RevBayes-Teaching

Category

Bioinformatics

Program On

Teaching

Version

1.0.10

Author / Distributor

RevBayes

Description

" Bayesian phylogenetic inference using probabilistic graphical models and an interactive language." More details are at RevBayes

Running Program

The last version of this application is at /usr/local/apps/gb/RevBayes/1.0.10

To use this version, please load the module with

ml RevBayes/1.0.10 

Here is an example of a shell script, sub.sh, to run on the batch queue:

#!/bin/bash
#SBATCH --job-name=j_RevBayes
#SBATCH --partition=batch
#SBATCH --mail-type=ALL
#SBATCH --mail-user=username@uga.edu
#SBATCH --ntasks=1
#SBATCH --mem=10gb
#SBATCH --time=08:00:00
#SBATCH --output=RevBayes.%j.out
#SBATCH --error=RevBayes.%j.err

cd $SLURM_SUBMIT_DIR
ml RevBayes/1.0.10
rb [options]

In the real submission script, at least all the above underlined values need to be reviewed or to be replaced by the proper values.

Please refer to Running_Jobs_on_the_teaching_cluster, Run X window Jobs and Run interactive Jobs for more details of running jobs at Teaching cluster.

Here is an example of job submission command:

sbatch ./sub.sh 

Documentation

ml RevBayes/1.0.10 
rb -h
Usage: rb [OPTIONS]
       rb [OPTIONS] <file1> [<file2> ...]
Bayesian phylogenetic inference using probabilistic graphical models and an interpreted language

Options:
  -h [ --help ]         Show information on flags.
  -v [ --version ]      Show version and exit.
  -b [ --batch ]        Run in batch mode.
  --file arg            File(s) to source.
  --setOption arg       Set an option key=value.

See http://revbayes.github.io for more information

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Installation

Source code is obtained from RevBayes

System

64-bit Linux