[Bioperl-l] Bio::Ontology::OBOEngine for parsing obo files?
hlapp at drycafe.net
Tue Dec 15 17:05:10 EST 2009
That shouldn't happen I suppose, but you're not supposed really to use
the engine directly. Rather it will be used as a backing parser by the
Bio::OntologyIO parser you choose. Have you tried that route and found
it not to work?
On Dec 15, 2009, at 4:37 PM, Nathan Liles wrote:
> Is the Bio::Ontology::OBOEngine module working or being currently
> maintained? I tried following the documentation in the module:
> * use Bio::Ontology::OBOEngine;
> my $parser = Bio::Ontology::OBOEngine->new
> ( -file => "gene_ontology.obo" );
> my $engine = $parser->parse();
> *But, it throws an error when I run the file saying 'Can't locate
> method "parse" '. Does anyone have any experience getting this module
> working; or, is there any alternative bioperl module to extract
> terms and
> relationships out of sequence ontology files?
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
: Hilmar Lapp -:- Durham, NC -:- hlapp at drycafe dot net :
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