Carrot root and DNA VCRU Bioinformatics USDA ARS Vegetable Crops Research Unit

This page was last updated on Wednesday, 12-Apr-2017 13:03:02 CDT

Installation notes for BEAST version 1.8.4

Home Page

Prerequisites

BEAGLE (beagle-lib)

Installation

  1. $ ver="1.8.4"
  2. $ cd /programinstallers/
  3. $ wget -N https://github.com/beast-dev/beast-mcmc/releases/download/v$ver/BEASTv$ver.tgz
  4. $ cd /usr/local/bin
  5. $ tar -zxvf /programinstallers/BEASTv$ver.tgz
  6. Make a version-independent symlink
    $ ln -s BEASTv$ver BEAST
  7. Add to default PATH
    $ sudo nano /etc/profile

    PATH="$PATH:/usr/local/bin/BEAST/bin"
  8. Test beagle library
  9. $ beast -beagle_info

    Using BEAGLE library v2.1.2 for accelerated, parallel likelihood evaluation
    2009-2013, BEAGLE Working Group - http://beagle-lib.googlecode.com/
    Citation: Ayres et al (2012) Systematic Biology 61: 170-173 | doi:10.1093/sysbio/syr100
    
    
    BEAGLE resources available:
    0 : CPU
        Flags: PRECISION_SINGLE PRECISION_DOUBLE COMPUTATION_SYNCH EIGEN_REAL EIGEN_COMPLEX SCALING_MANUAL SCALING_AUTO SCALING_ALWAYS SCALERS_RAW SCALERS_LOG VECTOR_SSE VECTOR_NONE THREADING_NONE PROCESSOR_CPU FRAMEWORK_CPU