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#16 Uberon PURLs

open
Nick Juty
None
2015-04-07
2014-04-21
Chris Mungall
No

I'm the lead developer of uberon

When I go here
http://info.identifiers.org/uberon/UBERON:0007225

I see links to OLS and BioPortal, but not to the official PURL, http://purl.obolibrary.org/obo/UBERON_0007225

Can you add this?

Related

Request new collection: #16

Discussion

  • Nick Juty

    Nick Juty - 2014-04-22

    Hi Chris,

    Thanks for your query.

    Our plan in the very near future is to record PURLs such as these (and other URIs) to provide a URI interconversion service through identifiers.org URIs. In general, at the moment, we tend to record primarily the final resolving locations.

    The other thing, that I have found this on a fairly frequent basis, is that your URL does not work. It gets redirected to http://www.ontobee.org/browser/rdf.php?o=UBERON&iri=http://purl.obolibrary.org/obo/UBERON_0007225, which gives the message:

    "Term Not Found

    We are sorry that your request did not return any expected result. Here is a list of possible reasons:

    Your requested term has been deprecated
The ontology that contains the term has not been updated
Whoops! Our program has an unhandled and unexpected error in processing your request."

    I hope that clarifies things a little, but feel free to contact us if you have any further questions.

    cheers,

    Nick

     

    • Chris Mungall

      Chris Mungall - 2014-04-22

      Looks like there is a problem with OntoBee - Oliver can you fix?

      If identifiers.org points at the PURL we can start to get an exact
      number for the % uptime which would be useful for us.

      Nick, I would prefer the PURL was registered as that way I don't have to
      change things twice if we end up using a different resolver

      On 22 Apr 2014, at 3:50, Nick Juty wrote:

      Hi Chris,

      Thanks for your query.

      Our plan in the very near future is to record PURLs such as these (and
      other URIs) to provide a URI interconversion service through
      identifiers.org URIs. In general, at the moment, we tend to record
      primarily the final resolving locations.

      The other thing, that I have found this on a fairly frequent basis, is
      that your URL does not work. It gets redirected to
      http://www.ontobee.org/browser/rdf.php?o=UBERON&iri=http://purl.obolibrary.org/obo/UBERON_0007225,
      which gives the message:

      "Term Not Found

      We are sorry that your request did not return any expected result.
      Here is a list of possible reasons:

      Your requested term has been deprecated
      The ontology that contains the term has not been updated
      Whoops! Our program has an unhandled and unexpected error in
      processing your request."

      I hope that clarifies things a little, but feel free to contact us if
      you have any further questions.

      cheers,

      Nick

      ** [new-collection:#16] Uberon PURLs**

      Status: open
      Created: Mon Apr 21, 2014 11:07 PM UTC by Chris Mungall
      Last Updated: Mon Apr 21, 2014 11:07 PM UTC
      Owner: nobody

      I'm the lead developer of uberon

      When I go here
      http://info.identifiers.org/uberon/UBERON:0007225

      I see links to OLS and BioPortal, but not to the official PURL,
      http://purl.obolibrary.org/obo/UBERON_0007225

      Can you add this?

      Sent from sourceforge.net because you indicated interest in
      https://sourceforge.net/p/identifiers-org/new-collection/16/

      To unsubscribe from further messages, please visit
      https://sourceforge.net/auth/subscriptions/

       

      Related

      Request new collection: #16

      • Oliver He

        Oliver He - 2014-04-22

        The Ontobee virtuoso database was broken last midnight when it was trying to upload the newest version of GO and failed.
        I have resumed it now. It should be fine now.
        Thanks,
        Oliver

        -----Original Message-----
        From: Chris Mungall [mailto:cjmungall@lbl.gov]
        Sent: Tuesday, April 22, 2014 10:41 AM
        To: [identifiers-org:new-collection]; He, Yongqun
        Subject: Re: [identifiers-org:new-collection] #16 Uberon PURLs

        Looks like there is a problem with OntoBee - Oliver can you fix?

        If identifiers.org points at the PURL we can start to get an exact number for the % uptime which would be useful for us.

        Nick, I would prefer the PURL was registered as that way I don't have to change things twice if we end up using a different resolver

        On 22 Apr 2014, at 3:50, Nick Juty wrote:

        Hi Chris,

        Thanks for your query.

        Our plan in the very near future is to record PURLs such as these (and
        other URIs) to provide a URI interconversion service through
        identifiers.org URIs. In general, at the moment, we tend to record
        primarily the final resolving locations.

        The other thing, that I have found this on a fairly frequent basis, is
        that your URL does not work. It gets redirected to
        http://www.ontobee.org/browser/rdf.php?o=UBERON&iri=http://purl.obolib
        rary.org/obo/UBERON_0007225,
        which gives the message:

        "Term Not Found

        We are sorry that your request did not return any expected result.
        Here is a list of possible reasons:

        Your requested term has been deprecated The ontology that contains
        the term has not been updated Whoops! Our program has an unhandled
        and unexpected error in processing your request."

        I hope that clarifies things a little, but feel free to contact us if
        you have any further questions.

        cheers,

        Nick

        ** [new-collection:#16] Uberon PURLs**

        Status: open
        Created: Mon Apr 21, 2014 11:07 PM UTC by Chris Mungall Last
        Updated:         Mon Apr 21, 2014 11:07 PM UTC
        Owner: nobody

        I'm the lead developer of uberon

        When I go here
        http://info.identifiers.org/uberon/UBERON:0007225

        I see links to OLS and BioPortal, but not to the official PURL,
        http://purl.obolibrary.org/obo/UBERON_0007225

        Can you add this?

        Sent from sourceforge.net because you indicated interest in
        https://sourceforge.net/p/identifiers-org/new-collection/16/

        To unsubscribe from further messages, please visit
        https://sourceforge.net/auth/subscriptions/

        Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues

         

        Related

        Request new collection: #16

    • Nick Juty

      Nick Juty - 2014-04-22

      Hi Chris,

      Thanks for getting back to me, and to Oliver for fixing the OntoBee issue.

      I was about to do as you requested, and add the OBO PURL for UBERON, but I have run into a problem; can you tell me if the official UBERON identifier derived from 'UBERON:' or 'UBERON_'? Right now we have OLS and BioPortal using a colon, and OntoBee using an underscore. The Registry entry has it listed with a colon. I guess as lead developer, you should have the final say.

      I'd be grateful to hear any suggestions you may have that would assist us in getting your PURL listed.

      cheers

      Nick

       

  • Camille Laibe

    Camille Laibe - 2015-04-07
    • assigned_to: Nick Juty
     

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