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slurm [2020/09/17 13:06] admin |
slurm [2020/09/17 13:19] (current) admin [Trabajando con SLURM] |
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| + | ====== SLURM 19.04 ====== | ||
| + | |||
| + | Conceptos básicos | ||
| + | |||
| + | Jobs | ||
| + | |||
| + | Particiones | ||
| + | |||
| + | Task | ||
| + | |||
| + | Comandos básicos | ||
| + | |||
| + | Consultar cola | ||
| + | |||
| + | Enviar un programa | ||
| + | |||
| + | Cancelar un trabajo | ||
| + | |||
| + | ===== Trabajando con SLURM ===== | ||
| + | |||
| + | **Simple usage for soroban** | ||
| + | |||
| + | 0. Note. | ||
| + | |||
| + | '-p intel' (equivalent long option: '–partition=intel') is required for soroban. | ||
| + | |||
| + | 1. Save below as text file (e.g. my_first_slurm.sh). | ||
| + | |||
| + | <code> | ||
| + | #!/bin/bash | ||
| + | #SBATCH --job-name=example # Nombre para el trabajo a ejecutar en el cluster | ||
| + | #SBATCH --partition=intel | ||
| + | #SBATCH --output=example_%j.out | ||
| + | #SBATCH --error=example_%j.err | ||
| + | |||
| + | ls -lh | ||
| + | pwd | ||
| + | </code> | ||
| + | |||
| + | 2. Submit it as SLURM job. | ||
| + | |||
| + | sbatch (e.g. sbatch my_first_slurm.sh) | ||
| + | |||
| + | 3. Check progress. | ||
| + | |||
| + | squeue | ||
| + | |||
| + | **Ejecutando un programa con openMPI , usando un script base para SLURM:** | ||
| + | <code> | ||
| + | #!/bin/bash | ||
| + | #SBATCH --job-name=example # Nombre para el trabajo a ejecutar en el cluster | ||
| + | #SBATCH --partition=intel | ||
| + | #SBATCH -n 32 # Debe de ser un número múltiplo de 16, número de procesos | ||
| + | #SBATCH --ntasks-per-node=16 # máximo por nodo | ||
| + | #SBATCH --output=example_%j.out | ||
| + | #SBATCH --error=example_%j.err | ||
| + | #SBATCH --mail-user=username@ufrontera.cl #correo para notificacion | ||
| + | #SBATCH --mail-type=ALL | ||
| + | |||
| + | srun ./mpi_programa | ||
| + | </code> | ||
| + | |||
| + | |||
| ===== 4. Ejemplo básico 3 ===== | ===== 4. Ejemplo básico 3 ===== | ||
| Line 6: | Line 69: | ||
| #!/bin/bash | #!/bin/bash | ||
| - | #SBATCH -J R-NOMBRE-SIMULACION # reemplazar por el nombre de tu simulacion | + | #SBATCH -J R-NOMBRE-SIMULACION |
| #SBATCH -a 1-11%3 | #SBATCH -a 1-11%3 | ||
| - | #SBATCH --nodes=1 #numero de nodos a utilizar | + | #SBATCH --nodes=1 |
| - | #SBATCH --tasks-per-node=1 " numero de tareas por nodo | + | #SBATCH --tasks-per-node=1 |
| - | #SBATCH --mem=100G #cantidad de memoria requerida para la simulacion | + | #SBATCH --mem=100G |
| - | #SBATCH --partition=intel #particion o cola donde enviaras el trabajo/simulacion | + | #SBATCH --partition=intel |
| - | module load R/3.6.1 #modulo o programa que necesitas para tu simulación | + | module load R/3.6.1 |
| cmds=( | cmds=( | ||
| Line 28: | Line 91: | ||
| <code> | <code> | ||
| - | chmod x ejemplo3.sh | + | chmod +x ejemplo3.sh |
| </code> | </code> | ||
| Line 66: | Line 129: | ||
| ==== Useful reference pages ==== | ==== Useful reference pages ==== | ||
| - | [[https://doku.lrz.de/display/PUBLIC/Running parallel jobs on the Linux-Cluster#RunningparalleljobsontheLinux-Cluster-Step1:Editajobscript|https://doku.lrz.de/display/PUBLIC/Running parallel jobs on the Linux-Cluster#RunningparalleljobsontheLinux-Cluster-Step1:Editajobscript]] | + | [[https://doku.lrz.de/display/PUBLIC/Running+parallel+jobs+on+the+Linux-Cluster#RunningparalleljobsontheLinux-Cluster-Step1:Editajobscript|https://doku.lrz.de/display/PUBLIC/Running+parallel+jobs+on+the+Linux-Cluster#RunningparalleljobsontheLinux-Cluster-Step1:Editajobscript]] |
| === About job array === | === About job array === | ||