Cluster/Computing-clusters.md

 This page discusses different computing clusters in general. See [Cluster/Queue system](Cluster/Queue-system) for a discussion about an efficient usage of queue system.
 
+See also
+
+* [Cluster/Data transfer](Cluster/Data%20transfer): moving data effectively from clusters to local machine and back
+* [Cluster/Ssh keys](Cluster/Ssh%20keys): login without typing your password
+
 # Local
 
 ## Puck and Oberon (CPU)
@@ -9,24 +14,28 @@ This page discusses different computing clusters in general. See [Cluster/Queue
 * If you need access, contact [Vesa Apaja](https://www.jyu.fi/fi/henkilot/vesa-apaja)
 * No quota. But check that you do not use all disc space yourself!
 * All datafiles should be saved in `/n/work/username`
-* * Check how much disc space your files take: `du -hs /n/work/username`
-* * Check how much disc space is available: `df -h /n/work/username`
-* * Same discs visible in both puck and oberon
-* * There is also a "scratch" disc space that everyone can access: `/n/scratch/`. That is not backed up, but is suitable for temporary data. Just create your own folder there.
+* Check how much disc space your files take: `du -hs /n/work/username`
+* Check how much disc space is available: `df -h /n/work/username`
+* Same discs visible in both puck and oberon
+* There is also a "scratch" disc space that everyone can access: `/n/scratch/`. That is not backed up, but is suitable for temporary data. Just create your own folder there.
 * Puck has 24CPUs/computing node. Oberon has 40. Keep that in mind if you use a code that uses OpenMP parallerization (where maximum number of CPUs is the number of CPUs per node). Preferably allocate a whole node, or a small part of a node. But don't allocate e.g. 35/40 CPUs, it is then difficult for the system to fill the remaining CPUs with other jobs.
-* * When using OpenMP parallerization, remember to force the correct number of CPUs: `OMP_NUM_THREADS=10 ./program_for_which_I_have_reserved_10_CPUs`
+* When using OpenMP parallerization, remember to force the correct number of CPUs: `OMP_NUM_THREADS=10 ./program_for_which_I_have_reserved_10_CPUs`
 * Always remember to check that you use as many CPUs as you reserve
 
 Queue system: need a _submission script_ that specifies resources your job needs, and tells the system how to run your program. In the simplest case, the submission script can be simply
+
 ```bash
     #SBATCH -n 1 
     #SBATCH -t 0-01:00:0
     ./program > outputfile
 ```
+
 This reserves 1 cpu for your code, and the code can run for 1hr. If the script above is saved in the file `submit.sh`, you can submit the job to the queue by running
+
 ```bash
  sbatch submit.sh
 ```
+
 Results (everything the code prints) are saved in file `outputfile`. For more details, see [Queue-system](Cluster/Queue-system)
 
 ## GPU