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This queue is for tickets about the onto-perl CPAN distribution.

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The Basics
Id: 125216
Status: new
Priority: 0/
Queue: onto-perl

Owner: Nobody in particular
Requestors: isabelle.wells [...]

Bug Information
Severity: (no value)
Broken in: (no value)
Fixed in: (no value)

Subject: unknown oboContentUrl in
Date: Thu, 26 Apr 2018 16:17:42 +0200
To: bug-onto-perl [...]
From: "Wells, Isabelle" <isabelle.wells [...]>
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Hello, I've downloaded and installed ONTO-PERL-1.45 as I would like to use the script to translate the GeneOntology OBO file into OWL format. However using both or on the 2 .obo files listed at (as of 26.04.2018) returns the same error message. eg the command: perl -f go-basic.obo returns: Use of uninitialized value $oboContentUrl in pattern match (m//) at /pstore/home/wellsi/perl5/lib/perl5/OBO/Core/ line 2933. OWL export: you must provide a valid URL, e.g. export('owl', *STDOUT, *STDERR, '') at /pstore/home/wellsi/perl5/lib/perl5/OBO/Core/ line 2933. OBO::Core::Ontology::export2owl(OBO::Core::Ontology=HASH(0x1b42118), GLOB(0x7eeee8), GLOB(0x7eef48), undef, undef) called at /pstore/home/wellsi/perl5/lib/perl5/OBO/Core/ line 4252 OBO::Core::Ontology::export(OBO::Core::Ontology=HASH(0x1b42118), "owl", GLOB(0x7eeee8), GLOB(0x7eef48), undef, undef) called at /pstore/home/wellsi/perl5/bin/ line 56 Is there something like a defined URL expected in the obo files? Many thanks, Isabelle

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