Hey,
I created a java webproject in netbeans 8.1 and integrated ctakes with the libs
of the 3.2.2 binaries download, its desc and resource folder into the WEB-INF
folder.
I would like to run the AggregatePlaintextFastUMLSProcessor AE. Through
debugging the code below worked, if I comment the following engines in the AE
descriptor.
<node>HistoryCleartkAnalysisEngine</node>
<node>PolarityCleartkAnalysisEngine</node>
<node>SubjectCleartkAnalysisEngine</node>
<node>UncertaintyCleartkAnalysisEngine</node>
String s =
this.getServletContext().getRealPath("/WEB-INF/desc/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextFastUMLSProcessor.xml");
File aed = new File(s);
JCas jcas;
try {
pipelineIncludingUmlsDictionaries =
AnalysisEngineFactory.createEngineDescriptionFromPath(s);
AnalysisEngine ae =
AnalysisEngineFactory.createEngine(pipelineIncludingUmlsDictionaries);
jcas = JCasFactory.createJCas();
jcas.setDocumentText("Fx of obesity but no fx of coronary artery
diseases");
SimplePipeline.runPipeline(jcas, ae);
// Print out the IdentifiedAnnotation objects
for (IdentifiedAnnotation entity : JCasUtil.select(jcas,
IdentifiedAnnotation.class)) {
System.out.println("Entity: " + entity.getCoveredText() + "
=== Polarity: " + entity.getPolarity()+ "Class:"+ entity.getClass());
}
} catch (UIMAException e) {
// TODO Auto-generated catch block
e.printStackTrace();
} catch (IOException e) {
// TODO Auto-generated catch block
e.printStackTrace();
}
If I uncomment the cleartk engines I get this class not found error, although
the class exists in the ctakes-assertion-3.2.2.jar.
org.apache.uima.resource.ResourceInitializationException: Initialization of
annotator class
"org.apache.ctakes.assertion.medfacts.cleartk.HistoryCleartkAnalysisEngine"
failed.
(Descriptor:
file:/C:/Users/..../Documents/NetBeansProjects/mta.parser/target/mta.parser-1.0-SNAPSHOT/WEB-INF/desc/ctakes-assertion/desc/analysis_engine/HistoryCleartkAnalysisEngine.xml)
My first question is are these engines very necessary for the nlp results ?
Could this class not found error also belong to path problems caused by the
webcontent location ?
Has anyone a project or description how to set up such a webproject ?
I would be very happy if someone could help me.
Best regards,
Jan
