Hi Jan, It looks like ou are basically trying to run the equivalent of: ctakes-clinical-pipeline/desc/../analysis_engine/CuisOnlyPlaintextUMLSProcessor.xml
You could try swapping out the Aggregate... for that one and see what happens. Sean -----Original Message----- From: Jan Zieher [mailto:jzie...@gmx.de] Sent: Monday, May 16, 2016 2:08 PM To: dev@ctakes.apache.org Subject: ctakes 3.2.2 AggregatePlaintextFastUMLSProcessor webproject integration 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
