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[bioontology-support] [BioPortal] Evidence codes Parsing Failed
Paul R Alexander
palexander at stanford.edu
Fri Aug 31 13:16:59 PDT 2012
The URL you provided for us to pull the ontology from was an HTML view
of the OBO file. We would need a link directly to the OBO file in order
to parse the ontology properly. When you are looking at the HTML view,
there is a link on the page that says "View raw file". The link leads here:
I submitted this URL as a new version of the ontology. It should get
pulled and parsed in the next few hours.
Let me know if you have any questions.
On 8/31/12 7:13 AM, Marcus Chibucos wrote:
> Hello BioPortal,
> I am the developer of ECO, the Evidence Ontology. The other night I
> modified some of the metadata here:
> Since then, I have been getting a periodic email from BioPortal noting
> a parsing failure. I am not sure why, but perhaps if I explained my
> goal, you would be so kind as to help me get ECO back online at
> Not long ago we gave ECO its own development site, at Google Code
> rather than SourceForge. My goal was for BioPortal to pull the
> ontology from now on from here:
> So I changed the "ontology location" on the BioPortal metadata page to
> that. Is this not correct?
> We also have a subversion repository checkout, with instructions for
> checking out here:
> I would be grateful for any help you could offer in suggesting proper
> settings so that BioPortal parses ECO from our Google Code site.
> Many thanks,
> Marcus Chibucos
> Evidence Ontology (ECO)
> Institute for Genome Sciences
> University of Maryland School of Medicine
> Baltimore, Maryland 21201
> (410) 706-0885
> mchibucos at som.umaryland.edu
> On 08/31/2012 12:04 AM, support at bioontology.org wrote:
>> Evidence codes parsing failed.
>> The BioPortal team is investigating the issue.
>> Please contact support at bioontology.org if you have questions.
>> Thank you,
>> The BioPortal Team
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> bioontology-support at lists.stanford.edu
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