This article will guide you to run Jupyter Notebook via Miniconda on a LANTA HPC system, which requires ssh tunneling to LANTA HPC.
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Creating an environment to run the Jupyter Notebook
Load Miniconda module
Use the
ml av Minicondacommand to see which version of Miniconda is available on the LANTA HPC system.Use the
ml Miniconda3/xx.xx.xcommand to load the Miniconda version that you want to use. If you don't specify a version, the default version (D) is loaded, which is Miniconda3/22.11.1-1.
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(myenv) username@lanta:~> conda install jupyter -y ... |
Running Jupyter Notebook via ssh tunneling
Example script for running Jupyter Notebook
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username@lanta:~> sbatch script.sh
username@lanta:~> cat slurm-xxxxx.out
Jupyter server is running on: x1000c2s0b0n0
Job starts at: Fri 24 Feb 2023 09:47:09 AM +07
Copy/Paste this in your local terminal to ssh tunnel with remote
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ssh -L 8714:x1000c2s0b0n0:8714 username@lanta.nstda.or.th -i id_rsa
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Open a browser on your local machine with the following address
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http://localhost:8714/?token=XXXXXXXX (see your token below)
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[W 09:47:12.019 NotebookApp] Loading JupyterLab as a classic notebook (v6) extension.
[W 2023-02-24 09:47:12.022 LabApp] 'port' has moved from NotebookApp to ServerApp. This config will be passed to ServerApp. Be sure to update your config before our next release.
[W 2023-02-24 09:47:12.022 LabApp] 'notebook_dir' has moved from NotebookApp to ServerApp. This config will be passed to ServerApp. Be sure to update your config before our next release.
[W 2023-02-24 09:47:12.022 LabApp] 'ip' has moved from NotebookApp to ServerApp. This config will be passed to ServerApp. Be sure to update your config before our next release.
[W 2023-02-24 09:47:12.022 LabApp] 'ip' has moved from NotebookApp to ServerApp. This config will be passed to ServerApp. Be sure to update your config before our next release.
[W 2023-02-24 09:47:12.022 LabApp] 'ip' has moved from NotebookApp to ServerApp. This config will be passed to ServerApp. Be sure to update your config before our next release.
[I 2023-02-24 09:47:12.025 LabApp] JupyterLab extension loaded from /lustrefs/disk/modules/easybuild/software/Miniconda3/22.11.1-1/envs/tensorflow-2.6.0/lib/python3.9/site-packages/jupyterlab
[I 2023-02-24 09:47:12.025 LabApp] JupyterLab application directory is /lustrefs/disk/modules/easybuild/software/Miniconda3/22.11.1-1/envs/tensorflow-2.6.0/share/jupyter/lab
[I 09:47:12.028 NotebookApp] Serving notebooks from local directory: /home/yutthana/thaisc/yutthana/Jupyter_Script
[I 09:47:12.028 NotebookApp] Jupyter Notebook 6.5.2 is running at:
[I 09:47:12.028 NotebookApp] http://x1000c2s0b0n0:8714/?token=2923d6fab4ef109f30e63a77014e632eed3fd2a5fa561929
[I 09:47:12.028 NotebookApp] or http://127.0.0.1:8714/?token=2923d6fab4ef109f30e63a77014e632eed3fd2a5fa561929
[I 09:47:12.029 NotebookApp] Use Control-C to stop this server and shut down all kernels (twice to skip confirmation).
[C 09:47:12.033 NotebookApp]
To access the notebook, open this file in a browser:
file:///lustrefs/disk/home/yutthana/.local/share/jupyter/runtime/nbserver-46789-open.html
Or copy and paste one of these URLs:
http://x1000c2s0b0n0:8714/?token=2923d6fab4ef109f30e63a77014e632eed3fd2a5fa561929
or http://127.0.0.1:8714/?token=2923d6fab4ef109f30e63a77014e632eed3fd2a5fa561929 |
2. Copy/Paste this in into your local terminal to ssh tunnel with remotefor ssh tunneling to LANTA HPC
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ssh -L 8714:x1000c2s0b0n0:8714 username@lanta.nstda.or.th -i id_rsa |
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http://127.0.0.1:8714/?token=2923d6fab4ef109f30e63a77014e632eed3fd2a5fa561929 |
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