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Posted to notifications@ctakes.apache.org by Apache Jenkins Server <je...@builds.apache.org> on 2017/10/24 04:42:45 UTC
Build failed in Jenkins: cTAKES-trunk-Java-1.8 » Apache cTAKES YTEX #14
See <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/14/display/redirect>
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[echo] jdl.format examples/fracture_demo.xml
[echo] jdl.data examples/fracture_demo.txt
[echo] umls.prefix
[copy] Copying 1 file to /tmp
[java] 2017-10-24 04:36:43,237 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - delimiter 9 encapsulator 65534
[java] 2017-10-24 04:36:43,245 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - insert into PUBLIC.fracture_demo (site_id,note_text,fracture,note_set) values (?,?,?,?)
[java] 2017-10-24 04:36:43,707 INFO hsqldb.db..ENGINE - open start - state not modified
[java] 2017-10-24 04:36:43,767 INFO hsqldb.db..ENGINE - dataFileCache open start
[java] 2017-10-24 04:36:43,784 INFO hsqldb.db..ENGINE - dataFileCache open end
[java] 2017-10-24 04:36:43,831 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,832 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,833 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,833 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,834 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,835 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,836 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,837 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,839 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,839 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,841 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,842 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,843 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,843 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,844 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 2 rows
[java] 2017-10-24 04:36:43,844 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 31 rows total
[java] 2017-10-24 04:36:43,853 INFO hsqldb.db..ENGINE - dataFileCache commit start
[java] 2017-10-24 04:36:43,859 INFO hsqldb.db..ENGINE - dataFileCache commit end
[java] 2017-10-24 04:36:43,862 INFO hsqldb.db..ENGINE - Database closed
jdbc.sqlcmd:
[echo] db.schemaPUBLIC
[echo] umls.schema ${db.schema}
[echo] umls.catalog
[echo] execute ./hsql/uima/fracture_demo.sql
[copy] Copying 1 file to /tmp
[echo] executing /tmp/ytex1998016020.sql
24 Oct 2017 04:36:44 INFO ENGINE - open start - state not modified
24 Oct 2017 04:36:44 INFO ENGINE - dataFileCache open start
24 Oct 2017 04:36:44 INFO ENGINE - dataFileCache open end
[sql] Executing resource: /tmp/ytex1998016020.sql
24 Oct 2017 04:36:44 INFO ENGINE - dataFileCache commit start
24 Oct 2017 04:36:44 INFO ENGINE - dataFileCache commit end
24 Oct 2017 04:36:44 INFO ENGINE - Database closed
[sql] 2 of 2 SQL statements executed successfully
[delete] Deleting: /tmp/ytex1998016020.sql
[delete] Deleting: /tmp/ytex1716414692use.sql
init:
init.conn:
[copy] Copying 1 file to /tmp
uima.stopword.load:
jdl:
[echo] jdl.format stopword.xml
[echo] jdl.data stopword.txt
[echo] umls.prefix
[copy] Copying 1 file to /tmp
[java] 2017-10-24 04:36:48,051 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - delimiter 44 encapsulator 65534
[java] 2017-10-24 04:36:48,059 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - insert into PUBLIC.ref_stopword (stopword) values (?)
[java] 2017-10-24 04:36:48,565 INFO hsqldb.db..ENGINE - open start - state not modified
[java] 2017-10-24 04:36:48,629 INFO hsqldb.db..ENGINE - dataFileCache open start
[java] 2017-10-24 04:36:48,654 INFO hsqldb.db..ENGINE - dataFileCache open end
[java] 2017-10-24 04:36:48,752 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - inserted 360 rows total
[java] 2017-10-24 04:36:48,762 INFO hsqldb.db..ENGINE - dataFileCache commit start
[java] 2017-10-24 04:36:48,771 INFO hsqldb.db..ENGINE - dataFileCache commit end
[java] 2017-10-24 04:36:48,775 INFO hsqldb.db..ENGINE - Database closed
uima.all:
kernel.drop:
jdbc.sqlcmd:
[echo] db.schemaPUBLIC
[echo] umls.schema ${db.schema}
[echo] umls.catalog
[echo] execute ./hsql/kernel/drop_tables.sql
[copy] Copying 1 file to /tmp
[echo] executing /tmp/ytex714450541.sql
24 Oct 2017 04:36:49 INFO ENGINE - open start - state not modified
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache open start
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache open end
[sql] Executing resource: /tmp/ytex714450541.sql
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache commit start
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache commit end
24 Oct 2017 04:36:49 INFO ENGINE - Database closed
[sql] 22 of 22 SQL statements executed successfully
[delete] Deleting: /tmp/ytex714450541.sql
[delete] Deleting: /tmp/ytex1400603832use.sql
kernel.create:
jdbc.sqlcmd:
[echo] db.schemaPUBLIC
[echo] umls.schema ${db.schema}
[echo] umls.catalog
[echo] execute ./hsql/kernel/create_tables.sql
[copy] Copying 1 file to /tmp
[echo] executing /tmp/ytex865868782.sql
24 Oct 2017 04:36:49 INFO ENGINE - open start - state not modified
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache open start
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache open end
[sql] Executing resource: /tmp/ytex865868782.sql
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache commit start
24 Oct 2017 04:36:49 INFO ENGINE - dataFileCache commit end
24 Oct 2017 04:36:49 INFO ENGINE - Database closed
[sql] 52 of 52 SQL statements executed successfully
[delete] Deleting: /tmp/ytex865868782.sql
[delete] Deleting: /tmp/ytex1463961292use.sql
kernel.all:
all:
[INFO] Executed tasks
[INFO]
[INFO] --- maven-surefire-plugin:2.12.1:test (surefire-it) @ ctakes-ytex ---
[INFO] Surefire report directory: <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/target/surefire-reports>
-------------------------------------------------------
T E S T S
-------------------------------------------------------
-------------------------------------------------------
T E S T S
-------------------------------------------------------
Running org.apache.ctakes.jdl.AppTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.048 sec
Running org.apache.ctakes.jdl.common.SingletonTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.059 sec
Running org.apache.ctakes.jdl.common.FileUtilTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.127 sec
Running org.apache.ctakes.jdl.common.PropertiesFileTest
Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.074 sec
Running org.apache.ctakes.jdl.common.PropFileTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.068 sec
Running org.apache.ctakes.jdl.AppJdlTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 1, Time elapsed: 0.403 sec
Running org.apache.ctakes.jdl.data.loader.XmlLoaderTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.532 sec
Running org.apache.ctakes.jdl.data.loader.CsvLoaderTest
2017-10-24 04:36:53,884 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - delimiter 44 encapsulator 65534
2017-10-24 04:36:53,906 INFO org.apache.ctakes.jdl.data.loader.CsvLoader - delimiter 59 encapsulator 65534
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.503 sec
Running org.apache.ctakes.jdl.data.base.JdlConnectionTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 2, Time elapsed: 0.412 sec
Running org.apache.ctakes.jdl.data.xml.ValidationTest
Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.549 sec
Running org.apache.ctakes.jdl.data.xml.DomUtilTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.292 sec
Running org.apache.ctakes.jdl.data.xml.jaxb.ObjectFactoryBindTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.496 sec
Running org.apache.ctakes.jdl.data.xml.jaxb.ObjectFactoryUtilTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.49 sec
Running org.apache.ctakes.jdl.data.xml.DomParserTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.234 sec
Running org.apache.ctakes.jdl.AppMainTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 1, Time elapsed: 0.411 sec
Running org.apache.ctakes.ytex.ConceptDaoTest
2017-10-24 04:36:58,998 INFO org.springframework.context.support.ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@2669b199: startup date [Tue Oct 24 04:36:58 UTC 2017]; root of context hierarchy
2017-10-24 04:36:59,051 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from URL [jar:file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/target/ctakes-ytex-res-4.0.1-SNAPSHOT.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-24 04:36:59,218 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-24 04:36:59,227 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Overriding bean definition for bean 'kernelApplicationContext': replacing [Generic bean: class [org.springframework.context.support.ClassPathXmlApplicationContext]; scope=; abstract=false; lazyInit=false; autowireMode=0; dependencyCheck=0; autowireCandidate=true; primary=false; factoryBeanName=null; factoryMethodName=null; initMethodName=null; destroyMethodName=null; defined in URL [jar:file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/target/ctakes-ytex-res-4.0.1-SNAPSHOT.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]]> with [Generic bean: class [org.springframework.context.support.ClassPathXmlApplicationContext]; scope=; abstract=false; lazyInit=false; autowireMode=0; dependencyCheck=0; autowireCandidate=true; primary=false; factoryBeanName=null; factoryMethodName=null; initMethodName=null; destroyMethodName=null; defined in URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]]>
2017-10-24 04:36:59,243 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@29f69090: defining beans [kernelApplicationContext]; root of factory hierarchy
2017-10-24 04:36:59,301 INFO org.springframework.context.support.ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@670002: startup date [Tue Oct 24 04:36:59 UTC 2017]; root of context hierarchy
2017-10-24 04:36:59,303 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-datasource.xml]
2017-10-24 04:36:59,485 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.hbm.xml]
2017-10-24 04:36:59,504 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.xml]
2017-10-24 04:36:59,663 INFO org.springframework.beans.factory.config.PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-default.properties]
2017-10-24 04:36:59,664 INFO org.springframework.beans.factory.config.PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-24 04:36:59,665 INFO org.springframework.beans.factory.config.PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-umls.properties]
2017-10-24 04:36:59,697 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@2de23121: defining beans [org.springframework.beans.factory.config.PropertyPlaceholderConfigurer#0,ytexProperties,hibernateProperties,dataSource,txAdvice,txTemplate,txTemplateNew,transactionManager,sessionFactory,org.springframework.aop.config.internalAutoProxyCreator,daoOperation,umlsDaoOperation,exporterOperation,wekaImporter,mapperOperation,treeOperation,utilOperation,corpusEvaluatorOperation,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#0,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#1,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#2,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#3,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#4,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#5,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#6,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#7,kernelEvaluationDao,conceptDao,umlsDao,wekaBagOfWordsExporter,gramMatrixExporter,documentResultInstanceImporter,wekaResultsImporter,classifierEvaluationDao,libSVMGramMatrixExporter,rGramMatrixExporter,libsvmUtil,instanceTreeBuilder,abstractNormKernel,equalityKernel,atttributeProductKernel,cacheManager,abstractCorpusKernelEvaluator,foldGenerator,kernelUtil,baseClassifierEvaluationParser,semiLEvaluationParser,libSVMParser,svmLightParser,svmlinParser,ClassifierEvaluationImporter,sparseDataExporter,sparseDataFormatterFactory,svmLightFormatterFactory,libSVMFormatterFactory,svmLinFormatterFactory,sgtFormatterFactory,sparseMatrixFormatterFactory,semiLFormatterFactory,wekaFormatterFactory,instanceDataExporter,infogainAttributeEval,rankerSearch,infogainAttributeSelection,wekaAttributeEvaluator,infoContentEvaluator,intrinsicInfoContentEvaluator,imputedFeatureEvaluator,cytoscapeHelper,abstractKernelCacheAdvice,pageRankService]; root of factory hierarchy
2017-10-24 04:36:59,731 INFO org.springframework.beans.factory.config.PropertiesFactoryBean - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-24 04:37:00,266 INFO org.hibernate.annotations.common.Version - HCANN000001: Hibernate Commons Annotations {4.0.2.Final}
2017-10-24 04:37:00,271 INFO org.hibernate.Version - HHH000412: Hibernate Core {4.2.6.Final}
2017-10-24 04:37:00,272 INFO org.hibernate.cfg.Environment - HHH000206: hibernate.properties not found
2017-10-24 04:37:00,274 INFO org.hibernate.cfg.Environment - HHH000021: Bytecode provider name : javassist
2017-10-24 04:37:00,869 INFO hsqldb.db..ENGINE - open start - state not modified
2017-10-24 04:37:00,952 INFO hsqldb.db..ENGINE - dataFileCache open start
2017-10-24 04:37:00,961 INFO hsqldb.db..ENGINE - dataFileCache open end
2017-10-24 04:37:01,019 INFO hsqldb.db..ENGINE - dataFileCache commit start
2017-10-24 04:37:01,019 INFO hsqldb.db..ENGINE - dataFileCache commit end
2017-10-24 04:37:01,022 INFO hsqldb.db..ENGINE - Database closed
2017-10-24 04:37:01,154 INFO hsqldb.db..ENGINE - open start - state not modified
2017-10-24 04:37:01,205 INFO hsqldb.db..ENGINE - dataFileCache open start
2017-10-24 04:37:01,206 INFO hsqldb.db..ENGINE - dataFileCache open end
2017-10-24 04:37:01,243 INFO org.hibernate.dialect.Dialect - HHH000400: Using dialect: org.hibernate.dialect.HSQLDialect
2017-10-24 04:37:01,358 INFO org.hibernate.engine.transaction.internal.TransactionFactoryInitiator - HHH000399: Using default transaction strategy (direct JDBC transactions)
2017-10-24 04:37:01,363 INFO org.hibernate.hql.internal.ast.ASTQueryTranslatorFactory - HHH000397: Using ASTQueryTranslatorFactory
2017-10-24 04:37:01,496 INFO org.hibernate.cache.spi.UpdateTimestampsCache - HHH000250: Starting update timestamps cache at region: org.hibernate.cache.spi.UpdateTimestampsCache
2017-10-24 04:37:01,500 INFO org.hibernate.cache.internal.StandardQueryCache - HHH000248: Starting query cache at region: org.hibernate.cache.internal.StandardQueryCache
2017-10-24 04:37:02,122 INFO org.springframework.orm.hibernate4.HibernateTransactionManager - Using DataSource [org.apache.commons.dbcp.BasicDataSource@1a5f7e7c] of Hibernate SessionFactory for HibernateTransactionManager
2017-10-24 04:37:02,289 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@2de23121: defining beans [org.springframework.beans.factory.config.PropertyPlaceholderConfigurer#0,ytexProperties,hibernateProperties,dataSource,txAdvice,txTemplate,txTemplateNew,transactionManager,sessionFactory,org.springframework.aop.config.internalAutoProxyCreator,daoOperation,umlsDaoOperation,exporterOperation,wekaImporter,mapperOperation,treeOperation,utilOperation,corpusEvaluatorOperation,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#0,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#1,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#2,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#3,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#4,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#5,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#6,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#7,kernelEvaluationDao,conceptDao,umlsDao,wekaBagOfWordsExporter,gramMatrixExporter,documentResultInstanceImporter,wekaResultsImporter,classifierEvaluationDao,libSVMGramMatrixExporter,rGramMatrixExporter,libsvmUtil,instanceTreeBuilder,abstractNormKernel,equalityKernel,atttributeProductKernel,cacheManager,abstractCorpusKernelEvaluator,foldGenerator,kernelUtil,baseClassifierEvaluationParser,semiLEvaluationParser,libSVMParser,svmLightParser,svmlinParser,ClassifierEvaluationImporter,sparseDataExporter,sparseDataFormatterFactory,svmLightFormatterFactory,libSVMFormatterFactory,svmLinFormatterFactory,sgtFormatterFactory,sparseMatrixFormatterFactory,semiLFormatterFactory,wekaFormatterFactory,instanceDataExporter,infogainAttributeEval,rankerSearch,infogainAttributeSelection,wekaAttributeEvaluator,infoContentEvaluator,intrinsicInfoContentEvaluator,imputedFeatureEvaluator,cytoscapeHelper,abstractKernelCacheAdvice,pageRankService]; root of factory hierarchy
2017-10-24 04:37:02,303 INFO hsqldb.db..ENGINE - dataFileCache commit start
2017-10-24 04:37:02,305 INFO hsqldb.db..ENGINE - dataFileCache commit end
2017-10-24 04:37:02,307 INFO hsqldb.db..ENGINE - Database closed
2017-10-24 04:37:02,408 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@29f69090: defining beans [kernelApplicationContext]; root of factory hierarchy
Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 3.616 sec <<< FAILURE!
Running org.apache.ctakes.ytex.umls.dao.UMLSDaoTest
2017-10-24 04:37:02,990 INFO org.springframework.context.support.ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@2669b199: startup date [Tue Oct 24 04:37:02 UTC 2017]; root of context hierarchy
2017-10-24 04:37:03,039 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from URL [jar:file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/target/ctakes-ytex-res-4.0.1-SNAPSHOT.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-24 04:37:03,199 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-24 04:37:03,206 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Overriding bean definition for bean 'kernelApplicationContext': replacing [Generic bean: class [org.springframework.context.support.ClassPathXmlApplicationContext]; scope=; abstract=false; lazyInit=false; autowireMode=0; dependencyCheck=0; autowireCandidate=true; primary=false; factoryBeanName=null; factoryMethodName=null; initMethodName=null; destroyMethodName=null; defined in URL [jar:file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/target/ctakes-ytex-res-4.0.1-SNAPSHOT.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]]> with [Generic bean: class [org.springframework.context.support.ClassPathXmlApplicationContext]; scope=; abstract=false; lazyInit=false; autowireMode=0; dependencyCheck=0; autowireCandidate=true; primary=false; factoryBeanName=null; factoryMethodName=null; initMethodName=null; destroyMethodName=null; defined in URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]]>
2017-10-24 04:37:03,222 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@29f69090: defining beans [kernelApplicationContext]; root of factory hierarchy
2017-10-24 04:37:03,283 INFO org.springframework.context.support.ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@670002: startup date [Tue Oct 24 04:37:03 UTC 2017]; root of context hierarchy
2017-10-24 04:37:03,284 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-datasource.xml]
2017-10-24 04:37:03,451 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.hbm.xml]
2017-10-24 04:37:03,470 INFO org.springframework.beans.factory.xml.XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.xml]
2017-10-24 04:37:03,592 INFO org.springframework.beans.factory.config.PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-default.properties]
2017-10-24 04:37:03,592 INFO org.springframework.beans.factory.config.PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-24 04:37:03,592 INFO org.springframework.beans.factory.config.PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-umls.properties]
2017-10-24 04:37:03,626 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@2de23121: defining beans [org.springframework.beans.factory.config.PropertyPlaceholderConfigurer#0,ytexProperties,hibernateProperties,dataSource,txAdvice,txTemplate,txTemplateNew,transactionManager,sessionFactory,org.springframework.aop.config.internalAutoProxyCreator,daoOperation,umlsDaoOperation,exporterOperation,wekaImporter,mapperOperation,treeOperation,utilOperation,corpusEvaluatorOperation,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#0,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#1,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#2,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#3,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#4,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#5,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#6,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#7,kernelEvaluationDao,conceptDao,umlsDao,wekaBagOfWordsExporter,gramMatrixExporter,documentResultInstanceImporter,wekaResultsImporter,classifierEvaluationDao,libSVMGramMatrixExporter,rGramMatrixExporter,libsvmUtil,instanceTreeBuilder,abstractNormKernel,equalityKernel,atttributeProductKernel,cacheManager,abstractCorpusKernelEvaluator,foldGenerator,kernelUtil,baseClassifierEvaluationParser,semiLEvaluationParser,libSVMParser,svmLightParser,svmlinParser,ClassifierEvaluationImporter,sparseDataExporter,sparseDataFormatterFactory,svmLightFormatterFactory,libSVMFormatterFactory,svmLinFormatterFactory,sgtFormatterFactory,sparseMatrixFormatterFactory,semiLFormatterFactory,wekaFormatterFactory,instanceDataExporter,infogainAttributeEval,rankerSearch,infogainAttributeSelection,wekaAttributeEvaluator,infoContentEvaluator,intrinsicInfoContentEvaluator,imputedFeatureEvaluator,cytoscapeHelper,abstractKernelCacheAdvice,pageRankService]; root of factory hierarchy
2017-10-24 04:37:03,661 INFO org.springframework.beans.factory.config.PropertiesFactoryBean - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-24 04:37:04,184 INFO org.hibernate.annotations.common.Version - HCANN000001: Hibernate Commons Annotations {4.0.2.Final}
2017-10-24 04:37:04,189 INFO org.hibernate.Version - HHH000412: Hibernate Core {4.2.6.Final}
2017-10-24 04:37:04,192 INFO org.hibernate.cfg.Environment - HHH000206: hibernate.properties not found
2017-10-24 04:37:04,194 INFO org.hibernate.cfg.Environment - HHH000021: Bytecode provider name : javassist
2017-10-24 04:37:04,798 INFO hsqldb.db..ENGINE - open start - state not modified
2017-10-24 04:37:04,876 INFO hsqldb.db..ENGINE - dataFileCache open start
2017-10-24 04:37:04,886 INFO hsqldb.db..ENGINE - dataFileCache open end
2017-10-24 04:37:04,968 INFO hsqldb.db..ENGINE - dataFileCache commit start
2017-10-24 04:37:04,969 INFO hsqldb.db..ENGINE - dataFileCache commit end
2017-10-24 04:37:04,971 INFO hsqldb.db..ENGINE - Database closed
2017-10-24 04:37:05,102 INFO hsqldb.db..ENGINE - open start - state not modified
2017-10-24 04:37:05,140 INFO hsqldb.db..ENGINE - dataFileCache open start
2017-10-24 04:37:05,140 INFO hsqldb.db..ENGINE - dataFileCache open end
2017-10-24 04:37:05,172 INFO org.hibernate.dialect.Dialect - HHH000400: Using dialect: org.hibernate.dialect.HSQLDialect
2017-10-24 04:37:05,271 INFO org.hibernate.engine.transaction.internal.TransactionFactoryInitiator - HHH000399: Using default transaction strategy (direct JDBC transactions)
2017-10-24 04:37:05,276 INFO org.hibernate.hql.internal.ast.ASTQueryTranslatorFactory - HHH000397: Using ASTQueryTranslatorFactory
2017-10-24 04:37:05,405 INFO org.hibernate.cache.spi.UpdateTimestampsCache - HHH000250: Starting update timestamps cache at region: org.hibernate.cache.spi.UpdateTimestampsCache
2017-10-24 04:37:05,409 INFO org.hibernate.cache.internal.StandardQueryCache - HHH000248: Starting query cache at region: org.hibernate.cache.internal.StandardQueryCache
2017-10-24 04:37:05,951 INFO org.springframework.orm.hibernate4.HibernateTransactionManager - Using DataSource [org.apache.commons.dbcp.BasicDataSource@1a5f7e7c] of Hibernate SessionFactory for HibernateTransactionManager
2017-10-24 04:37:06,110 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@2de23121: defining beans [org.springframework.beans.factory.config.PropertyPlaceholderConfigurer#0,ytexProperties,hibernateProperties,dataSource,txAdvice,txTemplate,txTemplateNew,transactionManager,sessionFactory,org.springframework.aop.config.internalAutoProxyCreator,daoOperation,umlsDaoOperation,exporterOperation,wekaImporter,mapperOperation,treeOperation,utilOperation,corpusEvaluatorOperation,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#0,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#1,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#2,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#3,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#4,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#5,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#6,org.springframework.aop.support.DefaultBeanFactoryPointcutAdvisor#7,kernelEvaluationDao,conceptDao,umlsDao,wekaBagOfWordsExporter,gramMatrixExporter,documentResultInstanceImporter,wekaResultsImporter,classifierEvaluationDao,libSVMGramMatrixExporter,rGramMatrixExporter,libsvmUtil,instanceTreeBuilder,abstractNormKernel,equalityKernel,atttributeProductKernel,cacheManager,abstractCorpusKernelEvaluator,foldGenerator,kernelUtil,baseClassifierEvaluationParser,semiLEvaluationParser,libSVMParser,svmLightParser,svmlinParser,ClassifierEvaluationImporter,sparseDataExporter,sparseDataFormatterFactory,svmLightFormatterFactory,libSVMFormatterFactory,svmLinFormatterFactory,sgtFormatterFactory,sparseMatrixFormatterFactory,semiLFormatterFactory,wekaFormatterFactory,instanceDataExporter,infogainAttributeEval,rankerSearch,infogainAttributeSelection,wekaAttributeEvaluator,infoContentEvaluator,intrinsicInfoContentEvaluator,imputedFeatureEvaluator,cytoscapeHelper,abstractKernelCacheAdvice,pageRankService]; root of factory hierarchy
2017-10-24 04:37:06,125 INFO hsqldb.db..ENGINE - dataFileCache commit start
2017-10-24 04:37:06,127 INFO hsqldb.db..ENGINE - dataFileCache commit end
2017-10-24 04:37:06,129 INFO hsqldb.db..ENGINE - Database closed
2017-10-24 04:37:06,230 INFO org.springframework.beans.factory.support.DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@29f69090: defining beans [kernelApplicationContext]; root of factory hierarchy
Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed: 3.45 sec <<< FAILURE!
Results :
Tests in error:
testCreateConceptGraph(org.apache.ctakes.ytex.ConceptDaoTest): Unable to initialize group definition. Group resource name [classpath*:org/apache/ctakes/ytex/kernelBeanRefContext.xml], factory key [kernelApplicationContext]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'kernelApplicationContext' defined in URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [org.springframework.context.support.ClassPathXmlApplicationContext]: Constructor threw exception; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'gramMatrixExporter' defined in class path resource [org/apache/ctakes/ytex/beans-kernel.xml]: Initialization of bean failed; nested exception is org.springframework.beans.FatalBeanException: Failed to obtain BeanInfo for class [org.apache.ctakes.ytex.weka.GramMatrixExporterImpl]; nested exception is java.beans.IntrospectionException: type mismatch between read and write methods
testGetAllAuiStr(org.apache.ctakes.ytex.umls.dao.UMLSDaoTest): Unable to initialize group definition. Group resource name [classpath*:org/apache/ctakes/ytex/kernelBeanRefContext.xml], factory key [kernelApplicationContext]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'kernelApplicationContext' defined in URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [org.springframework.context.support.ClassPathXmlApplicationContext]: Constructor threw exception; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'gramMatrixExporter' defined in class path resource [org/apache/ctakes/ytex/beans-kernel.xml]: Initialization of bean failed; nested exception is org.springframework.beans.FatalBeanException: Failed to obtain BeanInfo for class [org.apache.ctakes.ytex.weka.GramMatrixExporterImpl]; nested exception is java.beans.IntrospectionException: type mismatch between read and write methods
Tests run: 36, Failures: 0, Errors: 2, Skipped: 4
[JENKINS] Recording test results
[JENKINS] Archiving disabled