order to use BuildKit remote caching, input files must have
# not only the right content hash, but also the right permissions.
# Git only tracks whether the owner can execute a file.
# Here we bring in all files that are going to be used in the
# subsequent stage and normalize the permissions.
#########################################################
FROM mcr.microsoft.com/oss/busybox/busybox:1.33.1 AS file-normalizer
COPY environment.yml .devcontainer/devcontainer.bashrc /data/
RUN chmod -R 555 /data/
RUN mkdir -p /entrypoints
COPY docker/entrypoint.sh /entrypoints/
COPY docker/entrypoint-stream.sh /entrypoints/
RUN sed -i 's/\r$//' /entrypoints/*.sh
RUN chmod +x /entrypoints/*.sh
FROM mcr.microsoft.com/devcontainers/base:ubuntu-24.04 AS basecontainer
# Install needed packages and setup non-root user.
ARG USERNAME="vscode"
ARG USER_UID=1000
ARG USER_GID=$USER_UID
ARG CONDA_GID=900
ARG CONDA_ENVIRONMENT_NAME=ismrmrd
RUN apt-get update && apt-get install -y \
libc6-dbg \
&& rm -rf /var/lib/apt/lists/*
ARG MINIFORGE_VERSION=25.11.0-1
# Based on https://github.com/conda-forge/miniforge-images/blob/master/ubuntu/Dockerfile
RUN wget --no-hsts --quiet https://github.com/conda-forge/miniforge/releases/download/${MINIFORGE_VERSION}/Miniforge3-${MINIFORGE_VERSION}-Linux-$(uname -m).sh -O /tmp/miniforge.sh \
&& /bin/bash /tmp/miniforge.sh -b -p /opt/conda \
&& rm /tmp/miniforge.sh \
&& /opt/conda/bin/conda clean --tarballs --index-cache --packages --yes \
&& find /opt/conda -follow -type f -name '*.a' -delete \
&& find /opt/conda -follow -type f -name '*.pyc' -delete \
&& /opt/conda/bin/conda clean --force-pkgs-dirs --all --yes \
&& groupadd -r conda --gid ${CONDA_GID} \
&& usermod -aG conda ${USERNAME} \
&& chown -R :conda /opt/conda \
&& chmod -R g+w /opt/conda \
&& find /opt -type d | xargs -n 1 chmod g+s
FROM basecontainer AS devcontainer
ARG USER_UID
ARG USER_GID
# Create a conda environment from the environment file in the repo root.
COPY --from=file-normalizer --chown=$USER_UID:conda /data/environment.yml /tmp/build/
RUN umask 0002 \
&& /opt/conda/bin/conda env create -f /tmp/build/environment.yml \
&& /opt/conda/bin/conda clean -fy \
&& sudo chown -R :conda /opt/conda/envs
# Add a file that is to be sourced from .bashrc and from the devops pipeline stages
COPY --from=file-normalizer /data/devcontainer.bashrc /opt/devcontainer/
# Add a section to /etc/bash.bashrc that ensures that a section is present at the end of ~/.bashrc.
# We can't just write to .bashrc from here because it will be overwritten if the devcontainer user has
# opted to use their own dotfiles repo. The dotfiles repo is cloned after the postCreateCommand
# in the devcontainer.json file is executed.
RUN echo "\n\
if ! grep -q \"^source /opt/devcontainer/devcontainer.bashrc\" \${HOME}/.bashrc; then\n\
echo \"source /opt/devcontainer/devcontainer.bashrc\" >> \${HOME}/.bashrc\n\
fi\n" >> /etc/bash.bashrc
ENV CMAKE_GENERATOR=Ninja
# Create a kits file for the VSCode CMake Tools extension, so you are not prompted for which kit to select whenever you open VSCode
RUN mkdir -p /home/vscode/.local/share/CMakeTools \
&& echo '[{"name":"GCC-15","compilers":{"C":"/opt/conda/envs/ismrmrd/bin/x86_64-conda-linux-gnu-gcc","CXX":"/opt/conda/envs/ismrmrd/bin/x86_64-conda-linux-gnu-g++"}}]' > /home/vscode/.local/share/CMakeTools/cmake-tools-kits.json \
&& chown vscode:conda /home/vscode/.local/share/CMakeTools/cmake-tools-kits.json
FROM devcontainer AS ismrmrd-build
ARG USER_UID
ARG USER_GID
SHELL ["/bin/bash", "-c"]
COPY --chown=$USER_UID:$USER_GID . /opt/code/ismrmrd/
RUN . /opt/conda/etc/profile.d/conda.sh && umask 0002 && conda activate ismrmrd && mkdir -p /opt/package && \
cd /opt/code/ismrmrd && \
mkdir build && \
cd build && \
cmake -GNinja -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=/opt/package ../ && \
ninja && \
ninja install
FROM ismrmrd-build AS ismrmrd-test
ENTRYPOINT [ "/opt/code/ismrmrd/docker/entrypoint.sh", "python", "/opt/code/ismrmrd/docker/validate_results.py" ]
FROM basecontainer AS ismrmrd
ARG USER_UID
RUN apt-get update && apt-get install -y socat \
&& rm -rf /var/lib/apt/lists/*
COPY --from=file-normalizer --chown=$USER_UID:conda /data/environment.yml /tmp/build/
RUN grep -v "#.*\<dev\>" /tmp/build/environment.yml > /tmp/build/filtered_environment.yml \
&& mv /tmp/build/filtered_environment.yml /tmp/build/environment.yml \
&& umask 0002 \
&& /opt/conda/bin/conda env create -f /tmp/build/environment.yml \
&& /opt/conda/bin/conda clean -fy \
&& sudo chown -R :conda /opt/conda/envs
COPY --from=ismrmrd-build --chown=$USER_UID:conda /opt/package /opt/conda/envs/ismrmrd/
COPY --from=file-normalizer --chown=$USER_UID:conda /entrypoints/entrypoint.sh /opt/
COPY --from=file-normalizer --chown=$USER_UID:conda /entrypoints/entrypoint-stream.sh /opt/
ENTRYPOINT [ "/opt/entrypoint.sh" ]
FROM ismrmrd AS ismrmrd-stream-recon
ENTRYPOINT [ "/opt/entrypoint-stream.sh" ]
FROM ismrmrd AS ismrmrd-stream-recon-server
ENTRYPOINT [ "/opt/entrypoint-stream.sh", "--socket-port", "9002" ]
EXPOSE 9002
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