Uploaded image for project: 'cTAKES'
  1. cTAKES
  2. CTAKES-524

trying to run YTEX but unable to setup dictionary database in MSSQL

    XMLWordPrintableJSON

    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Won't Fix
    • Affects Version/s: 4.0.0
    • Fix Version/s: None
    • Component/s: ctakes-ytex
    • Labels:
      None
    • Docs Text:
      Hide

      C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts>java -cp C:\apache-ctakes-4.0.0\lib\ant-1.9.2.jar;C:\apache-ctakes-4.0.0\lib\ant-launcher-1.9.2.jar;C:\apache-ctakes-4.0.0\lib\ant-contrib-1.0b3.jar org.apache.tools.ant.Main -f build-setup.xml all
      Buildfile: C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\build-setup.xml

      dbping:

      dbping:
           [java] DBPing: connection succeeded

      templateToConfig.init:

      templateToConfig.extractTemplates:
           [echo] unpacking ytex templates from C:\apache-ctakes-4.0.0\lib\ctakes-ytex-res-4.0.0.jar to C:\apache-ctakes-4.0.0/resources
          [unzip] Expanding: C:\apache-ctakes-4.0.0\lib\ctakes-ytex-res-4.0.0.jar into C:\apache-ctakes-4.0.0\resources

      templateToConfig.updateConfig:
           [echo] config.source.dir = C:\apache-ctakes-4.0.0/resources
           [echo] config.generated.dir = C:\apache-ctakes-4.0.0/resources
           [copy] Copying 6 files to C:\apache-ctakes-4.0.0\resources

      templateToConfig:

      setupDatabase:

      init:

      umls.check.mrconso:
           [echo] umls.schema dbo
           [echo] umls.catalog YTEX
            [sql] Executing commands
            [sql] 1 of 1 SQL statements executed successfully
           [echo] mrconso.out = 1
           [echo]
         [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\mrconso-check.txt
           [echo] mrconso.exists = true

      umls.all:
           [echo] mrconso.exists = true

      init:

      umls.dropAuiFword:
           [echo] drop ytex umls_aui_fword table

      jdbc.sqlcmd:
           [echo] db.schemadbo
           [echo] umls.schema dbo
           [echo] umls.catalog YTEX
           [echo] execute ./mssql/./umls/drop_tables.sql
           [copy] Copying 1 file to C:\Users\kumrajen\AppData\Local\Temp
           [echo] executing C:\Users\kumrajen\AppData\Local\Temp\ytex2018208138.sql
            [sql] Executing resource: C:\Users\kumrajen\AppData\Local\Temp\ytex2018208138.sql
            [sql] 2 of 2 SQL statements executed successfully
         [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex2018208138.sql
         [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex530618693use.sql

      umls.setupAuiFword:
           [echo] create ytex umls_aui_fword tables

      jdbc.sqlcmd:
           [echo] db.schemadbo
           [echo] umls.schema dbo
           [echo] umls.catalog YTEX
           [echo] execute ./mssql/./umls/create_tables.sql
           [copy] Copying 1 file to C:\Users\kumrajen\AppData\Local\Temp
           [echo] executing C:\Users\kumrajen\AppData\Local\Temp\ytex600409625.sql
            [sql] Executing resource: C:\Users\kumrajen\AppData\Local\Temp\ytex600409625.sql
            [sql] 2 of 2 SQL statements executed successfully
         [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex600409625.sql
         [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex385602631use.sql
           [echo] setting up umls_aui_fword table. please be patient - this can take a while
           [java] log4j: reset attribute= "false".
           [java] log4j: Threshold ="null".
           [java] log4j: Retreiving an instance of org.apache.log4j.Logger.
           [java] log4j: Setting [ProgressAppender] additivity to [false].
           [java] log4j: Level value for ProgressAppender is [INFO].
           [java] log4j: ProgressAppender level set to INFO
           [java] log4j: Class name: [org.apache.log4j.ConsoleAppender]
           [java] log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"
           [java] log4j: Setting property [conversionPattern] to [%m].
           [java] log4j: Adding appender named [noEolAppender] to category [ProgressAppender].
           [java] log4j: Retreiving an instance of org.apache.log4j.Logger.
           [java] log4j: Setting [ProgressDone] additivity to [false].
           [java] log4j: Level value for ProgressDone is [INFO].
           [java] log4j: ProgressDone level set to INFO
           [java] log4j: Class name: [org.apache.log4j.ConsoleAppender]
           [java] log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"
           [java] log4j: Setting property [conversionPattern] to [%m%n].
           [java] log4j: Adding appender named [eolAppender] to category [ProgressDone].
           [java] log4j: Level value for root is [INFO].
           [java] log4j: root level set to INFO
           [java] log4j: Class name: [org.apache.log4j.ConsoleAppender]
           [java] log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"
           [java] log4j: Setting property [conversionPattern] to [%d{dd MMM yyyy HH:mm:ss} %5p %c{1} - %m%n].
           [java] log4j: Adding appender named [consoleAppender] to category [root].
           [java] 23 Oct 2018 16:39:19 INFO SetupAuiFirstWord - loading lvg.properties from:/C:/apache-ctakes-4.0.0/resources/org/apache/ctakes/lvg/data/config/lvg.properties
           [java] 23 Oct 2018 16:39:19 INFO ENGINE - open start - state not modified
           [java] 23 Oct 2018 16:39:19 INFO ENGINE - dataFileCache open start
           [java] 23 Oct 2018 16:39:19 INFO ENGINE - dataFileCache open end
           [java] 23 Oct 2018 16:39:20 INFO ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@c7ba306: startup date [Tue Oct 23 16:39:20 IST 2018]; root of context hierarchy
           [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from URL [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-res-4.0.0.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]
           [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from URL [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]
           [java] 23 Oct 2018 16:39:20 INFO 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:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-res-4.0.0.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 [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]]
           [java] 23 Oct 2018 16:39:20 INFO DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@615091b8: defining beans [kernelApplicationContext]; root of factory hierarchy
           [java] 23 Oct 2018 16:39:20 INFO ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@6f0b0a5e: startup date [Tue Oct 23 16:39:20 IST 2018]; root of context hierarchy
           [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-datasource.xml]
           [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.hbm.xml]
           [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.xml]
           [java] 23 Oct 2018 16:39:20 INFO PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-default.properties]
           [java] 23 Oct 2018 16:39:20 INFO PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
           [java] 23 Oct 2018 16:39:20 INFO PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-umls.properties]
           [java] 23 Oct 2018 16:39:20 INFO DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@6063d80a: 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
           [java] 23 Oct 2018 16:39:20 INFO PropertiesFactoryBean - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]
           [java] 23 Oct 2018 16:39:21 INFO Version - HCANN000001: Hibernate Commons Annotations {4.0.2.Final}
           [java] 23 Oct 2018 16:39:21 INFO Version - HHH000412: Hibernate Core {4.2.6.Final}
           [java] 23 Oct 2018 16:39:21 INFO Environment - HHH000206: hibernate.properties not found
           [java] 23 Oct 2018 16:39:21 INFO Environment - HHH000021: Bytecode provider name : javassist
           [java] 23 Oct 2018 16:39:24 INFO Dialect - HHH000400: Using dialect: org.hibernate.dialect.SQLServerDialect
           [java] 23 Oct 2018 16:39:24 INFO TransactionFactoryInitiator - HHH000399: Using default transaction strategy (direct JDBC transactions)
           [java] 23 Oct 2018 16:39:24 INFO ASTQueryTranslatorFactory - HHH000397: Using ASTQueryTranslatorFactory
           [java] 23 Oct 2018 16:39:24 INFO UpdateTimestampsCache - HHH000250: Starting update timestamps cache at region: org.hibernate.cache.spi.UpdateTimestampsCache
           [java] 23 Oct 2018 16:39:24 INFO StandardQueryCache - HHH000248: Starting query cache at region: org.hibernate.cache.internal.StandardQueryCache
           [java] WARNING: An illegal reflective access operation has occurred
           [java] WARNING: Illegal reflective access by javassist.util.proxy.SecurityActions (file:/C:/apache-ctakes-4.0.0/lib/javassist-3.15.0-GA.jar) to method java.lang.ClassLoader.defineClass(java.lang.String,byte[],int,int,java.security.ProtectionDomain)
           [java] WARNING: Please consider reporting this to the maintainers of javassist.util.proxy.SecurityActions
           [java] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
           [java] WARNING: All illegal access operations will be denied in a future release
           [java] 23 Oct 2018 16:39:24 INFO HibernateTransactionManager - Using DataSource [org.apache.commons.dbcp.BasicDataSource@1cf336fd] of Hibernate SessionFactory for HibernateTransactionManager
           [java] Exception in thread "main" java.lang.ExceptionInInitializerError
           [java] at org.apache.ctakes.ytex.tools.SetupAuiFirstWord.setupAuiFirstWord(SetupAuiFirstWord.java:190)
           [java] at org.apache.ctakes.ytex.tools.SetupAuiFirstWord.main(SetupAuiFirstWord.java:186)
           [java] Caused by: org.springframework.beans.factory.access.BootstrapException: 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 [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/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
           [java] at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:386)
           [java] at org.apache.ctakes.ytex.kernel.KernelContextHolder.<clinit>(KernelContextHolder.java:29)
           [java] ... 2 more
           [java] Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'kernelApplicationContext' defined in URL [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/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
           [java] at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:288)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1035)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:939)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:485)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:456)
           [java] at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:294)
           [java] at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:225)
           [java] at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:291)
           [java] at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)
           [java] at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:609)
           [java] at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:918)
           [java] at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:469)
           [java] at org.springframework.context.access.ContextSingletonBeanFactoryLocator.initializeDefinition(ContextSingletonBeanFactoryLocator.java:143)
           [java] at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:381)
           [java] ... 3 more
           [java] Caused by: 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
           [java] at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:162)
           [java] at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:110)
           [java] at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:280)
           [java] ... 16 more
           [java] Caused by: 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
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:527)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:456)
           [java] at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:294)
           [java] at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:225)
           [java] at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:291)
           [java] at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)
           [java] at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:609)
           [java] at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:918)
           [java] at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:469)
           [java] at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:139)
           [java] at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:93)
           [java] at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
           [java] at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
           [java] at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
           [java] at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:488)
           [java] at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:147)
           [java] ... 18 more
           [java] Caused by: 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
           [java] at org.springframework.beans.CachedIntrospectionResults.<init>(CachedIntrospectionResults.java:262)
           [java] at org.springframework.beans.CachedIntrospectionResults.forClass(CachedIntrospectionResults.java:149)
           [java] at org.springframework.beans.BeanWrapperImpl.getCachedIntrospectionResults(BeanWrapperImpl.java:324)
           [java] at org.springframework.beans.BeanWrapperImpl.getPropertyDescriptors(BeanWrapperImpl.java:331)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.filterPropertyDescriptorsForDependencyCheck(AbstractAutowireCapableBeanFactory.java:1242)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1101)
           [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:517)
           [java] ... 33 more
           [java] Caused by: java.beans.IntrospectionException: type mismatch between read and write methods
           [java] at java.desktop/java.beans.PropertyDescriptor.findPropertyType(PropertyDescriptor.java:700)
           [java] at java.desktop/java.beans.PropertyDescriptor.setReadMethod(PropertyDescriptor.java:281)
           [java] at org.springframework.beans.ExtendedBeanInfo.addOrUpdatePropertyDescriptor(ExtendedBeanInfo.java:282)
           [java] at org.springframework.beans.ExtendedBeanInfo.addOrUpdatePropertyDescriptor(ExtendedBeanInfo.java:180)
           [java] at org.springframework.beans.ExtendedBeanInfo.<init>(ExtendedBeanInfo.java:100)
           [java] at org.springframework.beans.CachedIntrospectionResults.<init>(CachedIntrospectionResults.java:224)
           [java] ... 39 more
           [java] 23 Oct 2018 16:39:24 INFO DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@6063d80a: 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
           [java] 23 Oct 2018 16:39:24 INFO DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@615091b8: defining beans [kernelApplicationContext]; root of factory hierarchy

      BUILD FAILED
      C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\build-setup.xml:55: The following error occurred while executing this line:
      C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\data\build.xml:145: The following error occurred while executing this line:
      C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\data\build.xml:263: Java returned: 1

      Total time: 17 seconds
      Show
      C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts>java -cp C:\apache-ctakes-4.0.0\lib\ant-1.9.2.jar;C:\apache-ctakes-4.0.0\lib\ant-launcher-1.9.2.jar;C:\apache-ctakes-4.0.0\lib\ant-contrib-1.0b3.jar org.apache.tools.ant.Main -f build-setup.xml all Buildfile: C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\build-setup.xml dbping: dbping:      [java] DBPing: connection succeeded templateToConfig.init: templateToConfig.extractTemplates:      [echo] unpacking ytex templates from C:\apache-ctakes-4.0.0\lib\ctakes-ytex-res-4.0.0.jar to C:\apache-ctakes-4.0.0/resources     [unzip] Expanding: C:\apache-ctakes-4.0.0\lib\ctakes-ytex-res-4.0.0.jar into C:\apache-ctakes-4.0.0\resources templateToConfig.updateConfig:      [echo] config.source.dir = C:\apache-ctakes-4.0.0/resources      [echo] config.generated.dir = C:\apache-ctakes-4.0.0/resources      [copy] Copying 6 files to C:\apache-ctakes-4.0.0\resources templateToConfig: setupDatabase: init: umls.check.mrconso:      [echo] umls.schema dbo      [echo] umls.catalog YTEX       [sql] Executing commands       [sql] 1 of 1 SQL statements executed successfully      [echo] mrconso.out = 1      [echo]    [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\mrconso-check.txt      [echo] mrconso.exists = true umls.all:      [echo] mrconso.exists = true init: umls.dropAuiFword:      [echo] drop ytex umls_aui_fword table jdbc.sqlcmd:      [echo] db.schemadbo      [echo] umls.schema dbo      [echo] umls.catalog YTEX      [echo] execute ./mssql/./umls/drop_tables.sql      [copy] Copying 1 file to C:\Users\kumrajen\AppData\Local\Temp      [echo] executing C:\Users\kumrajen\AppData\Local\Temp\ytex2018208138.sql       [sql] Executing resource: C:\Users\kumrajen\AppData\Local\Temp\ytex2018208138.sql       [sql] 2 of 2 SQL statements executed successfully    [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex2018208138.sql    [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex530618693use.sql umls.setupAuiFword:      [echo] create ytex umls_aui_fword tables jdbc.sqlcmd:      [echo] db.schemadbo      [echo] umls.schema dbo      [echo] umls.catalog YTEX      [echo] execute ./mssql/./umls/create_tables.sql      [copy] Copying 1 file to C:\Users\kumrajen\AppData\Local\Temp      [echo] executing C:\Users\kumrajen\AppData\Local\Temp\ytex600409625.sql       [sql] Executing resource: C:\Users\kumrajen\AppData\Local\Temp\ytex600409625.sql       [sql] 2 of 2 SQL statements executed successfully    [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex600409625.sql    [delete] Deleting: C:\Users\kumrajen\AppData\Local\Temp\ytex385602631use.sql      [echo] setting up umls_aui_fword table. please be patient - this can take a while      [java] log4j: reset attribute= "false".      [java] log4j: Threshold ="null".      [java] log4j: Retreiving an instance of org.apache.log4j.Logger.      [java] log4j: Setting [ProgressAppender] additivity to [false].      [java] log4j: Level value for ProgressAppender is [INFO].      [java] log4j: ProgressAppender level set to INFO      [java] log4j: Class name: [org.apache.log4j.ConsoleAppender]      [java] log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"      [java] log4j: Setting property [conversionPattern] to [%m].      [java] log4j: Adding appender named [noEolAppender] to category [ProgressAppender].      [java] log4j: Retreiving an instance of org.apache.log4j.Logger.      [java] log4j: Setting [ProgressDone] additivity to [false].      [java] log4j: Level value for ProgressDone is [INFO].      [java] log4j: ProgressDone level set to INFO      [java] log4j: Class name: [org.apache.log4j.ConsoleAppender]      [java] log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"      [java] log4j: Setting property [conversionPattern] to [%m%n].      [java] log4j: Adding appender named [eolAppender] to category [ProgressDone].      [java] log4j: Level value for root is [INFO].      [java] log4j: root level set to INFO      [java] log4j: Class name: [org.apache.log4j.ConsoleAppender]      [java] log4j: Parsing layout of class: "org.apache.log4j.PatternLayout"      [java] log4j: Setting property [conversionPattern] to [%d{dd MMM yyyy HH:mm:ss} %5p %c{1} - %m%n].      [java] log4j: Adding appender named [consoleAppender] to category [root].      [java] 23 Oct 2018 16:39:19 INFO SetupAuiFirstWord - loading lvg.properties from:/C:/apache-ctakes-4.0.0/resources/org/apache/ctakes/lvg/data/config/lvg.properties      [java] 23 Oct 2018 16:39:19 INFO ENGINE - open start - state not modified      [java] 23 Oct 2018 16:39:19 INFO ENGINE - dataFileCache open start      [java] 23 Oct 2018 16:39:19 INFO ENGINE - dataFileCache open end      [java] 23 Oct 2018 16:39:20 INFO ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@c7ba306 : startup date [Tue Oct 23 16:39:20 IST 2018]; root of context hierarchy      [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from URL [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-res-4.0.0.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]      [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from URL [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]      [java] 23 Oct 2018 16:39:20 INFO 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:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-res-4.0.0.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 [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/org/apache/ctakes/ytex/kernelBeanRefContext.xml]]      [java] 23 Oct 2018 16:39:20 INFO DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@615091b8 : defining beans [kernelApplicationContext]; root of factory hierarchy      [java] 23 Oct 2018 16:39:20 INFO ClassPathXmlApplicationContext - Refreshing org.springframework.context.support.ClassPathXmlApplicationContext@6f0b0a5e : startup date [Tue Oct 23 16:39:20 IST 2018]; root of context hierarchy      [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-datasource.xml]      [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.hbm.xml]      [java] 23 Oct 2018 16:39:20 INFO XmlBeanDefinitionReader - Loading XML bean definitions from class path resource [org/apache/ctakes/ytex/beans-kernel.xml]      [java] 23 Oct 2018 16:39:20 INFO PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-default.properties]      [java] 23 Oct 2018 16:39:20 INFO PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]      [java] 23 Oct 2018 16:39:20 INFO PropertyPlaceholderConfigurer - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex-umls.properties]      [java] 23 Oct 2018 16:39:20 INFO DefaultListableBeanFactory - Pre-instantiating singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@6063d80a : 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      [java] 23 Oct 2018 16:39:20 INFO PropertiesFactoryBean - Loading properties file from class path resource [org/apache/ctakes/ytex/ytex.properties]      [java] 23 Oct 2018 16:39:21 INFO Version - HCANN000001: Hibernate Commons Annotations {4.0.2.Final}      [java] 23 Oct 2018 16:39:21 INFO Version - HHH000412: Hibernate Core {4.2.6.Final}      [java] 23 Oct 2018 16:39:21 INFO Environment - HHH000206: hibernate.properties not found      [java] 23 Oct 2018 16:39:21 INFO Environment - HHH000021: Bytecode provider name : javassist      [java] 23 Oct 2018 16:39:24 INFO Dialect - HHH000400: Using dialect: org.hibernate.dialect.SQLServerDialect      [java] 23 Oct 2018 16:39:24 INFO TransactionFactoryInitiator - HHH000399: Using default transaction strategy (direct JDBC transactions)      [java] 23 Oct 2018 16:39:24 INFO ASTQueryTranslatorFactory - HHH000397: Using ASTQueryTranslatorFactory      [java] 23 Oct 2018 16:39:24 INFO UpdateTimestampsCache - HHH000250: Starting update timestamps cache at region: org.hibernate.cache.spi.UpdateTimestampsCache      [java] 23 Oct 2018 16:39:24 INFO StandardQueryCache - HHH000248: Starting query cache at region: org.hibernate.cache.internal.StandardQueryCache      [java] WARNING: An illegal reflective access operation has occurred      [java] WARNING: Illegal reflective access by javassist.util.proxy.SecurityActions (file:/C:/apache-ctakes-4.0.0/lib/javassist-3.15.0-GA.jar) to method java.lang.ClassLoader.defineClass(java.lang.String,byte[],int,int,java.security.ProtectionDomain)      [java] WARNING: Please consider reporting this to the maintainers of javassist.util.proxy.SecurityActions      [java] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations      [java] WARNING: All illegal access operations will be denied in a future release      [java] 23 Oct 2018 16:39:24 INFO HibernateTransactionManager - Using DataSource [ org.apache.commons.dbcp.BasicDataSource@1cf336fd ] of Hibernate SessionFactory for HibernateTransactionManager      [java] Exception in thread "main" java.lang.ExceptionInInitializerError      [java] at org.apache.ctakes.ytex.tools.SetupAuiFirstWord.setupAuiFirstWord(SetupAuiFirstWord.java:190)      [java] at org.apache.ctakes.ytex.tools.SetupAuiFirstWord.main(SetupAuiFirstWord.java:186)      [java] Caused by: org.springframework.beans.factory.access.BootstrapException: 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 [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/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      [java] at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:386)      [java] at org.apache.ctakes.ytex.kernel.KernelContextHolder.<clinit>(KernelContextHolder.java:29)      [java] ... 2 more      [java] Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'kernelApplicationContext' defined in URL [jar:file:/C:/apache-ctakes-4.0.0/lib/ctakes-ytex-web-4.0.0-classes.jar!/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      [java] at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:288)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:1035)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:939)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:485)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:456)      [java] at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:294)      [java] at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:225)      [java] at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:291)      [java] at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)      [java] at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:609)      [java] at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:918)      [java] at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:469)      [java] at org.springframework.context.access.ContextSingletonBeanFactoryLocator.initializeDefinition(ContextSingletonBeanFactoryLocator.java:143)      [java] at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:381)      [java] ... 3 more      [java] Caused by: 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      [java] at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:162)      [java] at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:110)      [java] at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:280)      [java] ... 16 more      [java] Caused by: 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      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:527)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:456)      [java] at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:294)      [java] at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:225)      [java] at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:291)      [java] at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193)      [java] at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:609)      [java] at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:918)      [java] at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:469)      [java] at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:139)      [java] at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:93)      [java] at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)      [java] at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)      [java] at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)      [java] at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:488)      [java] at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:147)      [java] ... 18 more      [java] Caused by: 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      [java] at org.springframework.beans.CachedIntrospectionResults.<init>(CachedIntrospectionResults.java:262)      [java] at org.springframework.beans.CachedIntrospectionResults.forClass(CachedIntrospectionResults.java:149)      [java] at org.springframework.beans.BeanWrapperImpl.getCachedIntrospectionResults(BeanWrapperImpl.java:324)      [java] at org.springframework.beans.BeanWrapperImpl.getPropertyDescriptors(BeanWrapperImpl.java:331)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.filterPropertyDescriptorsForDependencyCheck(AbstractAutowireCapableBeanFactory.java:1242)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1101)      [java] at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:517)      [java] ... 33 more      [java] Caused by: java.beans.IntrospectionException: type mismatch between read and write methods      [java] at java.desktop/java.beans.PropertyDescriptor.findPropertyType(PropertyDescriptor.java:700)      [java] at java.desktop/java.beans.PropertyDescriptor.setReadMethod(PropertyDescriptor.java:281)      [java] at org.springframework.beans.ExtendedBeanInfo.addOrUpdatePropertyDescriptor(ExtendedBeanInfo.java:282)      [java] at org.springframework.beans.ExtendedBeanInfo.addOrUpdatePropertyDescriptor(ExtendedBeanInfo.java:180)      [java] at org.springframework.beans.ExtendedBeanInfo.<init>(ExtendedBeanInfo.java:100)      [java] at org.springframework.beans.CachedIntrospectionResults.<init>(CachedIntrospectionResults.java:224)      [java] ... 39 more      [java] 23 Oct 2018 16:39:24 INFO DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@6063d80a : 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      [java] 23 Oct 2018 16:39:24 INFO DefaultListableBeanFactory - Destroying singletons in org.springframework.beans.factory.support.DefaultListableBeanFactory@615091b8 : defining beans [kernelApplicationContext]; root of factory hierarchy BUILD FAILED C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\build-setup.xml:55: The following error occurred while executing this line: C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\data\build.xml:145: The following error occurred while executing this line: C:\apache-ctakes-4.0.0\bin\ctakes-ytex\scripts\data\build.xml:263: Java returned: 1 Total time: 17 seconds

      Description

      I gone through the installation guide but unable to fix the errors while executing the build-setup.xml file.

      command : ..\..\ant.bat  build-setup.xml all > my_output.out 2>&1

        Attachments

        1. my_output.out
          25 kB
          Rajendra kumar

          Activity

            People

            • Assignee:
              Unassigned
              Reporter:
              RAJ53AKKI Rajendra kumar
            • Votes:
              0 Vote for this issue
              Watchers:
              1 Start watching this issue

              Dates

              • Created:
                Updated:
                Resolved: