Differences
This shows you the differences between two versions of the page.
| Both sides previous revision Previous revision Next revision | Previous revision Next revision Both sides next revision | ||
|
slurm [2020/05/19 03:08] mickey |
slurm [2020/09/17 13:06] admin |
||
|---|---|---|---|
| Line 1: | Line 1: | ||
| - | ====== SLURM ====== | ||
| - | |||
| - | 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 <filename> (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=troquil | ||
| - | #SBATCH -n 32 # Debe de ser un número múltiplo de 16 | ||
| - | #SBATCH --ntasks-per-node=16 # máximo por blade | ||
| - | #SBATCH --output=example_%j.out | ||
| - | #SBATCH --error=example_%j.err | ||
| - | #SBATCH --mail-user=username@ufrontera.cl | ||
| - | #SBATCH --mail-type=ALL | ||
| - | |||
| - | srun ./mpi_programa | ||
| - | </code> | ||
| - | |||
| - | |||
| ===== 4. Ejemplo básico 3 ===== | ===== 4. Ejemplo básico 3 ===== | ||
| Line 68: | Line 6: | ||
| #!/bin/bash | #!/bin/bash | ||
| - | #SBATCH -J R-NOMBRE-SIMULACION | + | #SBATCH -J R-NOMBRE-SIMULACION # reemplazar por el nombre de tu simulacion |
| #SBATCH -a 1-11%3 | #SBATCH -a 1-11%3 | ||
| - | #SBATCH --nodes=1 | + | #SBATCH --nodes=1 #numero de nodos a utilizar |
| - | #SBATCH --tasks-per-node=1 | + | #SBATCH --tasks-per-node=1 " numero de tareas por nodo |
| - | #SBATCH --mem=100G | + | #SBATCH --mem=100G #cantidad de memoria requerida para la simulacion |
| - | #SBATCH --partition=intel | + | #SBATCH --partition=intel #particion o cola donde enviaras el trabajo/simulacion |
| - | module load R/3.6.1 | + | module load R/3.6.1 #modulo o programa que necesitas para tu simulación |
| cmds=( | cmds=( | ||
| Line 90: | Line 28: | ||
| <code> | <code> | ||
| - | chmod +x ejemplo2.sh | + | chmod x ejemplo3.sh |
| </code> | </code> | ||
| <code> | <code> | ||
| - | sbatch ejemplo2.sh | + | sbatch ejemplo3.sh |
| </code> | </code> | ||
| Line 128: | Line 66: | ||
| ==== 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 === | ||