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| abstract:mills:runjobs:runjobs [2018-06-19 21:58] – anita | abstract:mills:runjobs:runjobs [2021-04-27 16:21] (current) – external edit 127.0.0.1 |
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| ==== Parallel environments ==== | ==== Parallel environments ==== |
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| The ''/opt/templates/gridengine'' directory contains basic prototype job scripts for non-interactive parallel jobs. This section describes the **–pe** parallel environment option that's required for MPI jobs, openMP jobs and other jobs that use the SMP (threads) programming model. | The ''/opt/shared/templates/gridengine'' directory contains basic prototype job scripts for non-interactive parallel jobs. This section describes the **–pe** parallel environment option that's required for MPI jobs, openMP jobs and other jobs that use the SMP (threads) programming model. |
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| Type the command: | Type the command: |
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| <note tip> | <note tip> |
| IT provides a job script template called ''openmp.qs'' available in ''/opt/templates/gridengine/openmp'' to copy and customize for your OpenMP jobs. | IT provides a job script template called ''openmp.qs'' available in ''/opt/shared/templates/gridengine/openmp'' to copy and customize for your OpenMP jobs. |
| </note> | </note> |
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| MPI jobs inherently generate considerable network traffic among the processor cores of a cluster's compute nodes. The processors on the compute node may be connected by two types of networks: InfiniBand and Gigabit Ethernet. | MPI jobs inherently generate considerable network traffic among the processor cores of a cluster's compute nodes. The processors on the compute node may be connected by two types of networks: InfiniBand and Gigabit Ethernet. |
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| IT has developed templates to help with the **openmpi** parallel environments for a given [[clusters/start|cluster]], targeting different user needs and architecture. You can copy the templates from ''/opt/templates/gridengine/openmpi'' and customize them. These templates are essentially identical with the exception of the presence or absence of certain **qsub** options and the values assigned to **MPI_FLAGS** based on using particular environment variables. In all cases, the parallel environment option must be specified: | IT has developed templates to help with the **openmpi** parallel environments for a given [[clusters/start|cluster]], targeting different user needs and architecture. You can copy the templates from ''/opt/shared/templates/gridengine/openmpi'' and customize them. These templates are essentially identical with the exception of the presence or absence of certain **qsub** options and the values assigned to **MPI_FLAGS** based on using particular environment variables. In all cases, the parallel environment option must be specified: |
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| ''-pe openmpi'' <<//NPROC//>> | ''-pe openmpi'' <<//NPROC//>> |
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| <note tip> | <note tip> |
| IT provides several job script templates in ''/opt/templates/gridengine/openmpi'' to copy and customize for your Open MPI jobs. See [[software:openmpi:mills|Open MPI on Mills]] for more details about these job scripts. | IT provides several job script templates in ''/opt/shared/templates/gridengine/openmpi'' to copy and customize for your Open MPI jobs. See [[software:openmpi:mills|Open MPI on Mills]] for more details about these job scripts. |
| </note> | </note> |
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