How to run jobs on the HPC¶
The Genomics England HPC uses LSF (load sharing facility) from IBM to run your jobs. In order to run your job, you will need to:
- select the correct queue depending on the type and length of your job.
- reserve the memory you need
- input your project code
We recommend creating scripts to submit your jobs. You can monitor the progress of your jobs as they run, and troubleshoot any issues that arise.
Jobs will take time to run. You do not need to wait; you can navigate away from the terminal and even the Research Environment, and return later.
Some basic LSF commands¶
| command | description |
|---|---|
bsub |
submits a job to the cluster |
bqueues |
shows info on the cluster queues |
bjobs |
shows info on the cluster jobs |
bhosts |
shows info on the cluster hosts |
bhist |
shows info on the finished cluster jobs |
bacct |
shows statistics and info on finished cluster jobs |
bkill |
removes a job from the cluster |
lshosts |
shows static resource info |
lsload |
shows dynamic resource info |