Submitting a Job
Once you have a job submission file, you may submit this script to SLURM using the sbatch command. SLURM will find, or wait for, available resources matching your request and run your job there.
On Negishi, in order to submit jobs, you need to specify the partition, account and Quality of Service (QoS) name to which you want to submit your jobs. To familiarize yourself with the partitions and QoS available on Negishi, visit Negishi Queues and Partitions. To check the available partitions on Negishi, you can use the showpartitions , and to check your available accounts you can use slist commands. Slurm uses the term "Account" with the option -A or --account= to specify different batch accounts, the option -p or --partition= to select a specific partition for job submission, and the option -q or --qos= .
Partition statistics for cluster negishi at Wed Jul 30 13:07:17 EDT 2025
Partition #Nodes #CPU_cores Cores_pending Job_Nodes MaxJobTime Cores Mem/Node
Name State Total Idle Total Idle Resorc Other Min Max Day-hr:mn /node (GB)
negishi-nodes up$ 6 0 768 768 0 0 1 infin infinite 128 257
cpu up$ 446 0 57088 57067 0 163 1 infin infinite 128 257
highmem up$ 6 0 768 768 0 0 1 infin infinite 128 1031
cms up$ 16 0 4096 3840 0 9036 1 infin infinite 256 515
gpu up 5 0 160 0 0 30 1 infin infinite 32 515
negishi-login up$ 8 0 2048 2048 0 0 1 infin infinite 256 515
negishi-profiling up 4 3 512 512 0 0 1 infin infinite 128 257
Link to section 'CPU Partition' of 'Submitting a Job' CPU Partition
The CPU partition on Negishi has two Quality of Service (QoS) levels: normal and standby. To submit your job to one compute node on cpu partition and 'normal' QoS which has "high priority":
$ sbatch --nodes=1 --ntasks=1 --partition=cpu --account=accountname --qos=normal myjobsubmissionfile
$ sbatch -N1 -n1 -p cpu -A accountname -q normal myjobsubmissionfile
To submit your job to one compute node on cpu partition and 'standby' QoS which is has "low priority":
$ sbatch --nodes=1 --ntasks=1 --partition=cpu --account=accountname --qos=standby myjobsubmissionfile
$ sbatch -N1 -n1 -p cpu -A accountname -q standby myjobsubmissionfile
Link to section ' GPU Partition' of 'Submitting a Job' GPU Partition
On the GPU partition on Negishi you don’t need to specify the QoS name because only one QoS exists for this partition, and the default is normal. To submit your job to one compute node requesting one GPU on the gpu partition under the 'normal' QoS which has "high priority":
$ sbatch --nodes=1 --gpus-per-node=1 --ntasks=1 --cpus-per-task=64 --partition=gpu --account=accountname myjobsubmissionfile
$ sbatch -N1 --gpus-per-node=1 -n1 -c64 -p gpu -A accountname -q normal myjobsubmissionfile
Link to section 'Highmem Partition' of 'Submitting a Job' Highmem Partition
To submit your job to a compute node in the highmem partition, you don’t need to specify the QoS name because only one QoS exists for this partition, and the default is normal. However, the highmem partition is only suitable for jobs with memory requirements that exceed the capacity of a standard node, so the number of requested tasks should be appropriately high.
$ sbatch --nodes=1 --ntasks=1 --cpus-per-task=64 --partition=highmem --account=accountname myjobsubmissionfile
$ sbatch -N1 -n1 -c64 -p gpu -A accountname myjobsubmissionfile
Link to section 'Login Partition' of 'Submitting a Job' Login Partition
The login partition is reserved for Negishi users who have purchased "interactive" access to Negishi. As an access control, in order to submit to this partition, you must supply the interactive QoS as a job option as this is the only QoS accepted by the partition. This partition is meant to give near-immediate start times to computationally modest jobs.
$ sbatch --nodes=1 --ntasks=1 --cpus-per-task=4 --partition=login --qos=interactive --account=accountname myjobsubmissionfile
$ sbatch -N1 -n1 -c4 -p gpu -q interactive -A accountname myjobsubmissionfile
Link to section 'General Information' of 'Submitting a Job' General Information
By default, each job receives 30 minutes of wall time, or clock time. If you know that your job will not need more than a certain amount of time to run, request less than the maximum wall time, as this may allow your job to run sooner. To request 1 hour and 30 minutes of wall time:
$ sbatch -t 01:30:00 -N=1 -n=1 -p=cpu -A=accountname -q=standby myjobsubmissionfile
The --nodes= or -N value indicates how many compute nodes you would like for your job, and --ntasks= or -n value indicates the number of tasks you want to run.
In some cases, you may want to request multiple nodes. To utilize multiple nodes, you will need to have a program or code that is specifically programmed to use multiple nodes such as with MPI. Simply requesting more nodes will not make your work go faster. Your code must support this ability.
To request 2 compute nodes:
$ sbatch -t 01:30:00 -N=2 -n=16 -p=cpu -A=accountname -q=standby myjobsubmissionfile
By default, jobs on Negishi will share nodes with other jobs.
If more convenient, you may also specify any command line options to sbatch from within your job submission file, using a special form of comment:
#!/bin/sh -l
# FILENAME: myjobsubmissionfile
#SBATCH --account=accountname
#SBATCH --nodes=1
#SBATCH --ntasks=1
#SBATCH --partition=cpu
#SBATCH --qos=normal
#SBATCH --time=1:30:00
#SBATCH --job-name myjobname
# Print the hostname of the compute node on which this job is running.
/bin/hostname
If an option is present in both your job submission file and on the command line, the option on the command line will take precedence.
After you submit your job with SBATCH, it may wait in queue for minutes, hours, or even weeks. How long it takes for a job to start depends on the specific queue, the resources and time requested, and other jobs already waiting in that queue requested as well. It is impossible to say for sure when any given job will start. For best results, request no more resources than your job requires.
Once your job is submitted, you can monitor the job status, wait for the job to complete, and check the job output.