Note: The WEKA gui reports the command line arguments for any GUI task.
It could be a very helpful timesaver if cTAKES had a similar feature.
Otherwise, I fear we will be writing Main methods and docs for each and every
cTAKES task.
What do you all think?
-------
Real world example of how this works in Weka.
Say you wanted to run Adaboost on a C4.5 decision tree with cost sensitive
classification.
Weka reports the arguments, which I can re-run from command line
Classifier csc = new CostSensitiveClassifier();
String[] adaboost = {
"-cost-matrix", costMatrix,
"-S", "1",
"-W", "weka.classifiers.meta.AdaBoostM1",
"--",
"-P", "100",
"-S", "1",
"-I", "30",
//
"-W", "weka.classifiers.trees.J48",
"--",
"-C", String.valueOf(j48Confidence),
"-M", String.valueOf(j48MinObjects)
};
csc.setOptions(adaboost);
On Jun 19, 2013, at 5:20 PM, "Chen, Pei" <[email protected]> wrote:
> Also,
> Tim recently just checked in a Main class that essentially could be the
> beginnings of a Driver program.
> Check the main() out at:
> http://svn.apache.org/repos/asf/ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfCUIsGenerator.java
>
> --Pei
>
>
>> -----Original Message-----
>> From: Girivaraprasad Nambari [mailto:[email protected]]
>> Sent: Wednesday, June 19, 2013 3:47 PM
>> To: [email protected]
>> Subject: Re: docs on running Clinical Document Pipeline from Java?
>>
>> Hi,
>>
>> Welcome to ctakes.
>>
>> There was a similar discussion initiated by me few months ago (you may be
>> able to find out if you browse through old discussions) . Here is response
>> form Pei Chen & ctakes community:
>>
>> 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.ja
>> va
>> ****
>>
>> ** 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);
>>
>>
>> We need to start from UIMA and UIMAfit to get some basic understanding,
>> then using ctakes component will be easy.
>>
>> Good luck!
>>
>> Thank you,
>>
>> Giri
>>
>>
>> On Wed, Jun 19, 2013 at 3:17 PM, Sandy Ryza <[email protected]>
>> wrote:
>>
>>> Hi cTAKES folks,
>>>
>>> I am trying to figure out how to run the Clinical Document Pipeline
>>> from Java. All the documentation I have found so far has been about
>>> how to do this through a GUI. Is there anything on how to run the
>>> pipeline programmatically?
>>>
>>> thanks for any help!
>>> Sandy
>>>
