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From Apache Jenkins Server <jenk...@builds.apache.org>
Subject Build failed in Jenkins: cTAKES-trunk-Java-1.8 » Apache cTAKES YTEX #13
Date Tue, 17 Oct 2017 22:25:17 GMT
See <https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/13/display/redirect>

------------------------------------------
[...truncated 43.93 KB...]
     [echo] jdl.format examples/fracture_demo.xml
     [echo] jdl.data examples/fracture_demo.txt
     [echo] umls.prefix 
     [copy] Copying 1 file to /tmp
     [java] 2017-10-17 22:18:54,084 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - delimiter
9 encapsulator 65534
     [java] 2017-10-17 22:18:54,092 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - insert
into PUBLIC.fracture_demo (site_id,note_text,fracture,note_set) values (?,?,?,?)
     [java] 2017-10-17 22:18:54,656 INFO  hsqldb.db..ENGINE  - open start - state not modified
     [java] 2017-10-17 22:18:54,734 INFO  hsqldb.db..ENGINE  - dataFileCache open start
     [java] 2017-10-17 22:18:54,754 INFO  hsqldb.db..ENGINE  - dataFileCache open end
     [java] 2017-10-17 22:18:54,799 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,800 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,801 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,802 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,803 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,804 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,805 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,806 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,807 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,808 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,809 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,810 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,811 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,812 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,812 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
2 rows
     [java] 2017-10-17 22:18:54,813 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
31 rows total
     [java] 2017-10-17 22:18:54,822 INFO  hsqldb.db..ENGINE  - dataFileCache commit start
     [java] 2017-10-17 22:18:54,831 INFO  hsqldb.db..ENGINE  - dataFileCache commit end
     [java] 2017-10-17 22:18:54,835 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/ytex1672192884.sql
17 Oct 2017 22:18:55  INFO ENGINE - open start - state not modified
17 Oct 2017 22:18:55  INFO ENGINE - dataFileCache open start
17 Oct 2017 22:18:55  INFO ENGINE - dataFileCache open end
      [sql] Executing resource: /tmp/ytex1672192884.sql
17 Oct 2017 22:18:55  INFO ENGINE - dataFileCache commit start
17 Oct 2017 22:18:55  INFO ENGINE - dataFileCache commit end
17 Oct 2017 22:18:55  INFO ENGINE - Database closed
      [sql] 2 of 2 SQL statements executed successfully
   [delete] Deleting: /tmp/ytex1672192884.sql
   [delete] Deleting: /tmp/ytex1366903143use.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] 2017-10-17 22:18:59,970 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - delimiter
44 encapsulator 65534
     [java] 2017-10-17 22:18:59,978 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - insert
into PUBLIC.ref_stopword (stopword) values (?)
     [java] 2017-10-17 22:19:00,566 INFO  hsqldb.db..ENGINE  - open start - state not modified
     [java] 2017-10-17 22:19:00,647 INFO  hsqldb.db..ENGINE  - dataFileCache open start
     [java] 2017-10-17 22:19:00,665 INFO  hsqldb.db..ENGINE  - dataFileCache open end
     [java] 2017-10-17 22:19:00,746 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - inserted
360 rows total
     [java] 2017-10-17 22:19:00,755 INFO  hsqldb.db..ENGINE  - dataFileCache commit start
     [java] 2017-10-17 22:19:00,764 INFO  hsqldb.db..ENGINE  - dataFileCache commit end
     [java] 2017-10-17 22:19:00,766 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/ytex1927076944.sql
17 Oct 2017 22:19:01  INFO ENGINE - open start - state not modified
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache open start
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache open end
      [sql] Executing resource: /tmp/ytex1927076944.sql
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache commit start
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache commit end
17 Oct 2017 22:19:01  INFO ENGINE - Database closed
      [sql] 22 of 22 SQL statements executed successfully
   [delete] Deleting: /tmp/ytex1927076944.sql
   [delete] Deleting: /tmp/ytex1535306732use.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/ytex60945300.sql
17 Oct 2017 22:19:01  INFO ENGINE - open start - state not modified
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache open start
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache open end
      [sql] Executing resource: /tmp/ytex60945300.sql
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache commit start
17 Oct 2017 22:19:01  INFO ENGINE - dataFileCache commit end
17 Oct 2017 22:19:01  INFO ENGINE - Database closed
      [sql] 52 of 52 SQL statements executed successfully
   [delete] Deleting: /tmp/ytex60945300.sql
   [delete] Deleting: /tmp/ytex1783473453use.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.ytex.umls.dao.UMLSDaoTest
2017-10-17 22:19:02,572 INFO  org.springframework.context.support.ClassPathXmlApplicationContext
 - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@2669b199:
startup date [Tue Oct 17 22:19:02 UTC 2017]; root of context hierarchy
2017-10-17 22:19:02,635 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$ctakes-ytex/ws/-res/target/ctakes-ytex-res-4.0.1-SNAPSHOT.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-17 22:19:02,864 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-17 22:19:02,875 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]]>
2017-10-17 22:19:02,899 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
2017-10-17 22:19:02,974 INFO  org.springframework.context.support.ClassPathXmlApplicationContext
 - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@670002: startup
date [Tue Oct 17 22:19:02 UTC 2017]; root of context hierarchy
2017-10-17 22:19:02,976 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-datasource.xml]
2017-10-17 22:19:03,210 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.hbm.xml]
2017-10-17 22:19:03,237 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.xml]
2017-10-17 22:19:03,410 INFO  org.springframework.beans.factory.config.PropertyPlaceholderConfigurer
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-default.properties]
2017-10-17 22:19:03,411 INFO  org.springframework.beans.factory.config.PropertyPlaceholderConfigurer
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-17 22:19:03,411 INFO  org.springframework.beans.factory.config.PropertyPlaceholderConfigurer
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-umls.properties]
2017-10-17 22:19:03,458 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
2017-10-17 22:19:03,508 INFO  org.springframework.beans.factory.config.PropertiesFactoryBean
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-17 22:19:04,366 INFO  org.hibernate.annotations.common.Version  - HCANN000001: Hibernate
Commons Annotations {4.0.2.Final}
2017-10-17 22:19:04,372 INFO  org.hibernate.Version  - HHH000412: Hibernate Core {4.2.6.Final}
2017-10-17 22:19:04,374 INFO  org.hibernate.cfg.Environment  - HHH000206: hibernate.properties
not found
2017-10-17 22:19:04,380 INFO  org.hibernate.cfg.Environment  - HHH000021: Bytecode provider
name : javassist
2017-10-17 22:19:05,101 INFO  hsqldb.db..ENGINE  - open start - state not modified
2017-10-17 22:19:05,181 INFO  hsqldb.db..ENGINE  - dataFileCache open start
2017-10-17 22:19:05,190 INFO  hsqldb.db..ENGINE  - dataFileCache open end
2017-10-17 22:19:06,699 INFO  hsqldb.db..ENGINE  - dataFileCache commit start
2017-10-17 22:19:06,930 INFO  hsqldb.db..ENGINE  - dataFileCache commit end
2017-10-17 22:19:07,758 INFO  hsqldb.db..ENGINE  - Database closed
2017-10-17 22:19:07,904 INFO  hsqldb.db..ENGINE  - open start - state not modified
2017-10-17 22:19:07,986 INFO  hsqldb.db..ENGINE  - dataFileCache open start
2017-10-17 22:19:07,987 INFO  hsqldb.db..ENGINE  - dataFileCache open end
2017-10-17 22:19:08,027 INFO  org.hibernate.dialect.Dialect  - HHH000400: Using dialect: org.hibernate.dialect.HSQLDialect
2017-10-17 22:19:08,155 INFO  org.hibernate.engine.transaction.internal.TransactionFactoryInitiator
 - HHH000399: Using default transaction strategy (direct JDBC transactions)
2017-10-17 22:19:08,160 INFO  org.hibernate.hql.internal.ast.ASTQueryTranslatorFactory  -
HHH000397: Using ASTQueryTranslatorFactory
2017-10-17 22:19:08,312 INFO  org.hibernate.cache.spi.UpdateTimestampsCache  - HHH000250:
Starting update timestamps cache at region: org.hibernate.cache.spi.UpdateTimestampsCache
2017-10-17 22:19:08,317 INFO  org.hibernate.cache.internal.StandardQueryCache  - HHH000248:
Starting query cache at region: org.hibernate.cache.internal.StandardQueryCache
2017-10-17 22:19:08,929 INFO  org.springframework.orm.hibernate4.HibernateTransactionManager
 - Using DataSource [org.apache.commons.dbcp.BasicDataSource@1a5f7e7c] of Hibernate SessionFactory
for HibernateTransactionManager
2017-10-17 22:19:09,224 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
2017-10-17 22:19:12,636 INFO  hsqldb.db..ENGINE  - dataFileCache commit start
2017-10-17 22:19:13,277 INFO  hsqldb.db..ENGINE  - dataFileCache commit end
2017-10-17 22:19:15,190 INFO  hsqldb.db..ENGINE  - Database closed
2017-10-17 22:19:15,292 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: 12.994 sec <<< FAILURE!
Running org.apache.ctakes.ytex.ConceptDaoTest
2017-10-17 22:19:15,987 INFO  org.springframework.context.support.ClassPathXmlApplicationContext
 - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@2669b199:
startup date [Tue Oct 17 22:19:15 UTC 2017]; root of context hierarchy
2017-10-17 22:19:16,054 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$ctakes-ytex/ws/-res/target/ctakes-ytex-res-4.0.1-SNAPSHOT.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-17 22:19:16,272 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>
2017-10-17 22:19:16,281 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]]>
2017-10-17 22:19:16,306 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
2017-10-17 22:19:16,380 INFO  org.springframework.context.support.ClassPathXmlApplicationContext
 - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@670002: startup
date [Tue Oct 17 22:19:16 UTC 2017]; root of context hierarchy
2017-10-17 22:19:16,382 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-datasource.xml]
2017-10-17 22:19:16,612 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.hbm.xml]
2017-10-17 22:19:16,638 INFO  org.springframework.beans.factory.xml.XmlBeanDefinitionReader
 - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.xml]
2017-10-17 22:19:16,804 INFO  org.springframework.beans.factory.config.PropertyPlaceholderConfigurer
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-default.properties]
2017-10-17 22:19:16,804 INFO  org.springframework.beans.factory.config.PropertyPlaceholderConfigurer
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-17 22:19:16,805 INFO  org.springframework.beans.factory.config.PropertyPlaceholderConfigurer
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-umls.properties]
2017-10-17 22:19:16,854 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
2017-10-17 22:19:16,903 INFO  org.springframework.beans.factory.config.PropertiesFactoryBean
 - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
2017-10-17 22:19:17,839 INFO  org.hibernate.annotations.common.Version  - HCANN000001: Hibernate
Commons Annotations {4.0.2.Final}
2017-10-17 22:19:17,845 INFO  org.hibernate.Version  - HHH000412: Hibernate Core {4.2.6.Final}
2017-10-17 22:19:17,847 INFO  org.hibernate.cfg.Environment  - HHH000206: hibernate.properties
not found
2017-10-17 22:19:17,854 INFO  org.hibernate.cfg.Environment  - HHH000021: Bytecode provider
name : javassist
2017-10-17 22:19:18,667 INFO  hsqldb.db..ENGINE  - open start - state not modified
2017-10-17 22:19:18,781 INFO  hsqldb.db..ENGINE  - dataFileCache open start
2017-10-17 22:19:18,793 INFO  hsqldb.db..ENGINE  - dataFileCache open end
2017-10-17 22:19:18,886 INFO  hsqldb.db..ENGINE  - dataFileCache commit start
2017-10-17 22:19:18,887 INFO  hsqldb.db..ENGINE  - dataFileCache commit end
2017-10-17 22:19:18,891 INFO  hsqldb.db..ENGINE  - Database closed
2017-10-17 22:19:19,029 INFO  hsqldb.db..ENGINE  - open start - state not modified
2017-10-17 22:19:19,064 INFO  hsqldb.db..ENGINE  - dataFileCache open start
2017-10-17 22:19:19,065 INFO  hsqldb.db..ENGINE  - dataFileCache open end
2017-10-17 22:19:19,097 INFO  org.hibernate.dialect.Dialect  - HHH000400: Using dialect: org.hibernate.dialect.HSQLDialect
2017-10-17 22:19:19,216 INFO  org.hibernate.engine.transaction.internal.TransactionFactoryInitiator
 - HHH000399: Using default transaction strategy (direct JDBC transactions)
2017-10-17 22:19:19,222 INFO  org.hibernate.hql.internal.ast.ASTQueryTranslatorFactory  -
HHH000397: Using ASTQueryTranslatorFactory
2017-10-17 22:19:19,359 INFO  org.hibernate.cache.spi.UpdateTimestampsCache  - HHH000250:
Starting update timestamps cache at region: org.hibernate.cache.spi.UpdateTimestampsCache
2017-10-17 22:19:19,364 INFO  org.hibernate.cache.internal.StandardQueryCache  - HHH000248:
Starting query cache at region: org.hibernate.cache.internal.StandardQueryCache
2017-10-17 22:19:19,943 INFO  org.springframework.orm.hibernate4.HibernateTransactionManager
 - Using DataSource [org.apache.commons.dbcp.BasicDataSource@1a5f7e7c] of Hibernate SessionFactory
for HibernateTransactionManager
2017-10-17 22:19:20,224 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
2017-10-17 22:19:20,709 INFO  hsqldb.db..ENGINE  - dataFileCache commit start
2017-10-17 22:19:20,710 INFO  hsqldb.db..ENGINE  - dataFileCache commit end
2017-10-17 22:19:20,713 INFO  hsqldb.db..ENGINE  - Database closed
2017-10-17 22:19:20,815 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: 5.091 sec <<< FAILURE!
Running org.apache.ctakes.jdl.AppMainTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 1, Time elapsed: 0.521 sec
Running org.apache.ctakes.jdl.data.xml.ValidationTest
Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.65 sec
Running org.apache.ctakes.jdl.data.xml.jaxb.ObjectFactoryUtilTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.625 sec
Running org.apache.ctakes.jdl.data.xml.jaxb.ObjectFactoryBindTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.619 sec
Running org.apache.ctakes.jdl.data.xml.DomUtilTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.342 sec
Running org.apache.ctakes.jdl.data.xml.DomParserTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.3 sec
Running org.apache.ctakes.jdl.data.base.JdlConnectionTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 2, Time elapsed: 0.504 sec
Running org.apache.ctakes.jdl.data.loader.XmlLoaderTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.605 sec
Running org.apache.ctakes.jdl.data.loader.CsvLoaderTest
2017-10-17 22:19:28,571 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - delimiter 44
encapsulator 65534
2017-10-17 22:19:28,600 INFO  org.apache.ctakes.jdl.data.loader.CsvLoader  - delimiter 59
encapsulator 65534
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.628 sec
Running org.apache.ctakes.jdl.common.PropertiesFileTest
Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.077 sec
Running org.apache.ctakes.jdl.common.PropFileTest
Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.076 sec
Running org.apache.ctakes.jdl.common.FileUtilTest
Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.131 sec
Running org.apache.ctakes.jdl.common.SingletonTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.074 sec
Running org.apache.ctakes.jdl.AppJdlTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 1, Time elapsed: 0.492 sec
Running org.apache.ctakes.jdl.AppTest
Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.037 sec

Results :

Tests in error: 
  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$ctakes-ytex/ws/-res/src/main/resources/org/apache/ctakes/ytex/kernelBeanRefContext.xml]>:
Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException:
Could not instantiate bean class [org.springframework.context.support.ClassPathXmlApplicationContext]:
Constructor threw exception; nested exception is org.springframework.beans.factory.BeanCreationException:
Error creating bean with name 'gramMatrixExporter' defined in class path resource [org/apache/ctakes/ytex/beans-kernel.xml]:
Initialization of bean failed; nested exception is org.springframework.beans.FatalBeanException:
Failed to obtain BeanInfo for class [org.apache.ctakes.ytex.weka.GramMatrixExporterImpl];
nested exception is java.beans.IntrospectionException: type mismatch between read and write
methods
  testCreateConceptGraph(org.apache.ctakes.ytex.ConceptDaoTest): Unable to initialize group
definition. Group resource name [classpath*:org/apache/ctakes/ytex/kernelBeanRefContext.xml],
factory key [kernelApplicationContext]; nested exception is org.springframework.beans.factory.BeanCreationException:
Error creating bean with name 'kernelApplicationContext' defined in URL [file:<https://builds.apache.org/job/cTAKES-trunk-Java-1.8/org.apache.ctakes$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

Tests run: 36, Failures: 0, Errors: 2, Skipped: 4

[JENKINS] Recording test results
[JENKINS] Archiving disabled

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