social-data-attribution-w2/docs/slurm_example.md

PACE-Instructions

PACE is not that difficult to use. Here's one possible way to do it. Jobs on PACE can be ran on CPU or GPU.

Steps:

1. Create job script.

2. Create slurm script

3. Upload your files

4. SSH into PACE, submit slurm script to queue

5. Wait

6. Get results

7. (Optional) Using interactive sessions

8. You have some file that does a job you want on the cluster. Let’s call it test.py.

9. Make a Slurm script. Slurm scripts have a .sub extension.

This is an example of what would be in a slurm script. In the cluster, it should be added to same folder as the job you want to put in queue.

============ #!/bin/bash #SBATCH -JSlurmPythonExample # Job name #SBATCH --account=hive-gburdell3 # Tracking account #SBATCH -n4 # Number of cores required #SBATCH --mem-per-cpu=1G # Memory per core #SBATCH -t15 # Duration of the job (Ex: 15 mins) #SBATCH -phive # Queue name (where job is submitted) #SBATCH -oReport-%j.out # Combined output and error messages file #SBATCH --mail-type=BEGIN,END,FAIL # Mail preferences #SBATCH --mail-user=gburdell3@gatech.edu # E-mail address for notifications cd $SLURM_SUBMIT_DIR # Change to working directory

module load anaconda3/2022.05 # Load module dependencies srun python test.py # Example Process

============== The above is a slurm script that does not request GPU. The below requests GPU. Note the different options.

#!/bin/bash #SBATCH -JGPUExample # Job name #SBATCH -Ahive-gburdell3 # Charge account #SBATCH -N1 --gres=gpu:1 # Number of nodes and GPUs required #SBATCH --gres-flags=enforce-binding # Map CPUs to GPUs #SBATCH --mem-per-gpu=12G # Memory per gpu #SBATCH -t15 # Duration of the job (Ex: 15 mins) #SBATCH -phive-gpu # Partition name (where job is submitted) #SBATCH -oReport-%j.out # Combined output and error messages file #SBATCH --mail-type=BEGIN,END,FAIL # Mail preferences #SBATCH --mail-user=gburdell3@gatech.edu # e-mail address for notifications

cd $HOME/slurm_gpu_example # Change to working directory created in $HOME

module load tensorflow-gpu/2.9.0 # Load module dependencies srun python $TENSORFLOWGPUROOT/testgpu.py gpu 1000 # Run test example

============== Now you have your beautiful scripts. Add them to the cluster.

3. Make a directory on the cluster to hold this file: ssh [your_gatech_name]@login-ice.pace.gatech.edu mkdir -p yourusername/yourdirectory

Copy your local file(s) to the cluster scp -r test.py slurm.sub [your_gatech_name]@login-ice.pace.gatech.edu:yourusername/yourdirectory

***Beware. Before scp * ing all your local files to PACE, know what files are in the directory you are in. ***

4. SSH to PACE ssh [your_gatech_name]@login-ice.pace.gatech.edu Cd your way to your directory where you uploaded the files. Submit the sbatch file to pace with “sbatch slurm.sub”

5. Wait patiently.

You can check the status of your job with the “squeue” command.

6. After you see that the job is finished, the results will in the directory of the slurm job (or wherever you instructed it to output results).

7. Let’s say you don’t want to submit an sbatch job, you want to run an interactive GPU session. You can do this in the command line or via an .sh script. Command line: salloc -A hive-gburdell3 -N1 --mem-per-gpu=12G -phive-gpu-short -t0:15:00 --gres=gpu:1 --gres-flags=enforce-binding This is allocating for an interactive job using the hive-gburdell3 account on the gpu-short queue.

It will send a response such as: salloc: Pending job allocation 1187 salloc: job 1187 queued and waiting for resources

You will then wait until the request is available to you.

salloc: job 1187 has been allocated resources salloc: Granted job allocation 1187 salloc: Waiting for resource configuration salloc: Nodes atl1-1-03-002-35 are ready for job

Begin Slurm Prolog: Aug-03-2022 08:01:10 Job ID: 1187 User ID: gburdell3 Account: hive-gburdell3 Job name: interactive Partition: hive

You now have GPU resources.

One other way to do it is to create a .sh script to handle this for you.

./pace_interactive.sh [wait till the node is acquired]

Example code for pace_interactive.sh “”” #!/bin/sh salloc -A hive-gburdell3 -N1 --mem-per-gpu=12G -phive-gpu-short -t0:15:00 --gres=gpu:1 --gres-flags=enforce-binding exit 0 “””