<div><div>Dear Trish and Paul,</div><div>sorry for my late reply, but now everything works, both i2b2-ncbo tool and the view information editing page :) </div><div><br></div><div>Just want to inform you better about what happened with the i2b2-ncbo tool. </div>
<div>First i've modified the tool in order to extract virtual ontology, and it  worked well with all the other </div><div>view (eg neoplasm_hamartoma --> ID 2085)</div><div>Before you've parsed the subtree i didn't get a specific error but the file i get was empty, that never happened with other virtual ontology i used in the past. As i could understand the problem was due to the SNOMED-CT version i've used. </div>
<div><br></div><div>Thanks very much for your precious help.</div><div>Best</div><div>Arianna</div></div><div><div><br></div><div><br><br><div class="gmail_quote">2012/5/14 Trish Whetzel <span dir="ltr"><<a href="mailto:whetzel@stanford.edu" target="_blank">whetzel@stanford.edu</a>></span><br>

<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div style="word-wrap:break-word"><div>Also, the latest version of the Body Structure subtree from SNOMED-CT [1] is now parsed and I have confirmed it can be accessed via the NCBO Web services. I believe it should also be ready for use with the i2b2-ncbo extraction tool.</div>


<div><br></div><div>Trish </div><div><br></div><div>[1] <a href="http://bioportal.bioontology.org/ontologies/48006?p=terms" target="_blank">http://bioportal.bioontology.org/ontologies/48006?p=terms</a></div><div><div>
<div><br></div><br><div><div>On May 14, 2012, at 11:35 AM, Paul R Alexander wrote:</div><br><blockquote type="cite">
  
    
  
  <div bgcolor="#FFFFFF" text="#000000">
    Editing the view information should now work properly. Sorry for the
    inconvenience.<br>
    <br>
    Paul R Alexander<br>
    Senior Software Engineer<br>
    NCBO BioPortal<br>
    Stanford Center for Biomedical Informatics Research<br>
    <br>
    <br>
    <div>On 5/14/12 9:51 AM, Trish Whetzel
      wrote:<br>
    </div>
    <blockquote type="cite">
      <div>Hi Arianna,</div>
      <div><br>
      </div>
      <div>You are listed as the admin for the new version so I'm not
        sure why selecting the Admin tab option "Edit View Information"
        is re-directing you to the "Home" page. Paul, do you know why
        this is happening?</div>
      <div><br>
      </div>
      <div>What error message is the i2b2-ncbo extraction tool
        returning? Are you using the ontology version id "48004" with
        the tool? The latest version, 48006, did not complete parsing
        and we will look into this. </div>
      <div><br>
      </div>
      <div>Trish </div>
      <div><br>
      </div>
      <br>
      <div>
        <div>On May 14, 2012, at 8:15 AM, arianna dagliati wrote:</div>
        <br>
        <blockquote type="cite">Dear Trish,
          <div>you can find the screenshot attached. </div>
          <div>I'm using the NCBO Extraction tool package that you find
            at this link <a href="https://community.i2b2.org/wiki/display/NCBO/NCBO+Ontology+Tools" target="_blank">https://community.i2b2.org/wiki/display/NCBO/NCBO+Ontology+Tools</a></div>
          <div><br>
          </div>
          <div>Arianna<br>
            <br>
            <div class="gmail_quote">2012/5/14 Trish Whetzel <span dir="ltr"><<a href="mailto:whetzel@stanford.edu" target="_blank">whetzel@stanford.edu</a>></span><br>
              <blockquote class="gmail_quote" style="margin-top:0px;margin-right:0px;margin-bottom:0px;margin-left:0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex">



                <div style="word-wrap:break-word">
                  <div>BioPortal is designed to support multiple
                    versions of ontologies, therefore I'm not sure that
                    is the issue. Can you send a screenshot of the page
                    with the Administer link, is it the page: <a href="http://bioportal.bioontology.org/ontologies/2105?p=terms" target="_blank">http://bioportal.bioontology.org/ontologies/2105?p=terms</a>
                    ?</div>
                  <div><br>
                  </div>
                  <div>Also, is this the link for the i2b2 ncbo tool you
                    refer to: <a href="http://i2b2.bioontology.org/" target="_blank">http://i2b2.bioontology.org/</a></div>
                  <span><font color="#888888">
                      <div>
                        <br>
                      </div>
                      <div>Trish </div>
                    </font></span>
                  <div>
                    <div>
                      <div><br>
                      </div>
                      <br>
                      <div>
                        <div>On May 14, 2012, at 3:21 AM, arianna
                          dagliati wrote:</div>
                        <br>
                        <blockquote type="cite">Dear Trish,
                          <div>i'm sorry to disturb you again, but i
                            still can't use the i2b2 ncbo tool through
                            ncbo rest service, i think it's due to the
                            duplication of the view (mine, wrong, in
                            owl/xml and the one you've uploaded in the
                            correct rdf/owl format). </div>
                          <div>is it possible for you to delete the
                            wrong one? </div>
                          <div>i think there could be a bug because when
                            i click on administer --> edit version
                            i'm redirected to the bioportal homepage.</div>
                          <div><br>
                          </div>
                          <div>Thanks!</div>
                          <div><br>
                          </div>
                          <div>Best</div>
                          <div>Arianna<br>
                            <br>
                            <div class="gmail_quote">2012/5/7 arianna
                              dagliati <span dir="ltr"><<a href="mailto:aridag@gmail.com" target="_blank">aridag@gmail.com</a>></span><br>
                              <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
                                Dear Trish,
                                <div>thank you very much for your help!</div>
                                <div><br>
                                </div>
                                <div>Best</div>
                                <div><span><font color="#888888">Arianna</font></span>
                                  <div>
                                    <div><br>
                                      <div><br>
                                        <div class="gmail_quote">2012/5/4
                                          Trish Whetzel <span dir="ltr"><<a href="mailto:whetzel@stanford.edu" target="_blank">whetzel@stanford.edu</a>></span><br>
                                          <blockquote class="gmail_quote" style="margin-top:0px;margin-right:0px;margin-bottom:0px;margin-left:0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex">



                                            <div style="word-wrap:break-word">
                                              <div>Hi Arianna, </div>
                                              <div><br>
                                              </div>
                                              <div>The file was saved as
                                                OWL/XML, but needs to be
                                                saved as RDF/XML for
                                                loading into BioPortal.
                                                I've re-loaded the the
                                                RDF/XML formatted file.</div>
                                              <span><font color="#888888">
                                                  <div><br>
                                                  </div>
                                                  <div>Trish </div>
                                                </font></span>
                                              <div>
                                                <div>
                                                  <div><br>
                                                  </div>
                                                  <br>
                                                  <div>
                                                    <div>On May 3, 2012,
                                                      at 11:23 AM, Trish
                                                      Whetzel wrote:</div>
                                                    <br>
                                                    <blockquote type="cite">
                                                      <div style="word-wrap:break-word">
                                                        <div>We'll take
                                                          a look at
                                                          this.</div>
                                                        <div><br>
                                                        </div>
                                                        <div>Trish </div>
                                                        <div><br>
                                                        </div>
                                                        <br>
                                                        <div>
                                                          <div>On May 3,
                                                          2012, at 2:45
                                                          AM, <a href="mailto:support@bioontology.org" target="_blank">support@bioontology.org</a>
                                                          wrote:</div>
                                                          <br>
                                                          <blockquote type="cite">
                                                          <div><br>
                                                          Name: aridag<br>
                                                          <br>
                                                          Email: <a href="mailto:aridag@gmail.com" target="_blank">aridag@gmail.com</a><br>
                                                          <br>
                                                          Location: <a href="http://bioportal.bioontology.org/" target="_blank">http://bioportal.bioontology.org/</a><br>
                                                          <br>
                                                          Comment:<br>
                                                          Dear NCBO
                                                          support,<br>
                                                          i've submitted
                                                          a SNOMED view
                                                          ontology last
                                                          week.<br>
=======================<br>
                                                          Description:
                                                          The Body
                                                          Structure
                                                          subtree in
                                                          SNOMED-CT<br>
                                                          Ontology ID:
                                                          2105<br>
=======================<br>
                                                          but i got an
                                                          error back
                                                          accessing it (<a href="http://bioportal.bioontology.org/ontologies/2105?p=terms" target="_blank">http://bioportal.bioontology.org/ontologies/2105?p=terms</a>)
                                                          and i can't
                                                          use the
                                                          extraction
                                                          rest service
                                                          (for i2b2 NCBO
                                                          tool).<br>
                                                          <br>
                                                          Could you
                                                          please advice
                                                          me if there's
                                                          anything wrong
                                                          with the owl
                                                          file i've
                                                          uploaded? or
                                                          it's just a
                                                          matter of time
                                                          you need to
                                                          process the
                                                          view?<br>
                                                          <br>
                                                          Thank you.<br>
                                                          Best <br>
                                                          Arianna - <a href="mailto:aridag@gmail.com" target="_blank">aridag@gmail.com</a><br>
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                                                          </div>
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                                                        </div>
                                                        <br>
                                                        <div>
                                                          <span style="border-collapse:separate;font-family:Arial;font-style:normal;font-variant:normal;font-weight:normal;letter-spacing:normal;line-height:normal;text-align:-webkit-auto;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;font-size:medium"><span style="text-align:-webkit-auto;text-indent:0px">
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Trish
                                                          Whetzel, PhD</div>
                                                          <div style="line-height:normal;border-collapse:separate;letter-spacing:normal;font-variant:normal;text-transform:none;font-style:normal;font-size:12px;white-space:normal;font-family:Arial;font-weight:normal;word-spacing:0px">


Outreach
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The
                                                          National
                                                          Center for
                                                          Biomedical
                                                          Ontology</div>
                                                          <div style="line-height:normal;border-collapse:separate;letter-spacing:normal;font-variant:normal;text-transform:none;font-style:normal;font-size:12px;white-space:normal;font-family:Arial;font-weight:normal;word-spacing:0px">


Ph:
                                                          650-721-2378</div>
                                                          <div style="line-height:normal;border-collapse:separate;letter-spacing:normal;font-variant:normal;text-transform:none;font-style:normal;font-size:12px;white-space:normal;font-family:Arial;font-weight:normal;word-spacing:0px">


<a href="http://www.bioontology.org/" target="_blank">http://www.bioontology.org</a></div>
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          <span><Schermata 2012-05-14 a 17.08.24.png></span></blockquote>
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        <span style="border-collapse:separate;font-family:Arial;font-style:normal;font-variant:normal;font-weight:normal;letter-spacing:normal;line-height:normal;text-align:-webkit-auto;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;font-size:medium"><span style="text-align:-webkit-auto;text-indent:0px">
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Trish
                              Whetzel, PhD</div>
                            <div style="line-height:normal;border-collapse:separate;letter-spacing:normal;font-variant:normal;text-transform:none;font-style:normal;font-size:12px;white-space:normal;font-family:Arial;font-weight:normal;word-spacing:0px">


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                              Coordinator</div>
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The
                              National Center for Biomedical Ontology</div>
                            <div style="line-height:normal;border-collapse:separate;letter-spacing:normal;font-variant:normal;text-transform:none;font-style:normal;font-size:12px;white-space:normal;font-family:Arial;font-weight:normal;word-spacing:0px">


Ph:
                              650-721-2378</div>
                            <div style="line-height:normal;border-collapse:separate;letter-spacing:normal;font-variant:normal;text-transform:none;font-style:normal;font-size:12px;white-space:normal;font-family:Arial;font-weight:normal;word-spacing:0px">


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