Using ctakes 3.2.2 and I'm trying to include the smoking status in the clinical pipeline as outlined in https://issues.apache.org/jira/browse/CTAKES-370 and could use some help please. I downloaded the pipeline xml, I modified the 2 imports, and now I get this stack trace:
org.apache.uima.resource.ResourceInitializationException: Initialization of annotator class "org.apache.ctakes.smokingstatus.ae.KuRuleBasedClassifierAnnotator" failed. (Descriptor: file:/D:/Software/cTAKES/desc/ctakes-smoking-status/desc/analysis_engine/KuRuleBasedClassifierAnnotator.xml) at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:252) at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:156) 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:269) at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387) at org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254) at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431) at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375) at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185) 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:269) at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354) at com.epividian.ctakes.utils.CTAKESUtils.getAnalysisEngine(CTAKESUtils.java:143) at com.epividian.ctakes.processors.CommandLineProcessor.processLine(CommandLineProcessor.java:144) at java.util.ArrayList$ArrayListSpliterator.forEachRemaining(ArrayList.java:1374) at java.util.stream.ReferencePipeline$Head.forEach(ReferencePipeline.java:580) at com.epividian.ctakes.processors.CommandLineProcessor.run(CommandLineProcessor.java:112) at com.epividian.ctakes.App.main(App.java:109) Caused by: org.apache.uima.resource.ResourceInitializationException at org.apache.ctakes.smokingstatus.ae.KuRuleBasedClassifierAnnotator.initialize(KuRuleBasedClassifierAnnotator.java:74) at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:250) ... 19 more Caused by: java.lang.IllegalArgumentException: URI is not hierarchical at java.io.File.<init>(File.java:418) at org.apache.ctakes.core.resource.FileLocator.locateOnClasspath(FileLocator.java:182) at org.apache.ctakes.core.resource.FileLocator.getFullPath(FileLocator.java:125) at org.apache.ctakes.core.resource.FileLocator.locateFile(FileLocator.java:70) at org.apache.ctakes.smokingstatus.ae.KuRuleBasedClassifierAnnotator.initialize(KuRuleBasedClassifierAnnotator.java:67) ... 20 more I have tried modifying that import in a similar way as the others with no luck. <import location="../../../../../../desc/ctakes-smoking-status/desc/analysis_engine/KuRuleBasedClassifierAnnotator.xml"/> Thanks, Jeff
