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From Stuti Awasthi <stutiawas...@hcl.com>
Subject RE: Integrate cTakes with latest UMLS DB
Date Thu, 31 Mar 2016 11:47:19 GMT
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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;">Thanks.
<div>Ya I have read the long conversation between you and Sean on how to use dictionary
tool utility and that really helped. Thanks to Sean.</div>
<div>Thanks for java 8 pointer. Presently Im using Java7 and already added libraries
in build path. Let me try with Java8 and Il come back.&nbsp;</div>
<div><br>
</div>
<div>Example of error :&nbsp;<span style="font-family: Monaco; font-size: 11px;">org.apache.ctakes.dictionary.creator.gui.umls.Concept.java</span></div>
<div>
<p style="margin-right: 0px; margin-left: 0px; font-size: 11px; line-height: normal; font-family:
Monaco;">
concept.getTuis().<span style="text-decoration: underline">stream</span>().forEach(
<span style="color: #931a68">this</span><span style="text-decoration: underline">::addTui</span>
);</p>
<p style="margin-right: 0px; margin-left: 0px; text-indent: 0.1px; font-size: 11px; line-height:
normal; font-family: '.SF NS Text';">
The method stream() is undefined for the type&nbsp;<span style="text-indent: 0.1px;">Collection&lt;Tui&gt;</span></p>
</div>
<div><br>
</div>
<div>This is just an example, similarly Im getting more errors in different classes.</div>
<div><br>
</div>
<div>Thanks</div>
<div>Stuti Awasthi</div>
<div><br>
<div style="font-family: Times New Roman; color: #000000; font-size: 16px">
<hr tabindex="-1">
<div id="divRpF936853" style="direction: ltr;"><font face="Tahoma" size="2" color="#000000"><b>From:</b>
Geise, Brandon D. [bdgeise@geisinger.edu]<br>
<b>Sent:</b> Thursday, March 31, 2016 5:02 PM<br>
<b>To:</b> user@ctakes.apache.org<br>
<b>Subject:</b> RE: Integrate cTakes with latest UMLS DB<br>
</font><br>
</div>
<div></div>
<div>
<div class="WordSection1">
<p class="MsoNormal"><span style="color:#1F497D">Hi Stuti,</span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:#1F497D">All credit for the dictionary
work goes to Sean Finan.&nbsp; What errors are you getting?&nbsp; I’m not aware
of a precompiled jar.&nbsp; I do remember that I needed to switch to Java 8, if you aren’t
already to compile the
 project.&nbsp; You also may need to reference the lib folder or move those jars to the
project library path in order to compile.</span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:#1F497D">Brandon</span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span></p>
<div>
<div style="border:none; border-top:solid #E1E1E1 1.0pt; padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b>From:</b> Stuti Awasthi [mailto:stutiawasthi@hcl.com]
<br>
<b>Sent:</b> Thursday, March 31, 2016 7:14 AM<br>
<b>To:</b> 'user@ctakes.apache.org' &lt;user@ctakes.apache.org&gt;<br>
<b>Subject:</b> RE: Integrate cTakes with latest UMLS DB</p>
</div>
</div>
<p class="MsoNormal">&nbsp;</p>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">Hi All,
</span></p>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">Sorry , I think I got confused with dictionary-gui and dictionary-tool projects.
Jessica mentioned about dictionary tool and its README which I followed along
 with the previous mail threads to generate umls dictionary in file format. Im still to use
this dictionary with cTakes so i might comeback with issues.</span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">&nbsp;</span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">Also I would like to use dictionary-gui posted by Brandon. When I have checkout
the code and imported in eclipse, its showing compilation error in classes due
 to which even I have created the jar of the project, it is not running. Any idea about the
compilation errors or if there is a pre built binary which can be used (similar to dictionary
tools jar) that would be great.</span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">&nbsp;</span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">Thanks for your help and patience.</span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">&nbsp;</span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">Regards</span></p>
</div>
<div>
<p class="MsoNormal"><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">Stuti Awasthi</span></p>
</div>
<div>
<div>
<div class="MsoNormal" align="center" style="text-align:center"><span style="font-size:12.0pt;
font-family:&quot;Times New Roman&quot;,serif; color:black">
<hr size="2" width="100%" align="center">
</span></div>
<div id="divRpF932469">
<p class="MsoNormal" style="margin-bottom:12.0pt"><b><span style="font-size:10.0pt;
font-family:&quot;Tahoma&quot;,sans-serif; color:black">From:</span></b><span
style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif; color:black">
Stuti Awasthi<br>
<b>Sent:</b> Thursday, March 31, 2016 11:58 AM<br>
<b>To:</b> 'user@ctakes.apache.org'<br>
<b>Subject:</b> RE: Integrate cTakes with latest UMLS DB</span><span
style="font-size:12.0pt; font-family:&quot;Times New Roman&quot;,serif; color:black"></span></p>
</div>
<div>
<div>
<p class="MsoNormal"><span style="color:#1F497D">Hi Brandon, Jessica</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">I lookedup at dictionary-gui
utility. &nbsp;Here is what I did : Checkout the source code
<a href="https://svn.apache.org/repos/asf/ctakes/sandbox/dictionary-gui/" target="_blank">
https://svn.apache.org/repos/asf/ctakes/sandbox/dictionary-gui/</a> and imported in
my eclipse IDE. Now I was not able to find any README with this project. Hence I checked the
code and found that “CreaterGui.java” might be the mail class to launch the GUI.
 My queries are :</span><span style="color:black"></span></p>
<p class="MsoListParagraph" style="text-indent:-.25in"><span style="font-family:Symbol;
color:#1F497D">·</span><span style="font-size:7.0pt; font-family:&quot;Times
New Roman&quot;,serif; color:#1F497D">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
</span><span style="color:#1F497D">Is there any README as Jessica mentioned or
simply launching the CreaterGui.java class would be suffice.</span><span style="color:black"></span></p>
<p class="MsoListParagraph" style="text-indent:-.25in"><span style="font-family:Symbol;
color:#1F497D">·</span><span style="font-size:7.0pt; font-family:&quot;Times
New Roman&quot;,serif; color:#1F497D">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
</span><span style="color:#1F497D">Is there any commands to execute tool on linux
server (without gnome) . Something like command like options? Im asking this because Im working
on linux machine where I have installed lated UMLS2015.</span><span style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Few more questions:</span><span
style="color:black"></span></p>
<p class="MsoListParagraph" style="text-indent:-.25in"><span style="font-family:Symbol;
color:#1F497D">·</span><span style="font-size:7.0pt; font-family:&quot;Times
New Roman&quot;,serif; color:#1F497D">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
</span><span style="color:#1F497D">As Brandon mentioned : that I might need to
create the tables that will have same information (based on rare /first word approach). Do
we know how to create those tables ?? Any SQL statements or links will be useful.</span><span
style="color:black"></span></p>
<p class="MsoListParagraph" style="text-indent:-.25in"><span style="font-family:Symbol;
color:#1F497D">·</span><span style="font-size:7.0pt; font-family:&quot;Times
New Roman&quot;,serif; color:#1F497D">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
</span><span style="color:#1F497D">I found the following link in Ctakes3.1 documentation
but looks like broken. Any clue on redirected path/links</span><span style="color:black"></span></p>
<ul type="disc" style="margin-top:0in">
<ul type="circle" style="margin-top:0in">
<li class="MsoNormal" style="color:#333333; line-height:15.0pt; background:white">
<span style="font-size:10.5pt; font-family:&quot;Arial&quot;,sans-serif"><a
href="https://cabig-kc.nci.nih.gov/Vocab/forums/viewtopic.php?f=28&amp;t=423" target="_blank"><span
style="color:#326CA6; text-decoration:none">https://cabig-kc.nci.nih.gov/Vocab/forums/viewtopic.php?f=28&amp;t=423</span></a></span></li><li
class="MsoNormal" style="color:#333333; line-height:15.0pt; background:white">
<span style="font-size:10.5pt; font-family:&quot;Arial&quot;,sans-serif"><a
href="https://cabig-kc.nci.nih.gov/Vocab/forums/viewtopic.php?f=28&amp;t=80&amp;start=20#p1459"
target="_blank"><span style="color:#326CA6; text-decoration:none">https://cabig-kc.nci.nih.gov/Vocab/forums/viewtopic.php?f=28&amp;t=80&amp;start=20#p1459</span></a></span></li></ul>
</ul>
<ul type="disc" style="margin-top:0in">
<li class="MsoNormal" style="color:#1F497D; line-height:15.0pt; background:white">
Can I create full dictionary(not only the fast one) from dictionary tool.</li></ul>
<div>
<p class="MsoNormal"><span style="color:#1F497D">Thanks &amp;Regards</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Stuti Awasthi</span><span
style="color:black"></span></p>
</div>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<div>
<div style="border:none; border-top:solid #B5C4DF 1.0pt; padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">From:</span></b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black"> Stuti Awasthi
<br>
<b>Sent:</b> Tuesday, March 29, 2016 5:35 PM<br>
<b>To:</b> 'user@ctakes.apache.org'<br>
<b>Subject:</b> RE: Integrate cTakes with latest UMLS DB</span><span
style="color:black"></span></p>
</div>
</div>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:#1F497D">Thanks Brandon, then I will check
dictionary-gui tool and try to use it and will get back with queries if any.
</span><span style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<div>
<p class="MsoNormal"><span style="color:#1F497D">Regards</span><span
style="color:black"></span></p>
</div>
<p class="MsoNormal"><span style="color:#1F497D">Stuti Awasthi</span><span
style="color:black"></span></p>
<div>
<div style="border:none; border-top:solid #B5C4DF 1.0pt; padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">From:</span></b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black"> Geise, Brandon D. [<a href="mailto:bdgeise@geisinger.edu" target="_blank">mailto:bdgeise@geisinger.edu</a>]
<br>
<b>Sent:</b> Tuesday, March 29, 2016 5:32 PM<br>
<b>To:</b> Stuti Awasthi; 'user@ctakes.apache.org'<br>
<b>Subject:</b> RE: Integrate cTakes with latest UMLS DB</span><span
style="color:black"></span></p>
</div>
</div>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<div>
<p class="MsoNormal"><span style="color:black">Hi Stuti,</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Unless someone else has created
another solution the current Dictionary Gui tool doesn’t have this support yet.&nbsp;
It’s something that I plan to work on in the future for the GUI tool.&nbsp;
</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Thanks,</span></p>
<p class="MsoNormal"><span style="color:black">Brandon</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Sent from <a href="https://go.microsoft.com/fwlink/?LinkId=550986"
target="_blank">
Mail</a> for Windows 10</span></p>
<p class="MsoNormal"><span style="font-size:12.0pt; font-family:&quot;Times New
Roman&quot;,serif; color:black">&nbsp;</span><span style="color:black"></span></p>
<div style="border:none; border-top:solid #E1E1E1 1.0pt; padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b><span style="color:black">From: </span></b><span
style="color:black"><a href="mailto:stutiawasthi@hcl.com" target="_blank">Stuti Awasthi</a><br>
<b>Sent: </b>Tuesday, March 29, 2016 7:59 AM<br>
<b>To: </b><a href="mailto:user@ctakes.apache.org" target="_blank">'user@ctakes.apache.org'</a><br>
<b>Subject: </b>RE: Integrate cTakes with latest UMLS DB</span></p>
</div>
<p class="MsoNormal"><span style="font-size:12.0pt; font-family:&quot;Times New
Roman&quot;,serif; color:black">&nbsp;</span><span style="color:black"></span></p>
</div>
<div>
<div>
<p class="MsoNormal"><span style="color:#1F497D">Thanks Brandon, Jessica for response.
I will look at dictionary tools as mentioned and will try to figure out how it can be used
for my purpose. I will certainly get back on mailing list with more queries if
 any. </span><span style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">As of now with limited understanding,
I understand that current UMLS2015 database will be converted to hsql format which I can use
in the pipeline by changing configurations in required XMLs.&nbsp; One more query,
 cTakes also provides “<b>DictionaryLookupAnnotatorDB</b>” which is supposed
to be used if we want to connect to required tables in umls database. Please correct my understanding
but do we have similar tool/script to be execute on umls database to generate
 the required format table “umls2015ab” which can be directly included in dictionary lookup.</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Thanks for the help!</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<div>
<p class="MsoNormal"><span style="color:#1F497D">Regards</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Stuti Awasthi</span><span
style="color:black"></span></p>
</div>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<div>
<div style="border:none; border-top:solid #B5C4DF 1.0pt; padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">From:</span></b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black"> Glover, Jessica [<a href="mailto:Jessica.Glover@ssa.gov" target="_blank">mailto:Jessica.Glover@ssa.gov</a>]
<br>
<b>Sent:</b> Tuesday, March 29, 2016 5:17 PM<br>
<b>To:</b> 'user@ctakes.apache.org'<br>
<b>Subject:</b> RE: Integrate cTakes with latest UMLS DB</span><span
style="color:black"></span></p>
</div>
</div>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:#1F497D">Hi Stuti,</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">One thing to note about the dictionary
tool is that it is still in sandbox mode, so there is no official documentation or step-by-step
guide for it. However, it contains a readme, and it has been discussed on
 the mailing list, so you can search the archive for that “documentation.”</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Searchable cTakes mailing list
archive:
<a href="http://ctakes.markmail.org/search/" target="_blank">http://ctakes.markmail.org/search/</a></span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Regards, </span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Jessica</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<div>
<div style="border:none; border-top:solid #B5C4DF 1.0pt; padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">From:</span></b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black"> Stuti Awasthi [<a href="mailto:stutiawasthi@hcl.com" target="_blank">mailto:stutiawasthi@hcl.com</a>]
<br>
<b>Sent:</b> Tuesday, March 29, 2016 7:10 AM<br>
<b>To:</b> 'user@ctakes.apache.org'<br>
<b>Subject:</b> RE: Integrate cTakes with latest UMLS DB</span><span
style="color:black"></span></p>
</div>
</div>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:#1F497D">Hi All,</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">Any help will be good. Im still
waiting for some response.</span><span style="color:black"></span></p>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<div>
<p class="MsoNormal"><span style="font-size:8.0pt; color:#1F497D">Thanks &amp;Regards</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="font-size:8.0pt; color:#1F497D">Stuti Awasthi</span><span
style="color:black"></span></p>
<p class="MsoNormal"><span style="font-size:8.0pt; color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
</div>
<p class="MsoNormal"><span style="color:#1F497D">&nbsp;</span><span
style="color:black"></span></p>
<div>
<div style="border:none; border-top:solid #B5C4DF 1.0pt; padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black">From:</span></b><span style="font-size:10.0pt; font-family:&quot;Tahoma&quot;,sans-serif;
color:black"> Stuti Awasthi
<br>
<b>Sent:</b> Monday, March 28, 2016 2:46 PM<br>
<b>To:</b> <a href="mailto:user@ctakes.apache.org" target="_blank">user@ctakes.apache.org</a><br>
<b>Subject:</b> Integrate cTakes with latest UMLS DB</span><span style="color:black"></span></p>
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<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Hi All,</span></p>
<p class="MsoNormal"><span style="color:black">I have been exploring cTakes and
wanted to use latest UMLS 2015ab with it. To achieve the same, I have installed UMLS in mysql
database.</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Database Name: umls</span></p>
<p class="MsoNormal"><span style="color:black">Numbers of Tables created : 53</span></p>
<p class="MsoNormal"><span style="color:black">Eg : mysql&gt; show tables;</span></p>
<p class="MsoNormal"><span style="color:black">&#43;--------------------------&#43;</span></p>
<p class="MsoNormal"><span style="color:black">| Tables_in_umls&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
|</span></p>
<p class="MsoNormal"><span style="color:black">&#43;--------------------------&#43;</span></p>
<p class="MsoNormal"><span style="color:black">| AMBIGLUI&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
|</span></p>
<p class="MsoNormal"><span style="color:black">| AMBIGSUI&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
|</span></p>
<p class="MsoNormal"><span style="color:black">| DELETEDCUI&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
|</span></p>
<p class="MsoNormal"><span style="color:black">| DELETEDLUI&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
|</span></p>
<p class="MsoNormal"><span style="color:black">| DELETEDSUI&nbsp;&nbsp;
</span></p>
<p class="MsoNormal"><span style="color:black">……</span></p>
<p class="MsoNormal"><span style="color:black">| SRSTRE1&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
|</span></p>
<p class="MsoNormal"><span style="color:black">| SRSTRE2&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
|</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Now im not able to find any step
by step guide to integrate cTakes with umls database.</span></p>
<p class="MsoNormal"><span style="color:black">Here is what I have done :</span></p>
<p class="MsoNormal"><span style="color:black">1) Modified DictionaryLookupAnnotatorDB.xml
with jdbc url of my database along with username and password.</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Now I believe I also need to modify
LookupDesc_DB.xml with some umls tablename which can get cui, tui and text info.
</span></p>
<p class="MsoNormal"><span style="color:black">I need some help , which table
should I be pointing to lookup ? Also after is there any other step or I should be good in
executing clinical pipeline with umls database.
</span></p>
<p class="MsoNormal"><span style="color:black">Also please point some steps guide/document
of available for cTakes integration with UMLS.</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
<p class="MsoNormal"><span style="color:black">Thanks &amp;Regards</span></p>
<p class="MsoNormal"><span style="color:black">Stuti Awasthi</span></p>
<p class="MsoNormal"><span style="color:black">&nbsp;</span></p>
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