1. Home
  2. Sonic Cluster
  3. Running Jupyter Notebook (compute node)

Running Jupyter Notebook (compute node)

Running Jupyter Notebook on the compute node using Slurm

The step to run Jupyter Notebook on the compute node of the Cluster using Slurm:

step1: SSH to cluster
ssh <<usrname>>@<hostname>>

step2: Create a Slurm sbatch file
vi jupyter_cn_run.sub
(ref. sample slurm batch file)

step3: Submit this sbatch to Slurm
sbatch jupyter_cn_run.sub

step4: Check that your job is running
squeue -u $USER

step5: Once it is running you can continue. Wait for a few minutes for Jupyter to start. Check the log output file to find out the IP we need to use to create an SSH tunnel
cat ~/jupyter.log

step6: Then on your laptop, open a new Terminal and create an SSH tunnel
ssh -L8888:<<IP>>:8888 <<username>>@<<hostname>>
Important: You must replace the IP address in the command below with your IP address from step5

step7: On your laptop open a browser window and you can then browse to the link from the log file of step5 to open the Jupyter Notebook
http://127.0.0.1:8888/<<token>>

Sample Slurm batch file (jupyter_cn_run.sub)

#!/bin/bash
#
#SBATCH --job-name=jupyter_run
#SBATCH --partition=short
#SBATCH --ntasks=1
#SBATCH --time=00:05:00
#SBATCH --mem=10GB
#SBATCH --output=jupyter.log
##SBATCH --error=jupyter.err
#
source /share/anaconda3/bin/activate
export XDG_RUNTIME_DIR=""
#
echo "node ip: " `hostname -i`
#
date
jupyter lab --no-browser --ip=0.0.0.0 --port=8888
date
Was this article helpful to you? Yes No