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Old releases:

None

Prerequisites

Unless you have used the Windows installer, you will need to ensure you have everything you need to run IndelExtractor, and this will depend what Operating System you wish to run it on. Here are some guidelines:

Installation/running

Windows

If you have used the Windows Installer version, you will not need anything else! However, if you are using the source code you will need to download and install ActiveState's distribution of Perl 5.8 (which includes Perl/Tk - used for the Graphical Interface), Bioperl (core) v1.4 or greater.

NOTE: because of a bug in Perl/Tk for Windows, IndelExtractor cannot run clustalw to generate alignments. Therefore, windows does not require Bioperl-run.

Next, unpack the IndelExtractor source file (a folder called 'IndelExtractor' will be created), if ActivePerl installed correctly, IndelExtractor.pl should run in GUI mode if double-clicked, otherwise you will have to execute it from the command line (command prompt):

1. Open a command prompt (usually in the Start >> accessories menu)
   
2. Change to the IndelExtractor directory by typing:
   
   prompt> cd <path>
   Where <path> is the path where you unpacked IndelExtractor to
3. To start IndelExtractor in GUI mode, type:
   
   prompt> perl IndelExtractor.pl
4. To start IndelExtractor in command-line mode, type:
   
   prompt> perl IndelExtractor.pl <options/arguments>
   Where <options/arguments> are the arguments you wish to pass to IndelExtractor

Linux/UNIX

Many distributions of Linux/UNIX should come with Perl and Perl/Tk. You will however need to install Bioperl (core) v1.4 or greater and Bioperl (run) v1.4 or greater. Provided these are installed, you can execute IndelExtractor.pl from the IndelExtractor directory using the command-line.

1. To start IndelExtractor in GUI mode:
   
   prompt> perl IndelExtractor.pl
2. To start IndelExtractor in command-line mode:
   
   prompt> perl IndelExtractor.pl <options/arguments>
   Where <options/arguments> are the arguments you wish to pass to IndelExtractor

Other Modules

Any other modules required for the installation of the above mentioned modules may be found by searching CPAN.

©2004-2005 Nathan Haigh