Command-line PAUP* on Intel-based Mac OS X

Post date: Jul 21, 2014 12:57:10 PM

These are short notes to remind me how to install and execute the command-line PAUP* on Mac OS X (or other UNIX/Linux system):

1. Download the "portable" version of PAUP* from here: http://paup.scs.fsu.edu/downloads/

2. Save the download to: /Users/[your user name]/

3. Open Terminal

4. Type the following commands:

• • tar -xf ./paup4b10-x86-macosx.tar

  • cd paup4b10-x86-macosx

  • ./paup4b10-x86-macosx

5. If the last command doesn't start PAUP*, try:

• • file paup4b10-x86-macosx

6. After this, commands are exactly what you would type in the PC or window'ed version of the program:

• • execute [Nexus file]

  • hsearch addseq=random

  • showtrees

  • describetrees

  • etc.