RevBayes-Teaching
Category
Bioinformatics
Program On
Teaching
Version
1.1.0
Author / Distributor
Description
" Bayesian phylogenetic inference using probabilistic graphical models and an interactive language." More details are at RevBayes
Running Program
Version 1.1.0 of this application is installed as a singularity image: /apps/singularity-images/RevBayes_1.1.0.simg
No module needs to be loaded to use this version of RevBayes.
If you would like to use it with an interactive shell, please first start a qlogin session and then run
singularity run --app rb /apps/singularity-images/RevBayes_1.1.0.simg <\pre> You can run a script in a batch job by using the following line in your job submission script: <pre class="gscript"> singularity run --app rb /apps/singularity-images/RevBayes_1.1.0.simg myscript.rev
where myscript.rev is a sample name for a RevBayes script.
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
singularity run --app rb /apps/singularity-images/RevBayes_1.1.0.simg myscript.rev
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
Please see http://revbayes.github.io
Installation
Singularity image obtained from RevBayes
System
64-bit Linux