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biac:cluster:submit [2011/09/19 14:57] petty [Job submission] |
biac:cluster:submit [2019/02/15 17:54] cmp12 [Job restrictions] |
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====== Job restrictions ====== | ====== Job restrictions ====== | ||
- | Each node has a finite amount of memory installed and due to the disk-less nature of the nodes there are restrictions set on the amount of ram used. Currently, the default is to assign | + | Each node has a finite amount of memory installed and due to the disk-less nature of the nodes there are restrictions set on the amount of ram used. Currently, the default is to assign |
- | > qsub -N run_script.1 -l h_vmem=5G script.sh run1 | + | > qsub -N run_script.1 -l h_vmem=10G, |
- | The above example will request/ | + | The above example will request/ |
You can also get it from previous jobs if you have the job number with qacct ( there will be a resulting entry for " | You can also get it from previous jobs if you have the job number with qacct ( there will be a resulting entry for " | ||
> qacct -j JOBNUM | > qacct -j JOBNUM | ||
- | | + | maxvmem |
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Also, you can request the info from currently running jobs with qstat ( look for the " | Also, you can request the info from currently running jobs with qstat ( look for the " | ||
> qstat -j JOBNUM | > qstat -j JOBNUM | ||
- | | + | usage 1: |
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+ | The maximum available is ~750GB on any node, so if you request more than that, the job will just sit in the queue waiting indefinitely. | ||
+ | //Please do not request additional resources unless you absolutely need them. If additional resources are requested, they are deducted from the amount available to everyone else. If unneeded resources are requested, this reduces the capacity on a given node for other potential usage.// | ||
+ | |||
+ | There is a global limit on any single user of 60 slots and/or 1920G of ram. | ||
+ | |||
+ | There is a 6GB cumulative quota on all HOME directories | ||
====== Job status ====== | ====== Job status ====== | ||
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+ | All jobs for a particular user can be deleted with the following command. | ||
- | + | > qdel -U username | |
====== Template Script ====== | ====== Template Script ====== | ||
Jobs are usually written in bash. They are similar to local bash scripts in syntax and usage. In addition, they contain cluster related directives identified by lines starting with " #$ ". These are used to send job related setup information to the cluster. Scripts also contain requests for access to experiment data. The BIAC template script is a good starting point for testing job submission and as a base script for all jobs. Begin, by making a copy of the template script. | Jobs are usually written in bash. They are similar to local bash scripts in syntax and usage. In addition, they contain cluster related directives identified by lines starting with " #$ ". These are used to send job related setup information to the cluster. Scripts also contain requests for access to experiment data. The BIAC template script is a good starting point for testing job submission and as a base script for all jobs. Begin, by making a copy of the template script. |