BEAST
BEAST is a program for the analysis of molecular sequences using Baysian Markov
chain Monte Carlo methods. It can be used together with the BEAGLE library,
which provides optimised routines for Baysian and Maximum Likelihood
calculations and can make use of GPUs.
If a GPU is required, this must be requested as a generic resource via the
option
--gres, as shown in the example below:
#SBATCH --job-name=beast_beagle
#SBATCH --mail-user=your.name@fu-berlin.de
#SBATCH --mail-type=end
#SBATCH --partition=gpu
#SBATCH --gres=gpu:1
#SBATCH --ntasks=1
#SBATCH --mem=5000
#SBATCH --time=1-00:00:00
module load beagle beast
cd /scratch/yourname/beast/
beast_beagle -overwrite -beagle_GPU data.xml > output.txt
Here the generic resource is
gpu and the number of resources is
1. Note
that it is also necessary to specify the BEAST option
-beast_GPU.
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