User Tools

Site Tools


aurora_cluster:running_on_aurora

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revision Previous revision
Next revision
Previous revision
aurora_cluster:running_on_aurora [2016/12/06 11:17]
florido
aurora_cluster:running_on_aurora [2018/09/27 12:56] (current)
florido [lu partition (Mathematical Physics)]
Line 6: Line 6:
 There'​s only few important things one needs to know: There'​s only few important things one needs to know:
  
-  * A set of nodes is selected by choosing a **project** and a **reservation**,​ one for each division. The HEP nodes do not require a special reservation flag to be accessed. The project names and reservation flags are listed in the table below:+  * A set of nodes is selected by choosing ​a **partition**, ​a **project** and a **reservation**,​ one for each division. The HEP nodes do not require a special reservation flag to be accessed. The partitions, ​project names and reservation flags are listed in the table below:
  
-^ Your division ^ SLURM Partition ^ Project String ^ Reservation String ^ call srun with ^ +^ Your division ^ SLURM Partition ^ Project String ^ Reservation String ^ call srun/​sbatch ​with ^ Nodes 
-| Nuclear Physics | ''​hep''​ | ''​HEP2016-1-3''​ | not needed | <​code:​bash>​srun -p hep -A HEP2016-1-3 <​scriptname></​code>​ | +| Nuclear Physics | ''​hep''​ | ''​HEP2016-1-3''​ | not needed | <​code:​bash>​srun -p hep -A HEP2016-1-3 <​scriptname></​code> ​| ''​au[193-216]'' ​
-| Particle Physics | ''​hep''​ | ''​HEP2016-1-4''​ | not needed | <​code:​bash>​srun -p hep -A HEP2016-1-4 <​scriptname></​code>​ | +| Particle Physics | ''​hep''​ | ''​HEP2016-1-4''​ | not needed | <​code:​bash>​srun -p hep -A HEP2016-1-4 <​scriptname></​code> ​| ::: 
-| Theoretical Physics | ''​hep''​ | ''​HEP2016-1-5''​ | not needed | <​code:​bash>​srun -p hep -A HEP2016-1-5 <​scriptname>​ </​code>​ | +| Theoretical Physics | ''​hep''​ | ''​HEP2016-1-5''​ | not needed | <​code:​bash>​srun -p hep -A HEP2016-1-5 <​scriptname>​ </​code> ​| ::: 
-| Mathematical Physics | ''​lu''​ | ''​lu2016-2-10''​ | ''​lu2016-2-10''​ | <​code:​bash>​srun -p lu -A lu2016-2-10 --reservation=lu2016-2-10 <​scriptname>​ </​code>​ |+| Mathematical Physics | ''​lu''​ | ''​lu2016-2-10''​ | ''​lu2016-2-10''​ | <​code:​bash>​srun -p lu -A lu2016-2-10 --reservation=lu2016-2-10 <​scriptname>​ </​code> ​| ''​mn[01-10],​mn[15-20]''​ | 
 +| Mathematical Physics, **select only skylake machines** | ''​lu''​ | ''​lu2016-2-10''​ | ''​lu2016-2-10''​ | <​code:​bash>​srun -C skylake -p lu -A lu2016-2-10 --reservation=lu2016-2-10 <​scriptname>​ </​code>​ | ''​mn15-20'' ​|
  
   * Home folders are backed up by Lunarc.   * Home folders are backed up by Lunarc.
Line 68: Line 69:
  
 The results will be found in the folder where the above command is ran, in a file named after the slurm job ID. The results will be found in the folder where the above command is ran, in a file named after the slurm job ID.
 +
 +Since 2018/09/27 there are new nodes ''​mn[15-20]''​ using the //skylake// chipset/​microcode. One can select just these cpus by using the -C flag.
 +<code bash>​sbatch -C skylake slurmexample.sh</​code>​
 +
 +For best performance one should recompile the code for these machines, meaning one needs to tell the compiler that skylake optimization is required. How to do this varies depending on compilers. See [[https://​en.wikichip.org/​wiki/​intel/​microarchitectures/​skylake_(server)#​Compiler_support]]
 +
 +For a discussion on the benefits in matrix calculus see: https://​cfwebprod.sandia.gov/​cfdocs/​CompResearch/​docs/​bench2018.pdf
  
 ===== Interactive access to nodes for code testing ===== ===== Interactive access to nodes for code testing =====
Line 129: Line 137:
 ==== Singularity ==== ==== Singularity ====
  
-To be documented+The old singularity version (1.0) is going to being removed on week 8, year 2017 
 +because of a security issue. Please update your scripts to enable singularity using these commands: 
 + 
 +<​code:​bash>​ 
 +module load GCC/​4.9.3-2.25 
 +module load Singularity/​2.2.1 
 +</​code>​ 
 + 
 +It is recommended to **always use the version number** when loading the 
 +module to prevent issues using different versions. If you don’t use that 
 +and the default module changes, you will run an unwanted version. 
 +  
  
 ===== Custom software ===== ===== Custom software =====
aurora_cluster/running_on_aurora.1481023053.txt.gz · Last modified: 2016/12/06 11:17 by florido