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

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Installation notes for Muscle version 3.8.31 - July 25, 2012

Home Page

Default version is 3.8.31 which is installed as /usr/local/bin/muscle

Version 3.8.31b - Dec 15, 2011 from http://dna.cs.byu.edu/msa/ is installed as /usr/local/bin/muscle3.8.31b

Version 3.8.425 - Jan 4, 2013 from the Home Page is installed as /usr/local/bin/muscle3.8.425

Version 3.8.1551 - July 12, 2014 compiled from source from the Home Page (see instructions below) is installed as /usr/local/bin/muscle3.8.1551

Prerequisites

None

Installation

  1. $ cd /programinstallers/
  2. $ wget -N http://www.drive5.com/muscle/downloads3.8.31/muscle3.8.31_i86linux64.tar.gz
  3. $ cd /usr/local/bin
  4. $ tar -zxvf /programinstallers/muscle3.8.31_i86linux64.tar.gz
    muscle3.8.31_i86linux64
  5. $ ln -s muscle3.8.31_i86linux64 muscle

Installation from source

  1. $ ver="3.8.1551" #Source files are dated July 12, 2014
  2. $ cd /programinstallers/
  3. $ wget -N http://www.drive5.com/muscle/muscle_src_$ver.tar.gz
  4. $ cd /usr/local/bin
  5. Tarbomb warning!
  6. $ mkdir muscle_$ver && cd muscle_$ver
  7. $ tar -zxvf /programinstallers/muscle_src_$ver.tar.gz
  8. $ make
  9. $ mv muscle ../muscle$ver
  10. Cleanup
    $ cd .. && rm muscle_$ver -rf