Merge pull request #47 from carlos-encs/master

jupyter labs no container scripts.

src/jupyterlabs/README.md

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+<!-- TOC --><a name="README"></a>
+# README
+
+This directory has example scripts to run Jupyter Labs+conda+python without containers
+
+<!-- TOC --><a name="Preparation"></a>
+## Preparation
+After opening an interactive session (salloc)
+
+Run the script `firsttime.sh`, ONLY 1 time, it will
+- Create a /speed-scratch/$USER/Jupyter directory: change Jupyter to any name of your choice
+- Set environment variables for tmp directories and for CONDA_PKGS_DIRS 
+- Create a conda environmen named: jupyter-env (change it to any name of your choice)
+- Install JupyterLabs + pytorch
+- exit the interactive session
+
+## Execution
+After opening an interactive session (salloc)
+
+Run the script `run.sh`, everytime you want to execute jupyterlabs
+
+## Browsing
+After Execution, create an ssh tunnel (read https://nag-devops.github.io/speed-hpc/#jupyter-notebooks-in-singularity)
+
+Open a browser: http://localhost:XXXX/lab?token=XXXXXXXXXX
+
+## REMINDER
+Don't forget to setup the 2 scripts with the parameters of your choice
+Jupyter: directory, jupiter-env: environment name
+
+<!-- TOC end -->

src/jupyterlabs/firsttime.sh

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+#!/encs/bin/tcsh
+
+mkdir -p /speed-scratch/$USER/Jupyter
+module load anaconda3/2023.03/default
+setenv TMPDIR /speed-scratch/$USER/tmp
+setenv TMP /speed-scratch/$USER/tmp
+setenv CONDA_PKGS_DIRS /speed-scratch/$USER/Jupyter/pkgs
+conda create -p /speed-scratch/$USER/Jupyter/jupyter-env -y
+conda activate /speed-scratch/$USER/Jupyter/jupyter-env
+conda install -c conda-forge jupyterlab -y
+pip3 install --quiet torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu118
+exit

src/jupyterlabs/run.sh

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+#!/encs/bin/tcsh
+
+cd /speed-scratch/$USER/Jupyter
+module load anaconda3/2023.03/default
+setenv TMPDIR /speed-scratch/$USER/tmp
+setenv TMP /speed-scratch/$USER/tmp
+setenv CONDA_PKGS_DIRS /speed-scratch/$USER/Jupyter/pkgs
+conda activate /speed-scratch/$USER/Jupyter/jupyter-env
+jupyter lab --no-browser --notebook-dir=$PWD --ip="0.0.0.0" --port=8888 --port-retries=50
+