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update install micromamba shell script

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hotwa
2024-02-24 17:38:00 +08:00
parent e0ff4e6ba6
commit 57ee612b16
5 changed files with 248 additions and 97 deletions
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spawnerdockerfile/Dockerfile.base-notebook
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@@ -79,6 +79,7 @@ ARG HOME="/home/${CREATE_USER}"
ARG DEBIAN_FRONTEND="noninteractive"
ENV DEBIAN_FRONTEND=${DEBIAN_FRONTEND}
COPY install.sh /tmp
RUN <<EOT
#!/bin/bash
# 更新软件源
@@ -95,10 +96,12 @@ useradd -m -s /bin/bash ${CREATE_USER}
echo "${CREATE_USER}:${CREATE_USER_PASSWD}" | chpasswd
echo "${CREATE_USER} ALL=(ALL:ALL) NOPASSWD:ALL" >> /etc/sudoers
# 安装micromamba
echo 1 | bash <(curl -s https://cdn.jsdelivr.net/gh/hotwa/MicroMamba_Installer@main/install.sh)
echo "1" | bash /tmp/install.sh
mkdir -p /home/${CREATE_USER}/micromamba
chown -R ${NB_UID}:${NB_GID} /home/${CREATE_USER}/micromamba
# 安装 Jupyter 和相关软件
npm install -g configurable-http-proxy
python3 -m pip install jupyterhub jupyterlab notebook radian pycurl jupyter-rsession-proxy ipykernel jupyterlab-language-pack-zh-CN jupyterlab-git jupyterlab-system-monitor jupyter_nbextensions_configurator jupyter_contrib_nbextensions jupyterlab_widgets jupyterlab-drawio jupyterlab-spreadsheet-editor jupyterlab-cell-flash jedi-language-server jupyterlab_code_formatter jupyterlab-spellchecker jupyterlab_vim nbresuse ipydrawio jedi ipympl black isort theme-darcula ipywidgets tensorboard jupyterlab_latex jupyter_bokeh autopep8 xeus-python jupyterlab-lsp python-lsp-server nglview dockerspawner jupyterhub-nativeauthenticator lckr_jupyterlab_variableinspector -i http://mirrors.aliyun.com/pypi/simple/ --trusted-host mirrors.aliyun.com
python3 -m pip install jupyterhub jupyterlab notebook radian pycurl jupyter-rsession-proxy ipykernel>=6.25.0 jupyterlab-language-pack-zh-CN jupyterlab-git jupyterlab-system-monitor jupyter_nbextensions_configurator jupyter_contrib_nbextensions jupyterlab_widgets jupyterlab-drawio jupyterlab-spreadsheet-editor jupyterlab-cell-flash jedi-language-server jupyterlab_code_formatter jupyterlab-spellchecker jupyterlab_vim nbresuse ipydrawio jedi ipympl black isort theme-darcula ipywidgets tensorboard jupyterlab_latex jupyter_bokeh autopep8 xeus-python jupyterlab-lsp python-lsp-server nglview dockerspawner jupyterhub-nativeauthenticator lckr_jupyterlab_variableinspector -i http://mirrors.aliyun.com/pypi/simple/ --trusted-host mirrors.aliyun.com
EOT
RUN <<EOT
@@ -124,14 +127,6 @@ EOT
# Switch back to jovyan to avoid accidental container runs as root
USER ${NB_UID}
ENV MAMBA_ROOT_PREFIX=/home/${CREATE_USER}/micromamba
RUN <<EOT
#!/bin/bash
sudo apt update
sudo apt install -y texlive-full
micromamba create -n plot -c conda-forge scienceplots autopep8 python=3 ipykernel pandas numpy matplotlib scipy seaborn orange3 -y
micromamba run -n plot python -m pip install bamboolib
micromamba run -n plot python -m ipykernel install --user --name="sciplot" --display-name="SCIPlot Environment"
EOT
# install mojo
ENV PATH="/home/${CREATE_USER}/.local/bin:$PATH"
@@ -152,15 +147,6 @@ modular auth $AUTH_KEY
modular install mojo
EOT
RUN <<EOT
#!/bin/bash
micromamba create -n mixtral_env -c conda-forge ipykernel -y
git clone https://github.com/Lightning-AI/lit-gpt.git
cd lit-gpt
micromamba run -n mixtral_env python -m pip install -r requirements.txt
micromamba run -n mixtral_env python -m ipykernel install --user --name="mixtral" --display-name="mixtral Environment"
EOT
# Install Rust
ENV PATH="/home/${CREATE_USER}/.cargo/bin:$PATH"
RUN <<EOT
@@ -171,11 +157,5 @@ cargo install evcxr_jupyter
evcxr_jupyter --install
EOT
RUN <<EOT
#!/bin/bash
micromamba create -n mdgnn -c pytorch -c conda-forge python=3.9 pytorch=1.10.2 torchvision torchaudio cudatoolkit=11.3 pandas matplotlib seaborn scipy numpy=1.24.4 mdanalysis biopandas pymol-open-source ipykernel ipywidgets jupyter einops python-calamine scikit-learn -y
micromamba run -n mdgnn python -m ipykernel install --user --name="mdgnn" --display-name="mdgnn Environment"
EOT
WORKDIR "${HOME}"
WORKDIR "${HOME}"