<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div>Hi Laurel, </div><div><br></div><div>Paul has fixed the issue with TO being listed with the status of parsing error. I believe this was a consequence of an issue with a release pushed out last Thursday. Before this time, it looks like the automatic pull for TO was working correctly after the URL change and new versions of TO are currently set to be loaded automatically via the specified URL.</div><div><br></div><div>Trish </div><div><br></div><br><div><div>On May 7, 2012, at 10:11 AM, Trish Whetzel wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div>Hi Laurel, </div><div><br></div><div>I can take a first pass at reviewing this new issue. To get a few more details, are you trying to load the attached OBO format file as a new version of the Plant Trait Ontology [1] and when the file is loaded what error message is returned from BioPortal? </div><div><br></div><div>Trish </div><div><br></div><div>[1] <a href="http://bioportal.bioontology.org/ontologies/1037">http://bioportal.bioontology.org/ontologies/1037</a></div><div><br></div><br><div><div>On May 7, 2012, at 9:25 AM, Laurel Cooper wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">
  
    <meta content="text/html; charset=ISO-8859-1" http-equiv="Content-Type">
  
  <div bgcolor="#FFFFFF" text="#000000">
    I seem to be having ongoing problems with the TO parsing.  I have
    not been able to do a manual upload since Friday, so I changed it
    the back to doing the autoload from the url.  <br>
    We really need to be able to have it up for today's work though, so
    I am attaching the obo file and hoping someone there could update it
    on the site,<br>
    <br>
    Thanks, Laurel<br>
    <br>
    On 4/26/12 11:16 AM, Trish Whetzel wrote:
    <blockquote cite="mid:778FA07F-125A-4C79-AB16-28087938F4E7@stanford.edu" type="cite">
      <div>It looks like the URL for the file location was for the html
        marked up version:</div>
      <div><a moz-do-not-send="true" href="http://palea.cgrb.oregonstate.edu/viewsvn/Poc/trunk/ontology/collaborators_ontology/gramene/traits/trait.obo?view=markup">http://palea.cgrb.oregonstate.edu/viewsvn/Poc/trunk/ontology/collaborators_ontology/gramene/traits/trait.obo?view=markup</a></div>
      <div><br>
      </div>
      <div>versus for the text file:</div>
      <div><a moz-do-not-send="true" href="http://palea.cgrb.oregonstate.edu/viewsvn/Poc/trunk/ontology/collaborators_ontology/gramene/traits/trait.obo?view=co">http://palea.cgrb.oregonstate.edu/viewsvn/Poc/trunk/ontology/collaborators_ontology/gramene/traits/trait.obo?view=co</a></div>
      <div><br>
      </div>
      <div>I can update the URL if you like,</div>
      <div>Trish </div>
      <div><br>
      </div>
      <br>
      <div>
        <div>On Apr 26, 2012, at 2:05 PM, Trish Whetzel wrote:</div>
        <br class="Apple-interchange-newline">
        <blockquote type="cite">
          <div style="word-wrap: break-word; -webkit-nbsp-mode: space;
            -webkit-line-break: after-white-space; ">
            <div>Hi Laurel, </div>
            <div><br>
            </div>
            <div>I'll take a look at this.</div>
            <div><br>
            </div>
            <div>Best, </div>
            <div>Trish </div>
            <div><br>
            </div>
            <br>
            <div>
              <div>On Apr 26, 2012, at 2:01 PM, Laurel Cooper wrote:</div>
              <br class="Apple-interchange-newline">
              <blockquote type="cite">
                <meta http-equiv="content-type" content="text/html;
                  charset=ISO-8859-1">
                <div bgcolor="#FFFFFF" text="#000000"> <br>
                  <br>
                  -------- Original Message --------
                  <table class="moz-email-headers-table" border="0" cellpadding="0" cellspacing="0">
                    <tbody>
                      <tr>
                        <th align="RIGHT" nowrap="nowrap" valign="BASELINE">Subject: </th>
                        <td>parsing error- TO</td>
                      </tr>
                      <tr>
                        <th align="RIGHT" nowrap="nowrap" valign="BASELINE">Date: </th>
                        <td>Thu, 26 Apr 2012 10:56:29 -0700</td>
                      </tr>
                      <tr>
                        <th align="RIGHT" nowrap="nowrap" valign="BASELINE">From: </th>
                        <td>Laurel Cooper <a moz-do-not-send="true" class="moz-txt-link-rfc2396E" href="mailto:cooperl@science.oregonstate.edu"><cooperl@science.oregonstate.edu></a></td>
                      </tr>
                      <tr>
                        <th align="RIGHT" nowrap="nowrap" valign="BASELINE">To: </th>
                        <td>Trish Whetzel <a moz-do-not-send="true" class="moz-txt-link-rfc2396E" href="mailto:whetzel@stanford.edu"><whetzel@stanford.edu></a></td>
                      </tr>
                    </tbody>
                  </table>
                  <br>
                  <br>
                  <pre>The TO parsing failed this am, do you know why?  Or maybe you an direct 
me to someone else who can help,
Thanks,
Laurel

-- 
**********************************************************
Laurel (Lol) Cooper, PhD
Coordinator, Plant Ontology Consortium
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Rm 3086, Cordley Hall
Oregon State University
Corvallis, OR 97331
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    <pre class="moz-signature" cols="72">-- 
**********************************************************
Laurel (Lol) Cooper, PhD
Coordinator, Plant Ontology Consortium
Dept. of Botany and Plant Pathology
Rm 3086, Cordley Hall
Oregon State University
Corvallis, OR 97331
Web: <a class="moz-txt-link-abbreviated" href="http://www.plantontology.org/">www.plantontology.org</a>

Phone: 541-737-5272
Fax: 541-737-3573
Skype: cooperlol910
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<span><trait.obo></span></blockquote></div><br>
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