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doku:job_arrays [2014/05/28 11:15] – ir | doku:job_arrays [2014/06/12 14:47] – ir | ||
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====== Job arrays ====== | ====== Job arrays ====== | ||
- | Job arrays are sets of similar but **independent** jobs. | + | Job arrays are sets of similar but **independent** jobs that are submitted. |
- | *'' | + | |
+ | ==== Example: ==== | ||
+ | **B**asic **L**ocal **A**lignment **S**earch **T**ool (BLAST; an algorithm for comparing biological sequence information) | ||
+ | |||
+ | *submit | ||
*each instance (“task”) is executed independently | *each instance (“task”) is executed independently | ||
*all instances subsumed with a single job ID | *all instances subsumed with a single job ID | ||
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*task numbering scheme: '' | *task numbering scheme: '' | ||
| | ||
+ | |||
+ | '' | ||
| | ||
- | Example: | ||
< | < | ||
#$ -cwd | #$ -cwd | ||
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### #$ -pe mpich 12 | ### #$ -pe mpich 12 | ||
### | ### | ||
- | ### set first and last task_id and stepwidth of array tasks. stepwidth should be identical with the | + | ### set first and last task_id and stepwidth of array tasks. |
+ | ### stepwidth should be identical with the | ||
### number of jobs per node | ### number of jobs per node | ||
#$ -t 1-18:3 | #$ -t 1-18:3 | ||
Line 104: | Line 110: | ||
#$ -N job_array_with_multilple single tasks on one node | #$ -N job_array_with_multilple single tasks on one node | ||
#$ -pe mpich <N> | #$ -pe mpich <N> | ||
- | ### set first and last task_id and stepwidth of array tasks. stepwidth should be identical with the | + | ### set first and last task_id and stepwidth of array tasks. |
+ | ### stepwidth should be identical with the | ||
### number of jobs per node | ### number of jobs per node | ||
#$ -t 1-18:3 | #$ -t 1-18:3 |