HPC MUSE2022 Workshop1

MUSE HPC 2022 Workshop #1

HPC Hands-On Labs

Hands-On Lab #1 - Logging into Open OnDemand

1. Login to ELSA's Open OnDemand web portal with your TCNJ login and password
   • Open browser and go to https://ondemand.hpc.tcnj.edu/
   • Create your home directory if necessary by following the on-screen instructions

Additional help for this tutorial can be found at Accessing the Cluster via Open OnDemand

Hands-On Lab #2 - Open a Terminal in Open OnDemand

1. Login to the Open OnDemand port if you're not already logged in
2. Using the Open OnDemand menu, go to Clusters and choose _ELSA OpenHPC Cluster Shell Access
3. Execute Linux commands at the terminal prompt, e.g. ls
4. When you are done with the terminal, type exit at the command prompt and close the browser tab

Additional help for this tutorial can be found at Accessing the Cluster via SSH using Open OnDemand

Hands-On Lab #3 - Running a Cluster Job

1. Open a terminal shell
2. Add the ELSA tutorial module module add elsa-tutorial
3. Run the ELSA tutorial setup script elsa-tutorial-setup.sh
4. Change to elsa-tutorial directory cd elsa-tutorial
5. Look at the a submit scripts cat submit-serial.sh
6. Look at the other two submit scripts in the tutorial directory using either cat or the Open OnDemand file manager
7. Edit the three submit scripts to change the email address to your email address. Use either nano or the Open OnDemand edit file option in the file manager
8. Run the serial job sbatch submit-serial.sh (this one can take 2-3 minutes to complete)
9. Review the job.jobnumber.out file cat job.####.out or use the Open OnDemand file manager to view the contents
10. Run the other two jobs (these run much faster)
11. Review the job output files for these jobs

Additional help for this tutorial can be found at Submitting Your First HPC Job

Hands-On Lab #4 - The Final Exam

1. Download the zip file from Another Pi Implementation to your computer
2. Unpack the zip on your local machine
3. Make a new folder in your ELSA cluster home directory (e.g. workshop1)
4. Upload at least the mpi-pi-numinteg program (optionally upload the other files) to the folder you created above
5. Copy the submit-mpi.sh script from the elsa-tutorial folder
6. Edit the copy to make any necessary changes
   • Change the command to run from mdart 50000 10000 to ./mpi-pi-numinteg
   • Use 2 nodes with 16 ntasks
7. Change permissions on the mpi-pi-numinteg program while in the Linux shell to make it executable
   • chmod +x mpi-pi-numinteg
8. Run the job by submitting it from the Linux shell
9. Review the job.jobnumber.out file