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gpu-cu102.Dockerfile
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# Generated by Neurodocker and Reproenv.
FROM nvcr.io/nvidia/cuda:10.2-base-ubuntu18.04
ENV LANG="en_US.UTF-8" \
LC_ALL="en_US.UTF-8" \
ND_ENTRYPOINT="/neurodocker/startup.sh"
RUN export ND_ENTRYPOINT="/neurodocker/startup.sh" \
&& apt-get update -qq \
&& apt-get install -y -q --no-install-recommends \
apt-utils \
bzip2 \
ca-certificates \
curl \
locales \
unzip \
&& rm -rf /var/lib/apt/lists/* \
&& 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 \
&& mkdir -p /neurodocker \
&& if [ ! -f "$ND_ENTRYPOINT" ]; then \
echo '#!/usr/bin/env bash' >> "$ND_ENTRYPOINT" \
&& echo 'set -e' >> "$ND_ENTRYPOINT" \
&& echo 'export USER="${USER:=`whoami`}"' >> "$ND_ENTRYPOINT" \
&& echo 'if [ -n "$1" ]; then "$@"; else /usr/bin/env bash; fi' >> "$ND_ENTRYPOINT"; \
fi \
&& chmod -R 777 /neurodocker && chmod a+s /neurodocker
ENV DEBIAN_FRONTEND="noninteractive"
RUN chmod 777 /tmp
RUN apt-get update -qq \
&& apt-get install -y -q --no-install-recommends \
build-essential \
ca-certificates \
git \
netbase \
&& rm -rf /var/lib/apt/lists/*
ENV CONDA_DIR="/opt/miniconda-py310_25.1.1-2" \
PATH="/opt/miniconda-py310_25.1.1-2/bin:$PATH"
RUN apt-get update -qq \
&& apt-get install -y -q --no-install-recommends \
bzip2 \
ca-certificates \
curl \
&& rm -rf /var/lib/apt/lists/* \
# Install dependencies.
&& export PATH="/opt/miniconda-py310_25.1.1-2/bin:$PATH" \
&& echo "Downloading Miniconda installer ..." \
&& conda_installer="/tmp/miniconda.sh" \
&& curl -fsSL -o "$conda_installer" https://repo.continuum.io/miniconda/Miniconda3-py310_25.1.1-2-Linux-x86_64.sh \
&& bash "$conda_installer" -b -p /opt/miniconda-py310_25.1.1-2 \
&& rm -f "$conda_installer" \
# Prefer packages in conda-forge
&& conda config --system --prepend channels conda-forge \
# Packages in lower-priority channels not considered if a package with the same
# name exists in a higher priority channel. Can dramatically speed up installations.
# Conda recommends this as a default
# https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-channels.html
&& conda config --set channel_priority strict \
&& conda config --system --set auto_update_conda false \
&& conda config --system --set show_channel_urls true \
# Enable `conda activate`
&& conda init bash \
&& conda install -y --name base \
"gxx_linux-64" \
"notebook" \
"jupyterlab" \
"numpy<2" \
"git-annex" \
"ipywidgets" \
# Clean up
&& sync && conda clean --all --yes && sync \
&& rm -rf ~/.cache/pip/*
RUN chmod 777 /opt/miniconda-py310_25.1.1-2/share
RUN python -m pip install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu102
RUN test "$(getent passwd voxelwise)" \
|| useradd --no-user-group --create-home --shell /bin/bash voxelwise
USER voxelwise
WORKDIR /home/voxelwise
RUN git clone https://github.com/gallantlab/voxelwise_tutorials.git --depth 1
RUN python -m pip install voxelwise_tutorials
RUN git config --global user.email '[email protected]'
RUN git config --global user.name 'Your Name'
WORKDIR /home/voxelwise/voxelwise_tutorials/tutorials/notebooks/shortclips
ENTRYPOINT ["/neurodocker/startup.sh"]
# Save specification to JSON.
USER root
RUN printf '{ \
"pkg_manager": "apt", \
"existing_users": [ \
"root" \
], \
"instructions": [ \
{ \
"name": "from_", \
"kwds": { \
"base_image": "nvcr.io/nvidia/cuda:10.2-base-ubuntu18.04" \
} \
}, \
{ \
"name": "env", \
"kwds": { \
"LANG": "en_US.UTF-8", \
"LC_ALL": "en_US.UTF-8", \
"ND_ENTRYPOINT": "/neurodocker/startup.sh" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "export ND_ENTRYPOINT=\\"/neurodocker/startup.sh\\"\\napt-get update -qq\\napt-get install -y -q --no-install-recommends \\\\\\n apt-utils \\\\\\n bzip2 \\\\\\n ca-certificates \\\\\\n curl \\\\\\n locales \\\\\\n unzip\\nrm -rf /var/lib/apt/lists/*\\nsed -i -e '"'"'s/# en_US.UTF-8 UTF-8/en_US.UTF-8 UTF-8/'"'"' /etc/locale.gen\\ndpkg-reconfigure --frontend=noninteractive locales\\nupdate-locale LANG=\\"en_US.UTF-8\\"\\nchmod 777 /opt && chmod a+s /opt\\nmkdir -p /neurodocker\\nif [ ! -f \\"$ND_ENTRYPOINT\\" ]; then\\n echo '"'"'#!/usr/bin/env bash'"'"' >> \\"$ND_ENTRYPOINT\\"\\n echo '"'"'set -e'"'"' >> \\"$ND_ENTRYPOINT\\"\\n echo '"'"'export USER=\\"${USER:=`whoami`}\\"'"'"' >> \\"$ND_ENTRYPOINT\\"\\n echo '"'"'if [ -n \\"$1\\" ]; then \\"$@\\"; else /usr/bin/env bash; fi'"'"' >> \\"$ND_ENTRYPOINT\\";\\nfi\\nchmod -R 777 /neurodocker && chmod a+s /neurodocker" \
} \
}, \
{ \
"name": "env", \
"kwds": { \
"DEBIAN_FRONTEND": "noninteractive" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "chmod 777 /tmp" \
} \
}, \
{ \
"name": "install", \
"kwds": { \
"pkgs": [ \
"build-essential", \
"git", \
"ca-certificates", \
"netbase" \
], \
"opts": null \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "apt-get update -qq \\\\\\n && apt-get install -y -q --no-install-recommends \\\\\\n build-essential \\\\\\n ca-certificates \\\\\\n git \\\\\\n netbase \\\\\\n && rm -rf /var/lib/apt/lists/*" \
} \
}, \
{ \
"name": "env", \
"kwds": { \
"CONDA_DIR": "/opt/miniconda-py310_25.1.1-2", \
"PATH": "/opt/miniconda-py310_25.1.1-2/bin:$PATH" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "apt-get update -qq\\napt-get install -y -q --no-install-recommends \\\\\\n bzip2 \\\\\\n ca-certificates \\\\\\n curl\\nrm -rf /var/lib/apt/lists/*\\n# Install dependencies.\\nexport PATH=\\"/opt/miniconda-py310_25.1.1-2/bin:$PATH\\"\\necho \\"Downloading Miniconda installer ...\\"\\nconda_installer=\\"/tmp/miniconda.sh\\"\\ncurl -fsSL -o \\"$conda_installer\\" https://repo.continuum.io/miniconda/Miniconda3-py310_25.1.1-2-Linux-x86_64.sh\\nbash \\"$conda_installer\\" -b -p /opt/miniconda-py310_25.1.1-2\\nrm -f \\"$conda_installer\\"\\n# Prefer packages in conda-forge\\nconda config --system --prepend channels conda-forge\\n# Packages in lower-priority channels not considered if a package with the same\\n# name exists in a higher priority channel. Can dramatically speed up installations.\\n# Conda recommends this as a default\\n# https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-channels.html\\nconda config --set channel_priority strict\\nconda config --system --set auto_update_conda false\\nconda config --system --set show_channel_urls true\\n# Enable `conda activate`\\nconda init bash\\nconda install -y --name base \\\\\\n \\"gxx_linux-64\\" \\\\\\n \\"notebook\\" \\\\\\n \\"jupyterlab\\" \\\\\\n \\"numpy<2\\" \\\\\\n \\"git-annex\\" \\\\\\n \\"ipywidgets\\"\\n# Clean up\\nsync && conda clean --all --yes && sync\\nrm -rf ~/.cache/pip/*" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "chmod 777 /opt/miniconda-py310_25.1.1-2/share" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "python -m pip install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu102" \
} \
}, \
{ \
"name": "user", \
"kwds": { \
"user": "voxelwise" \
} \
}, \
{ \
"name": "workdir", \
"kwds": { \
"path": "/home/voxelwise" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "git clone https://github.com/gallantlab/voxelwise_tutorials.git --depth 1" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "python -m pip install voxelwise_tutorials" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "git config --global user.email '"'"'[email protected]'"'"'" \
} \
}, \
{ \
"name": "run", \
"kwds": { \
"command": "git config --global user.name '"'"'Your Name'"'"'" \
} \
}, \
{ \
"name": "workdir", \
"kwds": { \
"path": "/home/voxelwise/voxelwise_tutorials/tutorials/notebooks/shortclips" \
} \
}, \
{ \
"name": "entrypoint", \
"kwds": { \
"args": [ \
"/neurodocker/startup.sh" \
] \
} \
} \
] \
}' > /.reproenv.json
USER voxelwise
# End saving to specification to JSON.