72 lines
1.7 KiB
Text
72 lines
1.7 KiB
Text
# syntax=docker/dockerfile:1
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FROM python:3.12-slim-bookworm
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LABEL org.opencontainers.image.source=https://github.com/juaml/junifer
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LABEL org.opencontainers.image.description="Junifer CI container image"
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LABEL org.opencontainers.image.licenses=AGPL-3.0-only
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RUN apt-get update && \
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apt-get install -y \
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pkg-config \
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gcc \
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git \
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make \
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curl \
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# ANTs runtime stuff
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libhdf5-dev \
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bc \
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# AFNI runtime stuff
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libf2c2-dev \
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libglew-dev \
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libglib2.0-dev \
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libglu1-mesa-dev \
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libglw1-mesa-dev \
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libgsl-dev \
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libgts-dev \
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libjpeg62-turbo-dev \
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libmotif-dev \
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libxi-dev \
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libxmhtml-dev \
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libxmu-dev \
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libxpm-dev \
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libxt-dev \
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netpbm \
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libjpeg-progs \
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qhull-bin \
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r-base \
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tcsh \
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xvfb \
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# FSL runtime stuff
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file \
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dc \
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libquadmath0 \
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libgomp1 \
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&& rm -rf /var/lib/apt/lists/*
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# Add junifer-data
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COPY --from=ghcr.io/juaml/junifer-data:v7 /opt/junifer-data /root/junifer_data/v7
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# Add ANTs
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COPY --from=antsx/ants:latest /opt/ants /opt/ants
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# Set env vars for ANTs
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ENV PATH="/opt/ants/bin:$PATH" \
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LD_LIBRARY_PATH="/opt/ants/lib"
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# Add AFNI
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COPY --from=afni/afni_make_build:latest /opt/afni/install /opt/afni/bin
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# Set env vars for AFNI
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ENV PATH="/opt/afni/bin:$PATH"
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# Patch gsl
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RUN ln -s /usr/lib/x86_64-linux-gnu/libgsl.so.27 /usr/lib/x86_64-linux-gnu/libgsl.so.23
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# Add FSL
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RUN curl https://fsl.fmrib.ox.ac.uk/fsldownloads/fslconda/releases/fslinstaller.py | \
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python - -d /opt/fsl/ --skip_registration
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# Set env vars for FSL
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ENV FSLDIR=/opt/fsl \
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FSLOUTPUTTYPE=NIFTI_GZ \
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PATH="/opt/fsl/share/fsl/bin:$PATH"
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# Clean apt cache
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RUN apt-get autoremove --purge && apt-get clean
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