See <https://builds.apache.org/job/ctakes-trunk-compiletest/262/changes>
Changes: [james-masanz] Make use of MergeGoldViewFromOneCasIntoInitialViewOfAnotherCas. Also, allow for different number of annotations in gold view and system-generated annotations. [james-masanz] annotator for reading XMI containing gold standard annotations and copying them into a new view of the current CAS ------------------------------------------ [...truncated 1286 lines...] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-chunker-res --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-chunker-res --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-chunker-res --- [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-chunker-res --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-chunker-res --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-chunker-res --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-chunker-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-compiletest/ws/ctakes-chunker-res/src/test/resources> [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-chunker-res --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-chunker-res --- [INFO] [INFO] Surefire report directory: <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-chunker-res/target/surefire-reports> ------------------------------------------------------- T E S T S ------------------------------------------------------- [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-chunker-res --- Results : Tests run: 0, Failures: 0, Errors: 0, Skipped: 0 [JENKINS] Recording test results [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES chunker 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-chunker/target> [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-chunker --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-chunker --- Downloading: http://repo.maven.apache.org/maven2/jwnl/jwnl/1.3.3/jwnl-1.3.3.pom [INFO] [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-chunker/src/main/resources> [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-chunker --- [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-chunker --- [INFO] Compiling 5 source files to <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-chunker/target/classes> [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-chunker --- Downloading: http://repo.maven.apache.org/maven2/jwnl/jwnl/1.3.3/jwnl-1.3.3.pom [INFO] [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-chunker/src/main/resources> [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-chunker --- [INFO] [INFO] Nothing to compile - all classes are up to date [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-chunker --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-chunker --- [INFO] Copying 10 resources [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] [INFO] Compiling 2 source files to <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-chunker/target/test-classes> [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-chunker --- [INFO] [INFO] Surefire report directory: <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-chunker/target/surefire-reports> ------------------------------------------------------- T E S T S ------------------------------------------------------- [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-chunker --- Running org.apache.ctakes.chunker.ChunkerTests Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.062 sec Running org.apache.ctakes.chunker.ChunkAdjusterTests Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec Results : Tests run: 4, Failures: 0, Errors: 0, Skipped: 0 [JENKINS] Recording test results [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES document preprocessor 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/target> [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-preprocessor --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-preprocessor --- 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] Copying 4 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-preprocessor --- [INFO] [INFO] Compiling 10 source files to <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/target/classes> [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-preprocessor --- [WARNING] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/src/main/java/org/apache/ctakes/preprocessor/ClinicalNotePreProcessor.java>:[889,29] [unchecked] unchecked call to add(E) as a member of the raw type java.util.List [WARNING] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/src/main/java/org/apache/ctakes/preprocessor/DocumentMetaData.java>:[50,23] [unchecked] unchecked call to put(K,V) as a member of the raw type java.util.Map [WARNING] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/src/main/java/org/apache/ctakes/preprocessor/DocumentMetaData.java>:[97,25] [unchecked] unchecked call to add(E) as a member of the raw type java.util.List [WARNING] <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/src/main/java/org/apache/ctakes/preprocessor/DocumentMetaData.java>:[106,28] [unchecked] unchecked call to addAll(java.util.Collection<? extends E>) as a member of the raw type java.util.List [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-preprocessor --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 4 resources [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-preprocessor --- [INFO] Nothing to compile - all classes are up to date [INFO] [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-preprocessor --- [INFO] [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 2 resources [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-preprocessor --- [INFO] [INFO] Compiling 1 source file to <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/target/test-classes> [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-preprocessor --- [INFO] [INFO] Surefire report directory: <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-preprocessor/target/surefire-reports> ------------------------------------------------------- T E S T S ------------------------------------------------------- [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-preprocessor --- Running org.apache.ctakes.preprocessor.ClinicalNotePreProcessorTest log4j: reset attribute= "false". log4j: Threshold ="null". log4j: Level value for root is [INFO]. log4j: root level set to INFO log4j: Class name: [org.apache.log4j.ConsoleAppender] log4j: Parsing layout of class: "org.apache.log4j.PatternLayout" log4j: Setting property [conversionPattern] to [%d{dd MMM yyyy HH:mm:ss} %5p %c{1} - %m%n]. log4j: Adding appender named [consoleAppender] to category [root]. Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.473 sec Results : Tests run: 1, Failures: 0, Errors: 0, Skipped: 0 [JENKINS] Recording test results [INFO] [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-dictionary-lookup-res/target> [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES Resources dictionary-lookup 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-dictionary-lookup-res --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-dictionary-lookup-res --- [debug] execute contextualize [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-dictionary-lookup-res --- [INFO] Copying 68 resources [INFO] Copying 3 resources [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-dictionary-lookup-res --- [INFO] [INFO] --- maven-remote-resources-plugin:1.3:process (default) @ ctakes-dictionary-lookup-res --- [debug] execute contextualize [INFO] [INFO] Using 'UTF-8' encoding to copy filtered resources. [INFO] Copying 68 resources [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-dictionary-lookup-res --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:compile (default-compile) @ ctakes-dictionary-lookup-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-compiletest/ws/ctakes-dictionary-lookup-res/src/test/resources> [INFO] Copying 3 resources [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:testResources (default-testResources) @ ctakes-dictionary-lookup-res --- [INFO] [INFO] No sources to compile [INFO] --- maven-compiler-plugin:2.4:testCompile (default-testCompile) @ ctakes-dictionary-lookup-res --- [INFO] [INFO] Surefire report directory: <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-dictionary-lookup-res/target/surefire-reports> ------------------------------------------------------- T E S T S ------------------------------------------------------- [INFO] --- maven-surefire-plugin:2.12:test (default-test) @ ctakes-dictionary-lookup-res --- Results : Tests run: 0, Failures: 0, Errors: 0, Skipped: 0 [JENKINS] Recording test results [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building Apache cTAKES dictionary lookup 3.1.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [INFO] Deleting <https://builds.apache.org/job/ctakes-trunk-compiletest/ws/ctakes-dictionary-lookup/target> [INFO] [INFO] --- maven-clean-plugin:2.4.1:clean (default-clean) @ ctakes-dictionary-lookup --- [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-dictionary-lookup --- [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-compiletest/ws/ctakes-dictionary-lookup/src/main/resources> [INFO] Copying 3 resources [INFO] --- maven-resources-plugin:2.5:resources (default-resources) @ ctakes-dictionary-lookup --- [INFO] [INFO] --- maven-dependency-plugin:2.6:unpack-dependencies (unpack-dependencies) @ ctakes-dictionary-lookup --- [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-compiletest/ws/ctakes-dictionary-lookup/target/classes> with includes "" and excludes "" ERROR: Maven JVM terminated unexpectedly with exit code 143
