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[FIX] update docker to new system #29

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Merged
36000 merged 1 commit into from
Jan 14, 2026
+2 −32
Merged

[FIX] update docker to new system #29

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34 changes: 2 additions & 32 deletions Dockerfile
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Original file line number Diff line number Diff line change
Expand Up @@ -5,18 +5,7 @@ SHELL ["/bin/bash", "-c"]

ENV DEBIAN_FRONTEND=noninteractive

RUN apt-get update && apt-get install --assume-yes apt-transport-https \
ca-certificates gnupg software-properties-common \
gcc git wget curl numactl
RUN apt install -y cmake libncurses5-dev libtinfo6

RUN wget https://github.com/Kitware/CMake/releases/download/v3.24.0/cmake-3.24.0-linux-x86_64.sh \
-O /tmp/cmake-install.sh \
&& chmod +x /tmp/cmake-install.sh \
&& mkdir /opt/cmake \
&& /tmp/cmake-install.sh --skip-license --prefix=/opt/cmake \
&& rm /tmp/cmake-install.sh
ENV PATH=/opt/cmake/bin:${PATH}
RUN apt-get update && apt-get install --assume-yes curl

RUN curl -L "https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh" \
-o "/tmp/Miniconda3.sh"
Expand All @@ -26,24 +15,5 @@ RUN cd /opt && eval "$(/opt/anaconda/bin/conda shell.bash hook)"
ENV PATH=/opt/anaconda/bin:${PATH}
ENV LD_LIBRARY_PATH=/opt/anaconda/lib:${LD_LIBRARY_PATH}

# python prereqs
RUN conda tos accept --override-channels --channel conda-forge
RUN conda tos accept --override-channels --channel https://repo.anaconda.com/pkgs/main
RUN conda tos accept --override-channels --channel https://repo.anaconda.com/pkgs/r
RUN conda install -c conda-forge git
RUN pip install numpy>=2.0.0
RUN pip install scipy>=1.13.0 cython nibabel dipy tqdm
RUN pip install pybind11

COPY . /opt/GPUStreamlines/

# compile
RUN cd /opt/GPUStreamlines && mkdir build && cd build \
&& cmake -DCMAKE_INSTALL_PREFIX=/opt/exec/ \
-DCMAKE_BUILD_TYPE=Release \
-DCMAKE_CXX_COMPILER=g++ \
-DPYTHON_EXECUTABLE=$(which python) \
.. \
&& make && make install

WORKDIR /opt/exec
RUN cd /opt/GPUStreamlines && pip install .
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