O2 Command CheatSheet

sbatch slurm_script.sh

submit the batch job slurm_script.sh (preferred way, see our wiki for an example of a slurm script)

sbatch -c 4 -p priority -t 1-00:00:00 --wrap="<Command>"

submit a job requesting 4 cores to partition priority with time limit 24 hours to execute <Command>

srun -p interactive --pty -t 4:00:00 -c 2 bash

Submit a 2 core interactive job to partition interactive with time limit 4 hours

srun -p short --pty -t 4:00:00 -c 1 --mem=64G --test-only

Obtain an estimate of when a job with the specified resources might get dispatched, without actually submitting the job

squeue -u $USER -t PD

list all pending jobs

squeue -u $USER -t R

list all running jobs

squeue -u $USER -t PD --Format=jobid,reasonlist,starttime

list reason and expected start time (if available) for pending jobs

squeue -u $USER -t R --Format=jobid,partition,state,timelimit,starttime

list general information for running jobs

squeue -u $USER --Format=jobid:10,partition:15

list jobid and partition with a custom characters spacing

sacct -u $USER --format=jobid,state,ExitCode,Timelimit,Elapsed

list past job status, exit code, requested walltime and actual used runtime

sacct -u $USER --format=jobid,Submit,Start,End

list past jobs submit,start and end time

sacct -u $USER --format=jobid,ReqTRES,MaxRSS --units=G

 list past job information about memory requested and memory used

sacct -u $USER --format=jobid,CPUTime,TotalCPU

list past job information about allocated CPU time versus actually used CPUtime

sacct -u $USER --format=jobid,CPUTime%20,TotalCPU%20

list past job information about allocated CPU time versus actually used CPUtime with a custom character spacing

sacct -e

See the different fields you can use in a format statement

sinfo -s

print a summary of the available partitions and their states

sinfo -p <name>

print detailed information about partition <name>

scontrol update JobId=JobNumber TimeLimit=<time>

update job 'JobNumber' requested timelimit to <time> (can't go beyond partition limit)

scontrol update JobId=JobNumber Dependency=<dependency_list>

update dependencies to <dependency_list>

scontrol update JobId=JobNumber Partition=<name>

update requested partition to <name>

scontrol update JobId=JobNumber MinMemoryCPU=<megabytes>

update mem_per_cpu required memory per node to <megabytes>

scontrol update JobId=JobNumber MinMemoryNode=<megabytes>

update mem required memory per node to <megabytes>

scontrol update JobId=JobNumber NumCPUs=<count>

update job number of cores requested to <count>

scontrol show partition

list detailed information about available partitions

scancel <jobid>

cancel job <jobid>

scancel -u $USER

cancel all running and pending jobs

scancel -n <name>

cancel all jobs with jobname <name>

scancel -p <name>

cancel all jobs in the specified partition <name>

scancel -t <PENDING | RUNNING | SUSPENDED >

cancel all job in the specified state