INSTALL
=======

There are two typical ways:

Using CPAN.  
==========

You'll want to use CPAN to install the modules by performing the 
following steps:

From the root prompt on your server, invoke the CPAN shell:

# perl -MCPAN -e shell

Once the Perl interpreter has loaded (and been configured), you can 
install modules by issuing the command install MODULENAME.

The first thing you should do is upgrade your CPAN:

cpan> install Bundle::CPAN

Once it's done, type:

cpan> reload cpan

Now, enter the following command to retrieve all of the required modules:

cpan> install OBO::Core::Ontology

Manually
========

By typing the following:

	perl Makefile.PL
	make
	make test
	make install
	
Documentation
=============

For more information about these modules, check:

 - http://search.cpan.org/~easr/ONTO-PERL/
 - http://www.cellcycleontology.org/api/doc/example00.html 
 - http://cellcycleonto.svn.sourceforge.net/viewvc/cellcycleonto/ONTO-PERL/

Third part modules
==================

1. SWISS Knife (v1.65) is used by the 'UniProtParser':

	ftp://ftp.ebi.ac.uk/pub/software/swissprot/Swissknife

2. XML::Simple (v2.16) is used by the IntAct related modules:

	http://search.cpan.org/~grantm/XML-Simple-2.16/
	
3. XML::Parser (v2.34) is used in format conversions (obo2owl and owl2obo)

	http://search.cpan.org/~msergeant/XML-Parser-2.34/

Mailing List
============

https://maillist.psb.ugent.be/mailman/listinfo/ccofriends

Bugs/comments/questions/etc
===========================

We are constantly improving this API, please report any bugs or send your comments to erant -@- psb.ugent.be.