- Description: MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. MrBayes uses Markov chain Monte Carlo (MCMC) methods to estimate the posterior distribution of model parameters.
- Versions: 3.2.6
- Module names: mrbayes/gcc/3.2.6
- License: Available to all; GNU General Public License version 2.0 (GPLv2)
|mb||Single core and/or interactive|
|mb-mpi||OpenMPI parallel version. Needs to be run with mpirun and following flags mpirun -mca pml cm -mca mtl psm2 mb-mpi|
[username@c170 ~]$ mb MrBayes v3.2.6 x64 (Bayesian Analysis of Phylogeny) Distributed under the GNU General Public License Type "help" or "help <command>" for information on the commands that are available. Type "about" for authorship and general information about the program. MrBayes >
A better approach is to submit a MrBayes task as a parallel batch submission to run across multiple nodes, an example of which is:
#!/bin/bash #SBATCH -J MrBTest # Job name, you can change it to whatever you want #SBATCH -N 4 # Number of nodes to run across #SBATCH -n 100 # Number of cores to run across #SBATCH -o %N-%j.log # Standard output will be written here #SBATCH -e %N-%j.err # Standard error will be written here #SBATCH -p compute # Slurm partition, where you want the job to be queued module add openmpi/gcc/1.10.5 mrbayes/gcc/3.2.6 mpirun -mca pml cm -mca mtl psm2 mb-mpi input_nex_file.nex
The options for mpirun are required to make use of the Omni-Path interconnect.
This submission script can be found at /path/to/sample/script
[username@login01 ~]$ sbatch MRBayes.job Submitted batch job 289555