See <https://builds.apache.org/job/ctakes-trunk-compiletest/569/changes>
Changes: [chenpei] CTAKES-94: Adding factory method to SubjectCleartkAnalysisEngine.java [tmill] Added fast dictionary retriever plus reference to polarity and uncertainty and sample text to test them. ------------------------------------------ [...truncated 6893 lines...] [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.PolarityModifier_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.Predicate'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.Predicate_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.ProcedureMention'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.ProcedureMention_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.RangeAnnotation'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.RangeAnnotation_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.RomanNumeralAnnotation'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.RomanNumeralAnnotation_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SemanticArgument'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SemanticArgument_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SeverityModifier'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SeverityModifier_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SignSymptomMention'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SignSymptomMention_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SubjectModifier'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.SubjectModifier_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.TimeAnnotation'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.TimeAnnotation_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.TimeMention'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.TimeMention_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.UncertaintyModifier'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textsem.UncertaintyModifier_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.List'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.List_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.LookupWindowAnnotation'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.LookupWindowAnnotation_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.Paragraph'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.Paragraph_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.Segment'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.Segment_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.Sentence'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.textspan.Sentence_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.util.Pair'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.util.Pair_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.util.Pairs'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.util.Pairs_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.util.ProbabilityDistribution'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.typesystem.type.util.ProbabilityDistribution_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.ytex.uima.types.Date'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.ytex.uima.types.Date_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.ytex.uima.types.DocKey'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.ytex.uima.types.DocKey_Type'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.ytex.uima.types.KeyValuePair'. [INFO] JCasGen: Replacing: 'org.apache.ctakes.ytex.uima.types.KeyValuePair_Type'. [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-ytex-uima --- [INFO] Compiling 320 source files to <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-ytex-uima/target/classes> [INFO] [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-ytex-uima --- [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 1 resource [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-ytex-uima --- [INFO] Compiling 11 source files to <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-ytex-uima/target/test-classes> [WARNING] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-ytex-uima/src/test/java/org/apache/ctakes/ytex/uima/annotators/SenseDisambiguatorAnnotatorTest.java>:[89,15] [unchecked] unchecked conversion [INFO] [INFO] --- maven-surefire-plugin:2.12.1:test (default-test) @ ctakes-ytex-uima --- [INFO] Tests are skipped. [JENKINS] Archiving disabled [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES ctakes-clinical-pipeline 3.2.1-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-clinical-pipeline --- [INFO] [INFO] --- maven-remote-resources-plugin:1.4:process (default) @ ctakes-clinical-pipeline --- Downloading: http://repo.maven.apache.org/maven2/jwnl/jwnl/1.3.3/jwnl-1.3.3.pom [INFO] [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-clinical-pipeline --- [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/resources> [INFO] Copying 3 resources [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-clinical-pipeline --- [INFO] Compiling 5 source files to <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/target/classes> [INFO] ------------------------------------------------------------- [ERROR] COMPILATION ERROR : [INFO] ------------------------------------------------------------- [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[40,46] error: package org.apache.ctakes.dictionary.lookup2.ae does not exist [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[41,46] error: package org.apache.ctakes.dictionary.lookup2.ae does not exist [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[42,46] error: package org.apache.ctakes.dictionary.lookup2.ae does not exist [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfAnnotationsGenerator.java>:[92,55] [unchecked] unchecked cast [ERROR] required: Class<T> found: Type where T is a type-variable: T extends Annotation declared in class BagOfAnnotationsGenerator <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[82,64] error: cannot find symbol [ERROR] symbol: class DefaultJCasTermAnnotator location: class ClinicalPipelineFactory <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[83,10] error: cannot find symbol [ERROR] symbol: variable AbstractJCasTermAnnotator location: class ClinicalPipelineFactory <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[85,10] error: cannot find symbol [ERROR] symbol: variable JCasTermAnnotator location: class ClinicalPipelineFactory <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ae/ExtractionPrepAnnotator.java>:[167,17] [unchecked] unchecked call to add(E) as a member of the raw type Set [INFO] 8 errors [INFO] ------------------------------------------------------------- [JENKINS] Archiving disabled [INFO] ------------------------------------------------------------------------ [INFO] Reactor Summary: [INFO] [INFO] Apache cTAKES ..................................... SUCCESS [26.603s] [INFO] Apache cTAKES common type system .................. SUCCESS [11.748s] [INFO] Apache cTAKES utils ............................... SUCCESS [3.798s] [INFO] Apache cTAKES Resources core ...................... SUCCESS [1.013s] [INFO] Apache cTAKES core ................................ SUCCESS [18.115s] [INFO] Apache cTAKES Resources pos-tagger ................ SUCCESS [2.701s] [INFO] Apache cTAKES part-of-speech tagger ............... SUCCESS [5.586s] [INFO] Apache cTAKES Resources ctakes-chunker-res ........ SUCCESS [2.773s] [INFO] Apache cTAKES chunker ............................. SUCCESS [3.480s] [INFO] Apache cTAKES document preprocessor ............... SUCCESS [6.103s] [INFO] Apache cTAKES Resources dictionary-lookup ......... SUCCESS [11.797s] [INFO] Apache cTAKES dictionary lookup ................... SUCCESS [6.391s] [INFO] Apache cTAKES context dependent tokenizer ......... SUCCESS [4.715s] [INFO] Apache cTAKES Resources lvg ....................... SUCCESS [2.781s] [INFO] Apache cTAKES LVG lexical tools ................... SUCCESS [5.288s] [INFO] Apache cTAKES Resources ne-contexts ............... SUCCESS [2.801s] [INFO] Apache cTAKES named entity contexts ............... SUCCESS [5.192s] [INFO] Apache cTAKES Resources constituency-parser ....... SUCCESS [2.878s] [INFO] Apache cTAKES Constituency Parser ................. SUCCESS [4.956s] [INFO] Apache cTAKES Resources coreference ............... SUCCESS [2.776s] [INFO] Apache cTAKES Resources relation-extractor ........ SUCCESS [2.806s] [INFO] Apache cTAKES Resources dependency-parser ......... SUCCESS [3.019s] [INFO] Apache cTAKES Dependency Parser ................... SUCCESS [32.782s] [INFO] Apache cTAKES Relation Extractor .................. SUCCESS [9.615s] [INFO] Apache cTAKES CoReference Resolver ................ SUCCESS [8.318s] [INFO] Apache cTAKES Resources drug-ner .................. SUCCESS [2.791s] [INFO] Apache cTAKES Drug NER ............................ SUCCESS [8.258s] [INFO] Apache cTAKES Resources side-effect ............... SUCCESS [3.080s] [INFO] Apache cTAKES Side Effects ........................ SUCCESS [6.576s] [INFO] Apache cTAKES Resources smoking-status ............ SUCCESS [2.864s] [INFO] Apache cTAKES Smoking Status ...................... SUCCESS [6.202s] [INFO] Apache cTAKES Resources assertion ................. SUCCESS [2.927s] [INFO] Apache cTAKES Assertion ........................... SUCCESS [8.937s] [INFO] Apache cTAKES Resources assertion-zoner ........... SUCCESS [2.976s] [INFO] Apache cTAKES Assertion's zoner ................... SUCCESS [4.967s] [INFO] Apache cTAKES Resources temporal .................. SUCCESS [2.736s] [INFO] Apache cTAKES Resources ctakes-ytex-res ........... SUCCESS [2.552s] [INFO] Apache cTAKES YTEX ................................ SUCCESS [11.300s] [INFO] Apache cTAKES YTEX UIMA ........................... SUCCESS [14.800s] [INFO] Apache cTAKES ctakes-clinical-pipeline ............ FAILURE [3.059s] [INFO] Apache cTAKES Temporal Information Extraction ..... SKIPPED [INFO] Apache cTAKES YTEX Web ............................ SKIPPED [INFO] Apache cTAKES Distribution ........................ SKIPPED [INFO] Apache cTAKES Regression-test ..................... SKIPPED [INFO] Apache cTAKES template filler ..................... SKIPPED [INFO] ctakes-examples ................................... SKIPPED [INFO] Apache cTAKES Resources dictionary-lookup-fast-res SKIPPED [INFO] Apache cTAKES dictionary lookup fast .............. SKIPPED [INFO] ------------------------------------------------------------------------ [INFO] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Total time: 5:17.119s [INFO] Finished at: Thu Oct 30 17:34:40 UTC 2014 [INFO] Final Memory: 77M/294M [INFO] ------------------------------------------------------------------------ [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled [JENKINS] Archiving disabled Waiting for Jenkins to finish collecting data [ERROR] Failed to execute goal org.apache.maven.plugins:maven-compiler-plugin:2.4:compile (default-compile) on project ctakes-clinical-pipeline: Compilation failure: Compilation failure: [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[40,46] error: package org.apache.ctakes.dictionary.lookup2.ae does not exist [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[41,46] error: package org.apache.ctakes.dictionary.lookup2.ae does not exist [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[42,46] error: package org.apache.ctakes.dictionary.lookup2.ae does not exist [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfAnnotationsGenerator.java>:[92,55] [unchecked] unchecked cast [ERROR] required: Class<T> [ERROR] found: Type [ERROR] where T is a type-variable: [ERROR] T extends Annotation declared in class BagOfAnnotationsGenerator [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[82,64] error: cannot find symbol [ERROR] symbol: class DefaultJCasTermAnnotator [ERROR] location: class ClinicalPipelineFactory [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[83,10] error: cannot find symbol [ERROR] symbol: variable AbstractJCasTermAnnotator [ERROR] location: class ClinicalPipelineFactory [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java>:[85,10] error: cannot find symbol [ERROR] symbol: variable JCasTermAnnotator [ERROR] location: class ClinicalPipelineFactory [ERROR] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ae/ExtractionPrepAnnotator.java>:[167,17] [unchecked] unchecked call to add(E) as a member of the raw type Set [ERROR] -> [Help 1] [ERROR] [ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch. [ERROR] Re-run Maven using the -X switch to enable full debug logging. [ERROR] [ERROR] For more information about the errors and possible solutions, please read the following articles: [ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException [ERROR] [ERROR] After correcting the problems, you can resume the build with the command [ERROR] mvn <goals> -rf :ctakes-clinical-pipeline Sending e-mails to: [email protected] [email protected] channel stopped
