Useful commands to work on the IFB-core Cluster

Here are some useful command lines you may need to work on the IFB-core Cluster during the practical.

You can find more detailed information and video tutorial on IFB-core Cluster Documentation.

1. How to download/upload your data from the cluster

   # To download file/files from the cluster to your current directory
   scp  <your login>@core.cluster.france-bioinformatique.fr:/<absolute path to your file> .
      
   # To download a folder from the cluster to your current directory
   scp -r  <your login>@core.cluster.france-bioinformatique.fr:/<absolute path to your folder> .
       
   # To upload a file to the cluster
   scp <path to your local folder> <your login>@core.cluster.france-bioinformatique.fr:/<absolute path to the target folder>
   

2. How to get information on your current job

   squeue -u <your login>
   

3. How to list all your running/pending jobs

   squeue -u <your login> -t RUNNING
      
   squeue -u <your login> -t PENDING
   

4. How to cancel jobs

   # Cancel a specific job
   scancel <jobid>
      
   # Cancel all your jobs
   scancel -u <your login>
      
   # Cancel all your pending jobs
   scancel -t PENDING -u <your login>