NAME

       gmod_make_cvtermpath.pl - calculates the transitive closure on the ontology terms in the
       cvterm table

USAGE

        perl gmod_make_cvtermpath.pl -H [dbhost] -D [dbname]  [-vt] -c cvname
        perl gmod_make_cvtermpath.pl -g [GMODConf_profile] -c cvname

   Parameters
       -c   Name of ontology (cv.name) to compute the transitive closure on. (Required)

       -v   Verbose output

       -t   Trial mode. Do not perform any store operations at all. (Not implemented)

       -o   outfile for writing errors and verbose messages (optional)

       -g   GMOD database profile name (can provide host and DB name) Default: 'default'

   If not using a GMOD database profile (option -g) then you must provide the following
       parameters
       -D   Database name

       -H   Hostname

       -d   Database driver name (e.g. 'Pg' for postgres)

       -u   [Optional- if default user is not used] Database user name

       -p   [Optional- if you need a password to connect to your database] Password for your user
            to connect to the database

DESCRIPTION

       This script calculates the transitive closure on the ontology terms in the cvterm table.
       As this is a computationaly intensive operation, doing so on a large cv like the Gene
       Ontology can take several hours.  For more information on what a transative closure is,
       please see:

         http://www.geneontology.org/GO.database.shtml#graphs

AUTHOR

       Naama Menda <nm249@cornell.edu>

VERSION AND DATE

       Version 1.2, Feb. 2011.