Britt,
I didn't try the pom.xml you attached. However, I am using this code to
initialize the Engine, and getting another error:
private static AnalysisEngineDescription createAnnotatorDescription()
throws ResourceInitializationException
{
AggregateBuilder chunkAdjusterBuilder = new AggregateBuilder();
chunkAdjusterBuilder.add(ChunkAdjuster.createAnnotatorDescription(new
String[] { "NP", "NP" }, 1));
chunkAdjusterBuilder.add(ChunkAdjuster.createAnnotatorDescription(new
String[] { "NP", "PP", "NP" }, 2));
AnalysisEngineDescription chunkAdjusterAnnotator =
chunkAdjusterBuilder.createAggregateDescription();
URL lvgPropertiesURL =
LvgCmdApiResourceImpl.class.getResource("/org/apache/ctakes/lvg/data/config/lvg.properties");
File propertiesFile = new File(lvgPropertiesURL.toString());
AnalysisEngineDescription lvgAnalysisEngineDescription =
AnalysisEngineFactory.createPrimitiveDescription(LvgAnnotator.class,
LvgAnnotator.PARAM_USE_CMD_CACHE, false,
LvgAnnotator.PARAM_USE_LEMMA_CACHE, false, LvgAnnotator.PARAM_USE_SEGMENTS,
false,
LvgAnnotator.PARAM_LEMMA_CACHE_FREQUENCY_CUTOFF, 20,
LvgAnnotator.PARAM_LEMMA_FREQ_CUTOFF, 20,
LvgAnnotator.PARAM_POST_LEMMAS, false,
LvgAnnotator.PARAM_LVGCMDAPI_RESRC_KEY,
ExternalResourceFactory.createExternalResourceDescription(LvgCmdApiResourceImpl.class,
propertiesFile));
AggregateBuilder tokenizerPipeLine = new AggregateBuilder();
tokenizerPipeLine.add(SimpleSegmentAnnotator.createAnnotatorDescription());
tokenizerPipeLine.add(SentenceDetector.createAnnotatorDescription());
tokenizerPipeLine.add(TokenizerAnnotatorPTB.createAnnotatorDescription());
// tokenizerPipeLine.add(lvgAnalysisEngineDescription);
tokenizerPipeLine.add(ContextDependentTokenizerAnnotator.createAnnotatorDescription());
tokenizerPipeLine.add(POSTagger.createAnnotatorDescription());
tokenizerPipeLine.add(Chunker.createAnnotatorDescription());
tokenizerPipeLine.add(chunkAdjusterAnnotator);
AggregateBuilder clinicalBuilder = new AggregateBuilder();
clinicalBuilder.add(tokenizerPipeLine.createAggregateDescription());
clinicalBuilder.add(AnalysisEngineFactory.createPrimitiveDescription(CopyNPChunksToLookupWindowAnnotations.class));
clinicalBuilder.add(AnalysisEngineFactory.createPrimitiveDescription(RemoveEnclosedLookupWindows.class));
clinicalBuilder.add(UmlsDictionaryLookupAnnotator.createAnnotatorDescription());
clinicalBuilder.add(ClearNLPDependencyParserAE.createAnnotatorDescription());
clinicalBuilder.add(MyPolarityCleartkAnalysisEngine.createAnnotatorDescription());
return clinicalBuilder.createAggregateDescription();
}
Please note that I commentted out the LVG part. The error is:
org.apache.uima.resource.ResourceInitializationException: Initialization of
annotator class
"org.apache.ctakes.assertion.medfacts.cleartk.PolarityCleartkAnalysisEngine"
failed. (Descriptor: <unknown>)
at
org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:265)
at
org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:170)
at
org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at
org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:279)
at
org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:407)
at
org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:256)
at
org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:430)
at
org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:374)
at
org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:187)
at
org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at
org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:279)
at
org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:371)
...
Caused by: java.lang.RuntimeException: ClassifierBuilder class read from
manifest does not exist
at
org.cleartk.classifier.jar.JarClassifierBuilder.fromManifest(JarClassifierBuilder.java:107)
at
org.cleartk.classifier.jar.GenericJarClassifierFactory.createClassifier(GenericJarClassifierFactory.java:71)
at
org.cleartk.classifier.jar.JarClassifierFactory.createClassifier(JarClassifierFactory.java:35)
at
org.cleartk.classifier.CleartkAnnotator.initialize(CleartkAnnotator.java:139)
at
org.apache.ctakes.assertion.medfacts.cleartk.AssertionCleartkAnalysisEngine.initialize(AssertionCleartkAnalysisEngine.java:189)
at
org.apache.ctakes.assertion.medfacts.cleartk.PolarityCleartkAnalysisEngine.initialize(PolarityCleartkAnalysisEngine.java:53)
at
org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:263)
... 37 more
Caused by: java.lang.ClassNotFoundException:
org.cleartk.classifier.liblinear.LIBLINEARStringOutcomeClassifierBuilder
at java.net.URLClassLoader$1.run(URLClassLoader.java:366)
at java.net.URLClassLoader$1.run(URLClassLoader.java:355)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:354)
at java.lang.ClassLoader.loadClass(ClassLoader.java:423)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:308)
at java.lang.ClassLoader.loadClass(ClassLoader.java:356)
at java.lang.Class.forName0(Native Method)
at java.lang.Class.forName(Class.java:188)
at
org.cleartk.classifier.jar.JarClassifierBuilder.fromManifest(JarClassifierBuilder.java:105)
... 43 more
Thank you.
