[FLASH-USERS] flash2.5 in kraken

[John ZuHone]

Hi Diego,

Which compiler to use is mostly a matter of your choice, depending on if you need compiler-specific optimizations or not. pgi is the compiler loaded by default, and I have had no issues with it (though I don't run on Kraken anymore).

As I mentioned in my previous email, you need to have the hdf5-parallel module loaded:

module load hdf5-parallel 

From what I remember the proper hdf5 library for your compiler will be automatically loaded. 

Pasted below is an example batch script, which runs on 192 processors for 4 hours. 

For more information on Kraken (including batch script options) please see http://nics.tennessee.edu/computing-resources/kraken.

Best,

John

#!/bin/bash
#PBS -A your allocation number
#PBS -l size=192,walltime=04:00:00
#PBS -N your_job_name 
#PBS -j oe 

# the previous line combines stdout and stderr

cd $PBS_O_WORKDIR
aprun -n 192 ./flash2 >> flash.out

On Jul 10, 2012, at 6:29 PM, Diego wrote:

> Hi John, two more question.
> 
> Now that it compiled fine I don't understand how to indicate what compiler it should use: pgi, intel and gcc.
> 
> Is there a module I should upload, like the hdf5 one?
> 
> And finally, can you also send me a type of the batch script (ie the script with all the info for qsub)?
> 
> Cheers.
> 
> D

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