**<color red>Note - </color>** VPN is necessary for off campus access.

**__<color blue>Connect to Perun</color>__**

Please use a secure shell client to connect to **<color darkred> perun.biochem.dal.ca</color>**. 

X2go and XPRA are also available.
The clients for X2go connection are available for download from **[[http://wiki.x2go.org/doku.php|X2go]]**.
X2go/XPRA access would be faster than X11
tunneling over secure shell connection when graphical user interfaces for Matlab or Maple, Plots using R etc are used from outside the University.
Please see the **[[https://www.mathstat.dal.ca/cluster/doku.php?id=x2go|X2go setup]]** before using X2go.
**<color darkred> Cluster-nx.mathstat.dal.ca </color>** should be replaced by **<color darkred> perun.biochem.dal.ca</color>**. 

**__<color blue>Use interactive queue</color>__**

Interactive queues are retired. Please use perun.biochem.dal.ca for all interactive tasks.

**__<color blue>Use batch queue</color>__**

Batch jobs could be submitted like this  \\
\\
''<color darkred>qsub -q <batch queue name> <submit.sh></color>'' \\

**__<color blue>List running jobs in queues</color>__**

|  **Own jobs**  ||  ''<color darkred>qstat</color>''  |
|  **All jobs**  ||  ''<color darkred>qstat -u "*"</color>''  |
|  **Cluster load**  ||  ''<color darkred>qstat -f</color>''  |

**__<color blue>Basic Submit Script Example</color>__**

<code bash>
#!/bin/bash 
#$ -S /bin/bash 
. /etc/profile 
#$ -o job_output 
#$ -M <your email address> 
#$ -m be 
cd <path to the job> 
<The job to be submitted starts here>

</code>
  
**__<color blue>MPI job submission example</color>__**  

<code bash>
#!/bin/bash 
#$ -S /bin/bash 
. /etc/profile 
#$ -o job_output 
#$ -M <your email address> 
#$ -m be 
#$ -pe openmpi <num cpus> 
cd <path to the job>  
mpirun -np <num cpus> <your compute job> 
</code>


**__<color blue>OpenMP job submission example</color>__**

<code bash> 
#!/bin/bash 
#$ -S /bin/bash 
. /etc/profile 
#$ -o job_output 
#$ -M <your email address> 
#$ -m be 
#$ -pe threaded <num cpus> 
export OMP_NUM_THREADS=<num cpus> 
cd <path to the job>  
<your compute job starts here>
</code>
 
**__<color blue>Threaded job submission example</color>__** 

<code bash>
#!/bin/bash 
#$ -S /bin/bash 
. /etc/profile 
#$ -o job_output 
#$ -M <your email address> 
#$ -m be 
#$ -pe threaded <num cpus> 
cd <path to the job>  
<your compute job starts here> 
</code>
 
\\