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general:computerenvironment:slurm [2021/10/12 08:04] – [Creating a script file] felixgeneral:computerenvironment:slurm [2023/10/16 12:04] (current) – [sview] ingo
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 ==== Example ==== ==== Example ====
  
-This example uses a simple seed file that provides input for the program calls, e.g. file names, parameter values and the like.+This example uses a simple seed file that provides input for the program calls, e.g. file names, parameter values and the like 
 + 
 +You can use any text editor like ''nano'' to create a file, you can then paste the contents of the example file below into that file. Exchange the example command with the actual command you want to use and don't forget to modify the CPU and memory requests.
  
 <code> <code>
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 ===== Job submission ===== ===== Job submission =====
  
-Use the command //[[https://slurm.schedmd.com/sbatch.html|sbatch]]// to submit the job to SLURM+Use the command //[[https://slurm.schedmd.com/sbatch.html|sbatch]]// to submit the job to SLURM. You simply use the path to the script you just created for this
  
 <code> <code>
-sbatch /path/to/script.slurm+sbatch /path/to/<slurm_script>.sh
 </code> </code>
  
-After your script was send to the cluster, SLURM will automatically create a file in the directory from which you issued the ''sbatch'' command. This file will contain all information that would be printed to the terminal when calling your command in the local terminal. +After your script was send to the cluster, SLURM will automatically create a file in the directory from which you issued the ''sbatch'' command. This file will contain all information that would be printed to the terminal when calling your command in the local terminal. This directory will also be used as the current directory for all relative paths in your slurm script. 
 + 
 +Your script will run using your current (Anaconda) environment meaning that you can use all programs which are in the environment from which you issue the ''sbatch'' command.
 ===== Job status ===== ===== Job status =====
  
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 sinfo sinfo
 </code> </code>
 +
 +===== More info of what is going on ===== 
 +To open a window with a whole array of informations about the cluster like current running jobs/partitions/reservations/available resources and more run
 +<code> sview</code>
 ===== Common mistakes ===== ===== Common mistakes =====
 This is a non-exhaustive list of issues and mistakes in the context of SLURM This is a non-exhaustive list of issues and mistakes in the context of SLURM
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   * your job is in pending state forever -> it might be that non of the computers in the queue has the capacity((e.g. number of cpus, amount of memory)) that you specified    * your job is in pending state forever -> it might be that non of the computers in the queue has the capacity((e.g. number of cpus, amount of memory)) that you specified 
  
 +<WRAP tabs>
 +   * [[general:computerenvironment]]
 +</WRAP>