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Update container image for compatibility with workflows system #596

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Merged
merged 2 commits into from
Jun 4, 2025
Merged

Update container image for compatibility with workflows system #596

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6790573
Remove use of `root` user in Dockerfile
yousefmoazzam Jun 4, 2025
a7475cb
Replace micromamba CUDA deploy container image with generic CUDA image
yousefmoazzam Jun 4, 2025
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8 changes: 2 additions & 6 deletions Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,9 +1,5 @@
FROM mambaorg/micromamba:2.0.8-debian12-slim AS build

USER root

RUN apt update && apt install -y git && apt clean

RUN micromamba install -y python=3.11 blas[build=mkl] 'numpy<2' scipy scikit-image tqdm pyyaml pillow click cuda-version=12.8
RUN micromamba install -y openmpi=4.1.6 mpi
RUN micromamba install -y h5py[build=*openmpi*] hdf5plugin
Expand All @@ -20,8 +16,8 @@ RUN micromamba clean -y --all --force-pkgs-dirs
COPY . .
RUN micromamba run python -m pip install --no-deps .

FROM mambaorg/micromamba:cuda12.8.1-ubuntu22.04 AS deploy
FROM nvidia/cuda:12.8.1-base-ubuntu22.04 AS deploy

COPY --from=build /opt/conda /opt/conda

ENTRYPOINT ["micromamba", "run", "python", "-m", "httomo", "run"]
ENTRYPOINT ["/opt/conda/bin/python", "-m", "httomo", "run"]
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