When submitting jobs on the ERISOne cluster, all jobs should be submitted through the LSF scheduler. This How-To will explain how to submit your job to the various queues of the scheduler.
Submitting A Job
To submit a job to a queue, use the bsub command. In this command, the LSF script and queue will also be specified.
For example, there is a test LSF script within the lsf folder of the hold folder. It we wanted to submit that script to the short queue we would type the command:
bsub -q short < test.lsf
The -q indicator allows you to specify which queue you would like to send your job to. To learn more about the various queues, go to the Queue Selection section below.
Never forget to use the character "<" between bsub and your script file name in your command line.
To make sure that your job was successfully submitted, use the bjobs command. This command lists all current job. When using the bjobs command after submitting the test.lsf job above, you should get an output similar to this:
JOBID USER STAT QUEUE FROM_HOST EXEC_HOST JOB_NAME SUBMIT_TIME
600305 bmm78 PEND short eris1n3 test Jun 5 10:10
|bjobs||List the current jobs, use option "-lp" to see the pending reasons|
|bhosts||List the host and current workloads|
|lshosts||List the host and their static resource information|
|bhist||Displays historical information about jobs|
|bpeek||Displays the stdout and stderr output for an unfinished job|
|bqueues||List information about the queues|
|brequeue||Kills and requeue a job|
|bresume||Resume a suspended job|
|bkill||Kills a job|
The job schedule offers several job queues to which you can submit jobs. Each queue is optimized for different types of jobs, based on several attributes:
- Run Time
- Memory Requirement
- Number of CPUs Used in Parallel
|Queue||Default Mem||Max Mem||Min Runtime||Max Runtime||CPU|
|VSHORT||1 GB||4 GB||-||15 min||1|
|SHORT||2 GB||4 GB||10 s||1 h||1|
|MEDIUM||2 GB||8 GB||1 min||24 hr||< 4|
|NORMAL||2 GB||8 GB||1 min||3 days||< 6|
|LONG||2 GB||8 GB||1 min||1 week||< 4|
|VLONG||2 GB||8 GB||1 min||4 weeks||< 4|
|BIG||8 GB||498 GB||1 min||4 weeks||< 6|
|BIG-MULTI||8 GB||498 GB||1 min||4 weeks||4 - 12|
Within your home folder, there are several LSF templates that you can base your script on. To reach this folder navigate to the following folder:
When you list the contents of the bsub directory, you will see a set of examples for all the different queues.
User the cat or more command to see the contents of the files:
To use one of the templates, make a copy of the file for your own modifications.