ART is an ancestral reconstruction tool . . .
NAVIGATE: overview | getting started | installation | contents | command-line syntax | projects | ART output
To install ART, follow these instructions:
ART stores ancestral data in MySQL. You should install MySQL on the same machine as ART. Create a database named 'ancrecon'. That's it, ART will generate any necessary tables.
ART uses perl scripts and therefore requires a perl interpreter. We built ART with perl version 5.6.8, but other versions will probably be okay.
ART uses codeML for maximum-likelihood analysis. CodeML should be installed on the same machine as ART, and codeML should be executable from the '.' path. (That is, codeML should be executable from anywhere on the system).
Deploy the ART package into a directory which you have read/write access. For example, '~/your username/acrecon' is a good place. Click here for more information about ART's directory structure. After you deploy the package (and if you followed steps 1-3), ART should be ready to use.
ART needs to know where to store your ART projects. Someday, we'll get a team of interns to build a fancy installation package and this step won't be necessary.
Copy this file into your home directory. (On a Mac, your home directory is '/Users/your-name'). Everytime you login, this script will set your personal ART directory as '/Users/your-name/myart'. If you want your personal ART directory to be something else, then don't be afraid to modify the script.
Copy these lines into a startup script, such as .bashrc or .bash_profile.
#!## ART points to where art.pl lives:export ART=/common/share/art/# ARTHOME points to your personal working directory:export ARTHOME=~/myart# This ensures that you can run the ART program:export PATH=$PATH:$ART