Description

From the MEGA web site: MEGA is an integrated tool for conducting automatic and manual sequence alignment, inferring phylogenetic trees, mining web-based databases, estimating rates of molecular evolution, and testing evolutionary hypotheses.

• MEGA Home Page

Version

• 4.02

Authorized Users

• CIRCE account holders

Platforms

• CIRCE cluster

Running MEGA on CIRCE

The following describes what is necessary to run MEGA on CIRCE.

Modules

MEGA requires the following module file and some prerequisites to run:

• apps/mega/4.02

Installing MEGA

Prior to the first time running MEGA, you will need to install the application to your work directory. This is necessary because the application attempts to writes configuration settings to the application directory. Because of this behavior the program works much better when it is copied to a users work directory.

[johndoe@login1 ~]$ mkdir /work/j/johndoe/mega
[johndoe@login1 ~]$ cd /work/j/johndoe/mega
[johndoe@login1 mega]$ /opt/apps/mega/4.02/install-mega

Starting MEGA

Before you login to CIRCE, you need to make sure you have X11 Forwarding enabled. If you’re logging in from a UNIX/Linux system, you will need to do the following:

ssh -Y user@circe.rc.usf.edu

 
Simply type mega at the command prompt AFTER loading the proper module (see above) in your terminal window. If you have properly configured an X11 session, you should see the full MEGA interface. If this is your first time using MEGA, you will need to follow the on screen instructions for the Mozilla ActiveX plugin and then MEGA should load normally.

For Windows, Mac, and Linux users, MEGA can also be launched through the CIRCE Desktop Environment using a terminal. For more information about the CIRCE Desktop Environment, please see our CIRCE Desktop Environment documentation.

Additional Documentation

• MEGA Home Page
  • http://www.megasoftware.net/

Reporting Bugs

Report bugs with MEGA to the IT Help Desk: rc-help@usf.edu