services:cluster:queuing-system
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cluster:queuing-system [2012/03/02 19:09] – dreger | services:cluster:queuing-system [2012/10/18 17:25] – pneuser | ||
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- | ====== | + | ====== |
The login node of the HPC cluster is '' | The login node of the HPC cluster is '' | ||
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===== Submitting a job to the HPC cluster ===== | ===== Submitting a job to the HPC cluster ===== | ||
- | In oder to do any calculations on the HPC cluster **you have to submit your jobs to the queuing system** using the '' | + | In order to do any calculations on the HPC cluster **you have to submit your jobs to the queuing system** using the '' |
You submit jobs to the queuing system by writing a job-script which tells the queuing system about the resources your job needs and about the programs which are to be run. Basically the job-script is a shell script with some magic comments at the top (lines starting with ''# | You submit jobs to the queuing system by writing a job-script which tells the queuing system about the resources your job needs and about the programs which are to be run. Basically the job-script is a shell script with some magic comments at the top (lines starting with ''# | ||
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| walltime | seconds, or [[HH: | | walltime | seconds, or [[HH: | ||
| pmem | size* | Maximum amount of physical memory used by any single process of the job. In our case this means per core. | **pmem=8gb** -> request 8gb RAM per core | pmem=2gb | | | pmem | size* | Maximum amount of physical memory used by any single process of the job. In our case this means per core. | **pmem=8gb** -> request 8gb RAM per core | pmem=2gb | | ||
- | | file | size* | The amount of total **local disk space** requested for the job. The space can be accessed at / | + | | file | size* | The amount of **local disk space per core** requested for the job. The space can be accessed at / |
**size* format** = integer, optionally followed by a multiplier {b, | **size* format** = integer, optionally followed by a multiplier {b, | ||
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Please try to use local disk space on the compute nodes whenever possible. Since access to local storage is faster than access to your $PBS_O_WORKDIR, | Please try to use local disk space on the compute nodes whenever possible. Since access to local storage is faster than access to your $PBS_O_WORKDIR, | ||
- | === Complicated | + | === Advanced |
< | < | ||
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export seq=`cat seq` | export seq=`cat seq` | ||
awk ' | awk ' | ||
- | |||
infile=${flag}.inp | infile=${flag}.inp |
services/cluster/queuing-system.txt · Last modified: 2014/06/11 14:40 by dreger