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PROGRAM:

NAME


go-show-paths-to-root.pl - shows all possible paths from a term to the top

SYNOPSIS


go-show-paths-to-root.pl -id GO:0008021 ontology/gene_ontology.obo
go-show-paths-to-root.pl -names -id GO:0008021 ontology/gene_ontology.obo

DESCRIPTION


traverses DAG showing all paths (terms and intervening relationships) to the root

This script is purely file based; it needs to parse the ontology each time

Subsequent parses can be speeded up using the use_cache option

If you wish to use the GO MySQL db, see the script go-db-show-paths-to-root.pl in the go-
db-perl distribution

ARGUMENTS


-e ERRFILE

writes parse errors in XML - defaults to STDERR (there should be no parse errors in well
formed files)

-p FORMAT

determines which parser to use; if left unspecified, will make a guess based on file
suffix. See below for formats

-use_cache
If this switch is specified, then caching mode is turned on.

With caching mode, the first time you parse a file, then an additional file will be
exported in a special format that is fast to parse. This file will have the same filename
as the original file, except it will have the ".cache" suffix.

The next time you parse the file, this program will automatically check for the existence
of the ".cache" file. If it exists, and is more recent than the file you specified, this
is parsed instead. If it does not exist, it is rebuilt.

DOCUMENTATION
<http://www.godatabase.org/dev>

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