Gira,
Your use case is probably one that will become more and more common, and
cTAKES devs do similar things all the time. I think the hangup to new or
non-dev users (and probably something we need to document better) is
that cTAKES is built on top of UIMA, and so the techniques for running
pipelines and extracting information are actually UIMA and
UIMAFit-based, and so there is nothing like the traditional javadocs
explaining a cTAKES API to rely on.
Pei's sample code is basically UIMA and UIMAFit standard code that
points at cTAKES pipelines, then once that is working the real cTAKES
part is basically just understanding the type system so you know how to
use UIMA API calls to extract the information you need. So maybe better
documentation of the type system (maybe in javadoc style) is something
that cTAKES should prioritize.
Tim
On 04/02/2013 10:45 AM, giri vara prasad nambari wrote:
Hi Pei,
Thanks for your time!
Sort of this is what I am looking for. I will do some research on
javadoc to see what I could do with the API.
May I ask you one more question? Isn't ctakes build to accommodate
these types of requirements (like integrating with other application)?
Am I missing something important?
The reason is, I would need to read the out put of ctakes and perform
some other analysis using WEKA. If ctakes is not yet ready for these
types of requirements I may need to go back re-evaluate the software
stack.
Thank you,
Giri
On Tue, Apr 2, 2013 at 10:20 AM, Chen, Pei
<[email protected]
<mailto:[email protected]>> wrote:
Hi Giri,
I presume, essentially, you’re planning to include the cTAKES
lib(s) (via mvn?) into your existing app
1)Programmatically configure the pipeline
2)Pass in a document(s) to cTAKES for processing
3)Do XYZ with the output from the jCAS using the UIMA API’s (such
as writing to disk or saving it to a db)
It is not quite prime time ready but, take a look peek at the
below (It uses uimaFIT to do the above):
http://svn.apache.org/repos/asf/ctakes/sandbox/ctakes-gui/src/main/java/org/chboston/cnlp/ctakes/gui/service/LauncherService.java
Essentially, it boils down to a few lines of code:
AnalysisEngine aggregateAE = AnalysisEngineFactory.createAggregate(
engines, componentNames, typeSystemDescription, null,
new SofaMapping[0]);
JCas jcas = aggregateAE.newJCas();
jcas.setDocumentText(doc.getText());
aggregateAE.process(jcas);
*From:*giri vara prasad nambari [mailto:[email protected]
<mailto:[email protected]>]
*Sent:* Tuesday, April 02, 2013 10:04 AM
*To:* [email protected] <mailto:[email protected]>
*Subject:* Re: cTakes with java web application
Hi Pei,
Thanks for your time on answering this.
Actually I am not looking for pre built web application (or) GUI.
I was expecting something like "include ctakes jars in my web
application ((or) even for the matter any client java program)"
and start using ctakes API. Is this possible with ctakes api? If
so, any sample ctakes client code available?
I am not moving towards any SOA (or) pre-built GUI.
I would be happy to contribute to GUI, but first I need to finish
this ctakes integration task into my web application ASAP.
I hope this time my question is more clear.
Thank you,
Giri
On Tue, Apr 2, 2013 at 9:51 AM, Chen, Pei
<[email protected]
<mailto:[email protected]>> wrote:
Hi Giri,
Apache cTAKES is mainly in Java built on top of the UIMA Framework.
Currently, there isn’t out of the box web application with cTAKES,
however there is a GUI currently in the sandbox area but isn’t
quite ready for prime time yet. Is this something that you might
be interested in contributing to?
http://svn.apache.org/repos/asf/ctakes/sandbox/ctakes-gui/
There are also some UIMA options that may point you in the right
direction.
UIMA-AS (If you’re gearing towards a Service Architecture for your
web app.)
http://uima.apache.org/d/uima-as-2.4.0/uima_async_scaleout.html
There is also a Simple Rest service (but runs in-process):
UIMA Simple Server
http://uima.apache.org/sandbox.html#simple-server
Thanks,
Pei
*From:*giri vara prasad nambari [mailto:[email protected]
<mailto:[email protected]>]
*Sent:* Tuesday, April 02, 2013 12:29 AM
*To:* [email protected]
<mailto:[email protected]>
*Subject:* Fwd: cTakes with java web application
Hi Community,
I did lot of google for sample java code to integrate cTakes into
web application, can some one please point me in right direction.
I would like to use clinical pipeline with plain text instead of
XML documents.
Any help would be appreciated.
Thank you,
Giri
