miniforge variant added
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Nicolas
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fc692afc18
commit
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#!/bin/bash
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#variant to use conda insted of pip, tested
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#Src: https://medium.com/swlh/how-to-install-jupyterhub-using-conda-without-runing-as-root-and-make-it-a-service-59b843fead12
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# https://jupyterhub.readthedocs.io/en/1.2.1/installation-guide-hard.html
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set -e
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if [ "$EUID" -ne 0 ]
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then echo "Please run as root"
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exit
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fi
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CERTIFICATE_HOSTNAME=$1
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if [ -z "$CERTIFICATE_HOSTNAME" ]
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then
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echo "Please specify hostname for the certificate generation"
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exit
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fi
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#apt-get install -y --no-install-recommends libnvinfer7=7.1.3-1+cuda11.0 \
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# libnvinfer-dev=7.1.3-1+cuda11.0 \
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# libnvinfer-plugin7=7.1.3-1+cuda11.0
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#add public ssh keys
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#if [ ! -s "~/.ssh/authorized_keys" ]; then
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# cat id_*.pub >> ~/.ssh/authorized_keys
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#fi
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#echo ""
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#echo "Install supermicro system tools..."
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#apt-get update
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#apt-get install -y ipmitool && modprobe ipmi_devintf
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apt-get update
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apt-get install -y language-pack-de python3.10-venv
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echo "Install a recent notejs for jupyterhub from nodesource..."
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#src: https://github.com/nodesource/distributions/blob/master/README.md
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curl -fsSL https://deb.nodesource.com/setup_current.x | bash -
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apt-get install -y nodejs
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echo "create virtualenv and install JupyterHub..."
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python3 -m venv /opt/jupyterhub/
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/opt/jupyterhub/bin/python3 -m pip install wheel
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/opt/jupyterhub/bin/python3 -m pip install jupyterhub jupyterlab
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/opt/jupyterhub/bin/python3 -m pip install ipywidgets jupyterlab-git jupyter-server-proxy
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npm install -g configurable-http-proxy
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echo "setup jupyterhub config..."
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mkdir -p /opt/jupyterhub/etc/jupyterhub/
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cp jupyterhub_config_https.py /opt/jupyterhub/etc/jupyterhub/jupyterhub_config.py
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echo "setup systemd service..."
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mkdir -p /opt/jupyterhub/etc/systemd
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cp jupyterhub_conda.service /opt/jupyterhub/etc/systemd/jupyterhub.service
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ln -s /opt/jupyterhub/etc/systemd/jupyterhub.service /etc/systemd/system/jupyterhub.service
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systemctl daemon-reload
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systemctl enable jupyterhub.service
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echo "Generate self signed certificate..."
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mkdir -p /opt/jupyterhub/etc/jupyterhub/ssl-certs
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openssl req -x509 -newkey rsa:4096 -sha256 -days 3650 -nodes \
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-keyout /opt/jupyterhub/etc/jupyterhub/ssl-certs/jhubssl.key \
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-out /opt/jupyterhub/etc/jupyterhub/ssl-certs/jhubssl.crt \
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-subj "/C=DE/ST=NRW/L=na/O=na Systems/OU=Self_Signed/CN=$CERTIFICATE_HOSTNAME" \
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-addext "subjectAltName=DNS:$CERTIFICATE_HOSTNAME"
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#echo "jupyterhub.service status: (opens vim)"
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#systemctl status jupyterhub.service
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echo "Install conda..."
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CONDA_DIR=/opt/conda
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wget "https://github.com/conda-forge/miniforge/releases/latest/download/Miniforge3-$(uname)-$(uname -m).sh"
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bash Miniforge3-$(uname)-$(uname -m).sh -b -p $CONDA_DIR
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#symlinking the conda shell setup script to the profile ‘drop in’ folder so that it gets run on login:
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ln -s /opt/conda/etc/profile.d/conda.sh /etc/profile.d/conda.sh
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mkdir -p /opt/conda/envs/
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/opt/conda/bin/conda create --prefix /opt/conda/envs/default_python python=3.7 ipykernel --yes
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/opt/conda/envs/default_python/bin/python -m ipykernel install --prefix /usr/local/ --name 'default_python' --display-name "Python (default)"
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#install ofen used python packages for default environment
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/opt/conda/bin/conda install h5py tqdm pandas pillow matplotlib ipympl matplotlib pandas numpy --yes -n default_python
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/opt/conda/bin/conda install cantera --channel cantera --yes -n default_python
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#remove ipykernel for base enviroment:
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#jupyter kernelspec remove python3
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#users have to setup there kernel like this:
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#create conder enviroment:
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#conda create ipykernel --name mypersonal_enviroment
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#python -m ipykernel install --user --name mypersonal_enviroment --display-name "Python My Env"
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#conda install --yes jupyterhub jupyterlab notebook configurable-http-proxy jupyterlab-git jupyter-server-proxy
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#jupyter labextension install jupyter-matplotlib
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#echo "Install Tensorflow..."
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#conda install --yes tensorflow-gpu -c conda-forge
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#echo "Install common Python libs..."
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#conda install --yes h5py tqdm pandas ipywidgets pillow matplotlib ipympl opencv-python
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#Other tools:
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#System monitoring
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#echo "Install netdata..."
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#wget -O /tmp/netdata-kickstart.sh https://my-netdata.io/kickstart.sh && sh /tmp/netdata-kickstart.sh
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#echo "nvidia_smi: yes" >> /usr/lib/netdata/conf.d/python.d.conf
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#service netdata restart
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#on http://0.0.0.0:19999
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#echo "Install gpuview..."
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#/opt/jupyterhub/bin/python3 -m pip install gpuview
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#/opt/jupyterhub/bin/python3 -m gpuview service --host 127.0.0.1 --port 9988 <-- fails
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#echo "Disable services that delays startup by wating for network connectivity..."
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#systemctl disable cloud-config
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#systemctl disable cloud-final.service
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#systemctl disable iscsid.service
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#systemctl disable open-iscsi.service
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echo "Start JupyterHub..."
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systemctl start jupyterhub.service
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#sudo systemctl restart jupyterhub
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echo ""
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echo "Setup successfully finished"
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