See <https://builds.apache.org/job/ctakes-trunk-package/106/changes>
Changes: [tmill] Addresses ctakes-195. Two new models for the parser, one trained on sharp seed (1.5), one on all sharp (3.1), and the default changed to 3.1. ------------------------------------------ [...truncated 3097 lines...] [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner-res/src/test/resources> [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-assertion-zoner-res --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-assertion-zoner-res --- [INFO] [INFO] Tests are skipped. [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-assertion-zoner-res --- [INFO] [INFO] Building jar: <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner-res/target/ctakes-assertion-zoner-res-3.1.0-SNAPSHOT.jar> [INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ ctakes-assertion-zoner-res --- [INFO] [INFO] --- maven-site-plugin:3.1:attach-descriptor (attach-descriptor) @ ctakes-assertion-zoner-res --- [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner-res/target/ctakes-assertion-zoner-res-3.1.0-SNAPSHOT.jar> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-assertion-zoner-res/3.1.0-SNAPSHOT/ctakes-assertion-zoner-res-3.1.0-SNAPSHOT.jar [INFO] [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner-res/pom.xml> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-assertion-zoner-res/3.1.0-SNAPSHOT/ctakes-assertion-zoner-res-3.1.0-SNAPSHOT.pom [INFO] --- maven-install-plugin:2.3.1:install (default-install) @ ctakes-assertion-zoner-res --- [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES Assertion's zoner 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/target> [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-assertion-zoner --- [INFO] Downloading: http://repo.maven.apache.org/maven2/jwnl/jwnl/1.3.3/jwnl-1.3.3.pom [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-assertion-zoner --- [INFO] [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-assertion-zoner --- [INFO] Copying 1 resource [INFO] Copying 3 resources [INFO] [INFO] JCasGen: Output going to '<https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/target/generated-sources/jcasgen'> [INFO] JCasGen: Reading the XML TAE descriptor, and creating types, for xml input file '<https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/src/main/resources/org/apache/ctakes/assertion/zoner/types/TypeSystem.xml'.> [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.zoner.types.Heading'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.zoner.types.Heading_Type'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.zoner.types.Subzone'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.zoner.types.Subzone_Type'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.zoner.types.Zone'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.zoner.types.Zone_Type'. [INFO] --- jcasgen-maven-plugin:0.9.3:generate (default) @ ctakes-assertion-zoner --- [INFO] [INFO] Compiling 8 source files to <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/target/classes> [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-assertion-zoner --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/src/test/resources> [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-assertion-zoner --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-assertion-zoner --- [INFO] [INFO] Tests are skipped. [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-assertion-zoner --- [INFO] [INFO] Building jar: <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/target/ctakes-assertion-zoner-3.1.0-SNAPSHOT.jar> [INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ ctakes-assertion-zoner --- [INFO] [INFO] --- maven-site-plugin:3.1:attach-descriptor (attach-descriptor) @ ctakes-assertion-zoner --- [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/target/ctakes-assertion-zoner-3.1.0-SNAPSHOT.jar> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-assertion-zoner/3.1.0-SNAPSHOT/ctakes-assertion-zoner-3.1.0-SNAPSHOT.jar [INFO] [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion-zoner/pom.xml> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-assertion-zoner/3.1.0-SNAPSHOT/ctakes-assertion-zoner-3.1.0-SNAPSHOT.pom [INFO] --- maven-install-plugin:2.3.1:install (default-install) @ ctakes-assertion-zoner --- [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES Assertion 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ Downloading: http://cleartk.googlecode.com/svn/repo/com/googlecode/clearparser/clearparser/0.4.0-SNAPSHOT/maven-metadata.xml Downloading: https://oss.sonatype.org/content/repositories/snapshots/com/googlecode/clearparser/clearparser/0.4.0-SNAPSHOT/maven-metadata.xml Downloading: http://repository.apache.org/snapshots/com/googlecode/clearparser/clearparser/0.4.0-SNAPSHOT/maven-metadata.xml Downloaded: http://cleartk.googlecode.com/svn/repo/com/googlecode/clearparser/clearparser/0.4.0-SNAPSHOT/maven-metadata.xml (2 KB at 3.5 KB/sec) [INFO] [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/target> [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-assertion --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-assertion --- Downloading: http://repo.maven.apache.org/maven2/jwnl/jwnl/1.3.3/jwnl-1.3.3.pom Downloading: http://repository.apache.org/snapshots/com/googlecode/clearparser/clearparser/0.4.0-SNAPSHOT/clearparser-0.4.0-SNAPSHOT.pom [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-assertion --- [INFO] Copying 1 resource [INFO] Copying 3 resources [INFO] [INFO] JCasGen: Output going to '<https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/target/generated-sources/jcasgen'> [INFO] JCasGen: Reading the XML TAE descriptor, and creating types, for xml input file '<https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/resources/org/apache/ctakes/assertion/types/TypeSystem.xml'.> [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.medfacts.types.Assertion'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.medfacts.types.Assertion_Type'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.medfacts.types.Concept'. [INFO] JCasGen: Creating: 'org.apache.ctakes.assertion.medfacts.types.Concept_Type'. [INFO] --- jcasgen-maven-plugin:0.9.3:generate (default) @ ctakes-assertion --- [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-assertion --- [INFO] Compiling 58 source files to <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/target/classes> [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[48,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[49,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[49,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[50,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[50,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[54,54] [deprecation] org.cleartk.classifier.feature.extractor.simple.SpannedTextExtractor in org.cleartk.classifier.feature.extractor.simple has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[56,49] [deprecation] org.cleartk.classifier.feature.proliferate.CapitalTypeProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[57,49] [deprecation] org.cleartk.classifier.feature.proliferate.CharacterNGramProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[58,49] [deprecation] org.cleartk.classifier.feature.proliferate.LowerCaseProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[59,49] [deprecation] org.cleartk.classifier.feature.proliferate.NumericTypeProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[60,49] [deprecation] org.cleartk.classifier.feature.proliferate.ProliferatingExtractor in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[120,17] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionCleartkAnalysisEngine.java>:[121,17] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[29,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[30,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[30,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[31,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[31,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[32,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[32,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[34,54] [deprecation] org.cleartk.classifier.feature.extractor.simple.SpannedTextExtractor in org.cleartk.classifier.feature.extractor.simple has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[36,49] [deprecation] org.cleartk.classifier.feature.proliferate.CapitalTypeProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[37,49] [deprecation] org.cleartk.classifier.feature.proliferate.CharacterNGramProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[38,49] [deprecation] org.cleartk.classifier.feature.proliferate.LowerCaseProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[39,49] [deprecation] org.cleartk.classifier.feature.proliferate.NumericTypeProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[40,49] [deprecation] org.cleartk.classifier.feature.proliferate.ProliferatingExtractor in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[78,37] [deprecation] org.cleartk.classifier.opennlp.DefaultMaxentDataWriterFactory in org.cleartk.classifier.opennlp has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/CreateAssertionDescriptor.java>:[21,37] [deprecation] org.cleartk.classifier.opennlp.DefaultMaxentDataWriterFactory in org.cleartk.classifier.opennlp has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/HistoryCleartkAnalysisEngine.java>:[31,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/GenericCleartkAnalysisEngine.java>:[30,47] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionSampleFeatureGenerator.java>:[8,54] [deprecation] org.cleartk.classifier.feature.extractor.simple.SpannedTextExtractor in org.cleartk.classifier.feature.extractor.simple has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionSampleFeatureGenerator.java>:[9,49] [deprecation] org.cleartk.classifier.feature.proliferate.CapitalTypeProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionSampleFeatureGenerator.java>:[10,49] [deprecation] org.cleartk.classifier.feature.proliferate.CharacterNGramProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionSampleFeatureGenerator.java>:[11,49] [deprecation] org.cleartk.classifier.feature.proliferate.LowerCaseProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionSampleFeatureGenerator.java>:[12,49] [deprecation] org.cleartk.classifier.feature.proliferate.NumericTypeProliferator in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/AssertionSampleFeatureGenerator.java>:[13,49] [deprecation] org.cleartk.classifier.feature.proliferate.ProliferatingExtractor in org.cleartk.classifier.feature.proliferate has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/TrainAssertionModel.java>:[41,29] [deprecation] org.cleartk.classifier.CleartkAnnotatorDescriptionFactory in org.cleartk.classifier has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/TrainAssertionModel.java>:[45,37] [deprecation] org.cleartk.classifier.opennlp.DefaultMaxentDataWriterFactory in org.cleartk.classifier.opennlp has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/TrainAssertionModel.java>:[46,37] [deprecation] org.cleartk.classifier.opennlp.MaxentDataWriter in org.cleartk.classifier.opennlp has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[71,49] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/SubjectCleartkAnalysisEngine.java>:[74,8] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[251,72] [deprecation] org.cleartk.classifier.opennlp.DefaultMaxentDataWriterFactory in org.cleartk.classifier.opennlp has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[304,55] [unchecked] unchecked call to addAll(org.cleartk.eval.AnnotationStatistics<OUTCOME_TYPE>) as a member of the raw type org.cleartk.eval.AnnotationStatistics [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[707,24] [unchecked] unchecked call to <ANNOTATION_TYPE,SPAN_TYPE>add(java.util.Collection<? extends ANNOTATION_TYPE>,java.util.Collection<? extends ANNOTATION_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,SPAN_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,OUTCOME_TYPE>) as a member of the raw type org.cleartk.eval.AnnotationStatistics [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[717,27] [unchecked] unchecked call to <ANNOTATION_TYPE,SPAN_TYPE>add(java.util.Collection<? extends ANNOTATION_TYPE>,java.util.Collection<? extends ANNOTATION_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,SPAN_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,OUTCOME_TYPE>) as a member of the raw type org.cleartk.eval.AnnotationStatistics [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[727,27] [unchecked] unchecked call to <ANNOTATION_TYPE,SPAN_TYPE>add(java.util.Collection<? extends ANNOTATION_TYPE>,java.util.Collection<? extends ANNOTATION_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,SPAN_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,OUTCOME_TYPE>) as a member of the raw type org.cleartk.eval.AnnotationStatistics [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[737,23] [unchecked] unchecked call to <ANNOTATION_TYPE,SPAN_TYPE>add(java.util.Collection<? extends ANNOTATION_TYPE>,java.util.Collection<? extends ANNOTATION_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,SPAN_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,OUTCOME_TYPE>) as a member of the raw type org.cleartk.eval.AnnotationStatistics [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[747,23] [unchecked] unchecked call to <ANNOTATION_TYPE,SPAN_TYPE>add(java.util.Collection<? extends ANNOTATION_TYPE>,java.util.Collection<? extends ANNOTATION_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,SPAN_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,OUTCOME_TYPE>) as a member of the raw type org.cleartk.eval.AnnotationStatistics [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/eval/AssertionEvaluation.java>:[758,23] [unchecked] unchecked call to <ANNOTATION_TYPE,SPAN_TYPE>add(java.util.Collection<? extends ANNOTATION_TYPE>,java.util.Collection<? extends ANNOTATION_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,SPAN_TYPE>,com.google.common.base.Function<ANNOTATION_TYPE,OUTCOME_TYPE>) as a member of the raw type org.cleartk.eval.AnnotationStatistics [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/CreateAssertionDescriptor.java>:[33,90] [deprecation] org.cleartk.classifier.opennlp.DefaultMaxentDataWriterFactory in org.cleartk.classifier.opennlp has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/CasIndexer.java>:[74,21] [unchecked] unchecked cast found : org.apache.uima.jcas.tcas.Annotation required: T [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/HistoryCleartkAnalysisEngine.java>:[59,49] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/HistoryCleartkAnalysisEngine.java>:[62,8] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/pipelines/RunJudgeAttributeInstances.java>:[93,35] [unchecked] unchecked conversion found : java.util.List required: java.util.List<java.io.File> [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/cr/XmiCollectionReaderCtakes.java>:[81,18] [unchecked] unchecked call to add(E) as a member of the raw type java.util.ArrayList [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/GenericCleartkAnalysisEngine.java>:[58,49] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/GenericCleartkAnalysisEngine.java>:[61,8] [deprecation] org.cleartk.classifier.feature.extractor.ContextExtractor in org.cleartk.classifier.feature.extractor has been deprecated [WARNING] <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/main/java/org/apache/ctakes/assertion/medfacts/cleartk/TrainAssertionModel.java>:[292,72] [deprecation] org.cleartk.classifier.opennlp.DefaultMaxentDataWriterFactory in org.cleartk.classifier.opennlp has been deprecated [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/src/test/resources> [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-assertion --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-assertion --- [INFO] Tests are skipped. [INFO] [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-assertion --- [INFO] [INFO] Building jar: <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/target/ctakes-assertion-3.1.0-SNAPSHOT.jar> [INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ ctakes-assertion --- [INFO] [INFO] --- maven-site-plugin:3.1:attach-descriptor (attach-descriptor) @ ctakes-assertion --- [INFO] [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/target/ctakes-assertion-3.1.0-SNAPSHOT.jar> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-assertion/3.1.0-SNAPSHOT/ctakes-assertion-3.1.0-SNAPSHOT.jar [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-assertion/pom.xml> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-assertion/3.1.0-SNAPSHOT/ctakes-assertion-3.1.0-SNAPSHOT.pom [INFO] --- maven-install-plugin:2.3.1:install (default-install) @ ctakes-assertion --- [INFO] [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal-res/target> [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES Resources temporal 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-temporal-res --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-temporal-res --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-temporal-res --- [INFO] Copying 1 resource [INFO] Copying 3 resources [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-temporal-res --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal-res/src/test/resources> [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-temporal-res --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-temporal-res --- [INFO] Tests are skipped. [INFO] [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-temporal-res --- [INFO] [INFO] Building jar: <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal-res/target/ctakes-temporal-res-3.1.0-SNAPSHOT.jar> [INFO] --- maven-jar-plugin:2.4:jar (default-jar) @ ctakes-temporal-res --- [INFO] [INFO] --- maven-site-plugin:3.1:attach-descriptor (attach-descriptor) @ ctakes-temporal-res --- [INFO] [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal-res/target/ctakes-temporal-res-3.1.0-SNAPSHOT.jar> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-temporal-res/3.1.0-SNAPSHOT/ctakes-temporal-res-3.1.0-SNAPSHOT.jar [INFO] Installing <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal-res/pom.xml> to /home/jenkins/jenkins-slave/maven-repositories/1/org/apache/ctakes/ctakes-temporal-res/3.1.0-SNAPSHOT/ctakes-temporal-res-3.1.0-SNAPSHOT.pom [INFO] --- maven-install-plugin:2.3.1:install (default-install) @ ctakes-temporal-res --- [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES Temporal Information Extraction 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal/target> [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-temporal --- [INFO] [INFO] Configured Artifact: net.sourceforge.ctakesresources:ctakes-resources-umls2011ab:3.1.0:jar [INFO] Unpacking /home/jenkins/jenkins-slave/maven-repositories/1/net/sourceforge/ctakesresources/ctakes-resources-umls2011ab/3.1.0/ctakes-resources-umls2011ab-3.1.0.jar to <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal/target/unpacked> with includes "" and excludes "" [INFO] --- maven-dependency-plugin:2.6:unpack (unpack) @ ctakes-temporal --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-temporal --- Downloading: http://repo.maven.apache.org/maven2/jwnl/jwnl/1.3.3/jwnl-1.3.3.pom [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] skip non existing resourceDirectory <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal/src/main/resources> [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-temporal --- [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-temporal --- [INFO] Compiling 61 source files to <https://builds.apache.org/job/ctakes-trunk-package/ws/ctakes-temporal/target/classes> ERROR: Maven JVM terminated unexpectedly with exit code 143
