UMBC High Performance Computing Facility
How to run MrBayes on tara
is a program for Bayesian inference and model choice across a wide
range of phylogenetic and evolutionary models.
To run the MrBayes software interactively on the front-end node of
tara, use the command
We will now demonstrate running MrBayes on the compute nodes. This was adpated
First, make sure to update your switcher settings as follows
[araim1@tara-fe1 ~]$ switcher mpi = gcc-mvapich2-1.4rc2
[araim1@tara-fe1 ~]$ switcher_reload
This is necessary to match the compiler and MPI implementation originally
used to configure MrBayes. Next create a .nex file as follows, with your
contents instead of the placeholders.
Now create a small script with commands to execute the .nex file
The last step is to create a usual SLURM batch script. This script will
run the MrBayes program on the compute nodes; the program will be run in
parallel if multiple processes are requested. MyBayes will then run batch.txt,
which will in turn execute our .nex file.
srun mb batch.txt
Make sure you have read the
how to run
tutorial before attempting to use the batch system.