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slurm [2020/05/19 02:08] mickey [Use 'man' command after login to servers] |
slurm [2020/09/17 13:00] admin |
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| - | ====== SLURM ====== | + | ====== SLURM 19.04 ====== |
| Conceptos básicos | Conceptos básicos | ||
| Line 21: | Line 21: | ||
| **Simple usage for soroban** | **Simple usage for soroban** | ||
| - | 0. Note. | + | 0. Note. |
| - | '-p intel' (equivalent long option: '--partition=intel') is required for soroban. | + | '-p intel' (equivalent long option: '–partition=intel') is required for soroban. |
| + | |||
| + | 1. Save below as text file (e.g. my_first_slurm.sh). | ||
| - | 1. Save below as text file (e.g. my_first_slurm.sh). | ||
| <code> | <code> | ||
| #!/bin/bash | #!/bin/bash | ||
| Line 37: | Line 38: | ||
| </code> | </code> | ||
| - | 2. Submit it as SLURM job. | + | 2. Submit it as SLURM job. |
| - | sbatch <filename> (e.g. sbatch my_first_slurm.sh) | + | sbatch (e.g. sbatch my_first_slurm.sh) |
| - | 3. Check progress. | + | 3. Check progress. |
| squeue | squeue | ||
| Line 60: | Line 61: | ||
| </code> | </code> | ||
| + | ===== 4. Ejemplo básico 3 ===== | ||
| + | |||
| + | Este es un ejemplo de un script (ejemplo3.sh) con los elementos minimos para ejecutar el programa R-3.6.1 a través de slurm: | ||
| + | |||
| + | <code> | ||
| + | #!/bin/bash | ||
| + | |||
| + | #SBATCH -J R-NOMBRE-SIMULACION | ||
| + | #SBATCH -a 1-11%3 | ||
| + | #SBATCH --nodes=1 | ||
| + | #SBATCH --tasks-per-node=1 | ||
| + | #SBATCH --mem=100G | ||
| + | #SBATCH --partition=intel | ||
| + | |||
| + | module load R/3.6.1 | ||
| + | |||
| + | cmds=( | ||
| + | 'sleep 10;echo 10' | ||
| + | 'sleep 20;echo 20' | ||
| + | 'sleep 30;echo 30' | ||
| + | 'sleep 40;echo 40' | ||
| + | 'sleep 50;echo 50' | ||
| + | ) | ||
| + | eval ${cmds[$SLURM_ARRAY_TASK_ID - 1]} | ||
| + | </code> | ||
| + | |||
| + | Para enviar este script a slurm, crear un job, y comenzar el procesamiento se requiere lo siguiente: | ||
| + | |||
| + | <code> | ||
| + | chmod +x ejemplo3.sh | ||
| + | </code> | ||
| + | |||
| + | <code> | ||
| + | sbatch ejemplo3.sh | ||
| + | </code> | ||
| ===== List of available clusters and partitions ===== | ===== List of available clusters and partitions ===== | ||