Quick Reference Guide

Job scheduling commands

Commands	Function	Basic Usage	Example
sbatch	submit a slurm job	sbatch [script]	$ sbatch job.sub
scancel	delete slurm batch job	scancel [job_id]	$ scancel 123456
scontrol hold	hold slurm batch jobs	scontrol hold [job_id]	$ scontrol hold 123456
scontrol release	release hold on slurm batch jobs	scontrol release [job_id]	$ scontrol release 123456

Job management commands

Job Status Commands sinfo -a list all queues squeue list all jobs squeue -u userid list jobs for userid squeue -t R list running jobs smap show jobs, partitions and nodes in a graphical network topology Job script basics

A typical job script will look like this:

!/bin/bash
SBATCH --nodes=1
SBATCH --cpus-per-task=8
SBATCH --time=02:00:00
SBATCH --mem=128G
SBATCH --mail-user=netid@gmail.com
SBATCH --mail-type=begin
SBATCH --mail-type=end
SBATCH --error=JobName.%J.err
SBATCH --output=JobName.%J.out

cd $SLURM_SUBMIT_DIR

module load modulename

your_commands_goes_here

Lines starting with #SBATCH are for SLURM resource manager to request resources for HPC. Some important options are as follows:

--nodes #SBATCH --nodes=1 Number of nodes --cpus-per-task #SBATCH --cpus-per-task=16 Number of CPUs per node --time #SBATCH --time=HH:MM:SS Total time requested for your job --output #SBATCH -output filename STDOUT to a file --error #SBATCH --error filename STDERR to a file --mail-user #SBATCH --mail-user user@domain.edu Email address to send notifications Interactive session To start a interactive session execute the following: 1 2 3

this command will give 1 Node for a time of 4 hours

srun -N 1 -t 4:00:00 --pty /bin/bash Getting information on past jobs You can use slurm database to see how much memory your previous jobs used, e.g. the following command will report requested memory and used residential and virtual memory for job 1 2 sacct -j <JOBID> --format JobID,Partition,Submit,Start,End,NodeList%40,ReqMem,MaxRSS,MaxRSSNode,MaxRSSTask,MaxVMSize,ExitCode Aliases that provide useful information parsed from the SLURM commands Place these alias’ into your .bashrc 1 2 alias si="sinfo -o \"%20P %5D %14F %8z %10m %10d %11l %16f %N\"" alias sq="squeue -o \"%8i %12j %4t %10u %20q %20a %10g %20P %10Q %5D %11l %11L %R\""

Caption: Batch File
Option	Examples	Description