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egonw/gist:254273

Created December 11, 2009 15:30
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gistfile1.txt
log4j.configuration = file:/home/egonw/var/Projects/GitHub/bc2.2/bioclipse.core/plugins/net.bioclipse.logger/log4j.properties
bioclipse.defaultLogDir = /home/egonw
INFO - Probable log file location: /home/egonw/bioclipse.log
DEBUG - Detected argument 0: -version
DEBUG - Detected argument 1: 3
DEBUG - Detected argument 2: -port
DEBUG - Detected argument 3: 41731
DEBUG - Detected argument 4: -testLoaderClass
DEBUG - Detected argument 5: org.eclipse.jdt.internal.junit4.runner.JUnit4TestLoader
DEBUG - Detected argument 6: -loaderpluginname
DEBUG - Detected argument 7: org.eclipse.jdt.junit4.runtime
DEBUG - Detected argument 8: -classNames
DEBUG - Detected argument 9: net.bioclipse.cdk.AllCDKBusinessPluginTestSuite
DEBUG - Detected argument 10: -application
DEBUG - Detected argument 11: org.eclipse.pde.junit.runtime.uitestapplication
DEBUG - Detected argument 12: -product
DEBUG - Detected argument 13: net.bioclipse.ui.product
DEBUG - Detected argument 14: -testpluginname
DEBUG - Detected argument 15: net.bioclipse.cdk.business.test
DEBUG - Args says: Check for updates is enabled
DEBUG - ## Checking for updates...
DEBUG - Inserting Virtual into workspace
DEBUG - Contacting update site: http://update2_2.bioclipse.net
DEBUG - Attempting to start Spring Bundle Extender...
Dec 11, 2009 4:32:31 PM org.springframework.osgi.extender.internal.ContextLoaderListener start
INFO: Starting org.springframework.osgi.extender bundle v.[1.0.2]
Dec 11, 2009 4:32:31 PM org.springframework.osgi.extender.internal.ContextLoaderListener addAnnotationBPP
INFO: Disabled automatic Spring-DM annotation processing; [ org.springframework.osgi.extender.annotation.auto.processing=null]
DEBUG - Spring Bundle Extender started.
Dec 11, 2009 4:32:31 PM org.springframework.osgi.extender.internal.ContextLoaderListener addAnnotationBPP
INFO: Disabled automatic Spring-DM annotation processing; [ org.springframework.osgi.extender.annotation.auto.processing=null]
Dec 11, 2009 4:32:31 PM org.springframework.context.support.AbstractApplicationContext prepareRefresh
INFO: Refreshing org.springframework.osgi.context.support.OsgiBundleXmlApplicationContext@2ed4a1d3: display name [OsgiBundleXmlApplicationContext(bundle=net.bioclipse.ui, config=osgibundle:/META-INF/spring/*.xml)]; startup date [Fri Dec 11 16:32:31 CET 2009]; root of context hierarchy
Dec 11, 2009 4:32:31 PM org.springframework.context.support.AbstractApplicationContext prepareRefresh
INFO: Refreshing org.springframework.osgi.context.support.OsgiBundleXmlApplicationContext@271a2576: display name [OsgiBundleXmlApplicationContext(bundle=net.bioclipse.core, config=osgibundle:/META-INF/spring/*.xml)]; startup date [Fri Dec 11 16:32:31 CET 2009]; root of context hierarchy
Dec 11, 2009 4:32:31 PM org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext startRefresh
SEVERE: Pre refresh error
org.apache.commons.logging.LogConfigurationException: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@45a8123b for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category) (Caused by org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@45a8123b for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category))
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:543)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:235)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:209)
at org.apache.commons.logging.LogFactory.getLog(LogFactory.java:351)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.<init>(DefaultSingletonBeanRegistry.java:83)
at org.springframework.beans.factory.support.FactoryBeanRegistrySupport.<init>(FactoryBeanRegistrySupport.java:40)
at org.springframework.beans.factory.support.AbstractBeanFactory.<init>(AbstractBeanFactory.java:146)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:140)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:151)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.<init>(DefaultListableBeanFactory.java:115)
at org.springframework.context.support.AbstractRefreshableApplicationContext.createBeanFactory(AbstractRefreshableApplicationContext.java:150)
at org.springframework.context.support.AbstractRefreshableApplicationContext.refreshBeanFactory(AbstractRefreshableApplicationContext.java:95)
at org.springframework.context.support.AbstractApplicationContext.obtainFreshBeanFactory(AbstractApplicationContext.java:411)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.startRefresh(AbstractDelegatedExecutionApplicationContext.java:191)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.stageOne(DependencyWaiterApplicationContextExecutor.java:212)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.refresh(DependencyWaiterApplicationContextExecutor.java:163)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.refresh(AbstractDelegatedExecutionApplicationContext.java:125)
at org.springframework.osgi.extender.internal.ContextLoaderListener$2.run(ContextLoaderListener.java:630)
at java.lang.Thread.run(Thread.java:636)
Caused by: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@45a8123b for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:413)
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:529)
... 18 more
Caused by: java.lang.NoClassDefFoundError: org/apache/log4j/Category
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:2406)
at java.lang.Class.getConstructor0(Class.java:2716)
at java.lang.Class.getConstructor(Class.java:1674)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:410)
... 19 more
Caused by: java.lang.ClassNotFoundException: org.apache.log4j.Category
at org.eclipse.osgi.internal.loader.BundleLoader.findClassInternal(BundleLoader.java:494)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:410)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:398)
at org.eclipse.osgi.internal.baseadaptor.DefaultClassLoader.loadClass(DefaultClassLoader.java:105)
at java.lang.ClassLoader.loadClass(ClassLoader.java:264)
at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:332)
... 24 more
Dec 11, 2009 4:32:31 PM org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor fail
SEVERE: Unable to create application context for [net.bioclipse.ui], unsatisfied dependencies: none
org.apache.commons.logging.LogConfigurationException: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@45a8123b for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category) (Caused by org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@45a8123b for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category))
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:543)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:235)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:209)
at org.apache.commons.logging.LogFactory.getLog(LogFactory.java:351)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.<init>(DefaultSingletonBeanRegistry.java:83)
at org.springframework.beans.factory.support.FactoryBeanRegistrySupport.<init>(FactoryBeanRegistrySupport.java:40)
at org.springframework.beans.factory.support.AbstractBeanFactory.<init>(AbstractBeanFactory.java:146)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:140)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:151)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.<init>(DefaultListableBeanFactory.java:115)
at org.springframework.context.support.AbstractRefreshableApplicationContext.createBeanFactory(AbstractRefreshableApplicationContext.java:150)
at org.springframework.context.support.AbstractRefreshableApplicationContext.refreshBeanFactory(AbstractRefreshableApplicationContext.java:95)
at org.springframework.context.support.AbstractApplicationContext.obtainFreshBeanFactory(AbstractApplicationContext.java:411)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.startRefresh(AbstractDelegatedExecutionApplicationContext.java:191)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.stageOne(DependencyWaiterApplicationContextExecutor.java:212)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.refresh(DependencyWaiterApplicationContextExecutor.java:163)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.refresh(AbstractDelegatedExecutionApplicationContext.java:125)
at org.springframework.osgi.extender.internal.ContextLoaderListener$2.run(ContextLoaderListener.java:630)
at java.lang.Thread.run(Thread.java:636)
Caused by: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@45a8123b for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:413)
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:529)
... 18 more
Caused by: java.lang.NoClassDefFoundError: org/apache/log4j/Category
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:2406)
at java.lang.Class.getConstructor0(Class.java:2716)
at java.lang.Class.getConstructor(Class.java:1674)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:410)
... 19 more
Caused by: java.lang.ClassNotFoundException: org.apache.log4j.Category
at org.eclipse.osgi.internal.loader.BundleLoader.findClassInternal(BundleLoader.java:494)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:410)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:398)
at org.eclipse.osgi.internal.baseadaptor.DefaultClassLoader.loadClass(DefaultClassLoader.java:105)
at java.lang.ClassLoader.loadClass(ClassLoader.java:264)
at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:332)
... 24 more
Dec 11, 2009 4:32:32 PM org.springframework.osgi.extender.internal.ContextLoaderListener addAnnotationBPP
INFO: Disabled automatic Spring-DM annotation processing; [ org.springframework.osgi.extender.annotation.auto.processing=null]
Dec 11, 2009 4:32:32 PM org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext startRefresh
SEVERE: Pre refresh error
org.apache.commons.logging.LogConfigurationException: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@2eed7d11 for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category) (Caused by org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@2eed7d11 for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category))
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:543)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:235)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:209)
at org.apache.commons.logging.LogFactory.getLog(LogFactory.java:351)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.<init>(DefaultSingletonBeanRegistry.java:83)
at org.springframework.beans.factory.support.FactoryBeanRegistrySupport.<init>(FactoryBeanRegistrySupport.java:40)
at org.springframework.beans.factory.support.AbstractBeanFactory.<init>(AbstractBeanFactory.java:146)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:140)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:151)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.<init>(DefaultListableBeanFactory.java:115)
at org.springframework.context.support.AbstractRefreshableApplicationContext.createBeanFactory(AbstractRefreshableApplicationContext.java:150)
at org.springframework.context.support.AbstractRefreshableApplicationContext.refreshBeanFactory(AbstractRefreshableApplicationContext.java:95)
at org.springframework.context.support.AbstractApplicationContext.obtainFreshBeanFactory(AbstractApplicationContext.java:411)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.startRefresh(AbstractDelegatedExecutionApplicationContext.java:191)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.stageOne(DependencyWaiterApplicationContextExecutor.java:212)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.refresh(DependencyWaiterApplicationContextExecutor.java:163)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.refresh(AbstractDelegatedExecutionApplicationContext.java:125)
at org.springframework.osgi.extender.internal.ContextLoaderListener$2.run(ContextLoaderListener.java:630)
at java.lang.Thread.run(Thread.java:636)
Caused by: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@2eed7d11 for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:413)
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:529)
... 18 more
Caused by: java.lang.NoClassDefFoundError: org/apache/log4j/Category
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:2406)
at java.lang.Class.getConstructor0(Class.java:2716)
at java.lang.Class.getConstructor(Class.java:1674)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:410)
... 19 more
Caused by: java.lang.ClassNotFoundException: org.apache.log4j.Category
at org.eclipse.osgi.internal.loader.BundleLoader.findClassInternal(BundleLoader.java:494)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:410)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:398)
at org.eclipse.osgi.internal.baseadaptor.DefaultClassLoader.loadClass(DefaultClassLoader.java:105)
at java.lang.ClassLoader.loadClass(ClassLoader.java:264)
at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:332)
... 24 more
Dec 11, 2009 4:32:32 PM org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor fail
SEVERE: Unable to create application context for [net.bioclipse.core], unsatisfied dependencies: none
org.apache.commons.logging.LogConfigurationException: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@2eed7d11 for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category) (Caused by org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@2eed7d11 for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category))
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:543)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:235)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:209)
at org.apache.commons.logging.LogFactory.getLog(LogFactory.java:351)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.<init>(DefaultSingletonBeanRegistry.java:83)
at org.springframework.beans.factory.support.FactoryBeanRegistrySupport.<init>(FactoryBeanRegistrySupport.java:40)
at org.springframework.beans.factory.support.AbstractBeanFactory.<init>(AbstractBeanFactory.java:146)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:140)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:151)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.<init>(DefaultListableBeanFactory.java:115)
at org.springframework.context.support.AbstractRefreshableApplicationContext.createBeanFactory(AbstractRefreshableApplicationContext.java:150)
at org.springframework.context.support.AbstractRefreshableApplicationContext.refreshBeanFactory(AbstractRefreshableApplicationContext.java:95)
at org.springframework.context.support.AbstractApplicationContext.obtainFreshBeanFactory(AbstractApplicationContext.java:411)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.startRefresh(AbstractDelegatedExecutionApplicationContext.java:191)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.stageOne(DependencyWaiterApplicationContextExecutor.java:212)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.refresh(DependencyWaiterApplicationContextExecutor.java:163)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.refresh(AbstractDelegatedExecutionApplicationContext.java:125)
at org.springframework.osgi.extender.internal.ContextLoaderListener$2.run(ContextLoaderListener.java:630)
at java.lang.Thread.run(Thread.java:636)
Caused by: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@2eed7d11 for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:413)
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:529)
... 18 more
Caused by: java.lang.NoClassDefFoundError: org/apache/log4j/Category
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:2406)
at java.lang.Class.getConstructor0(Class.java:2716)
at java.lang.Class.getConstructor(Class.java:1674)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:410)
... 19 more
Caused by: java.lang.ClassNotFoundException: org.apache.log4j.Category
at org.eclipse.osgi.internal.loader.BundleLoader.findClassInternal(BundleLoader.java:494)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:410)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:398)
at org.eclipse.osgi.internal.baseadaptor.DefaultClassLoader.loadClass(DefaultClassLoader.java:105)
at java.lang.ClassLoader.loadClass(ClassLoader.java:264)
at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:332)
... 24 more
Dec 11, 2009 4:32:32 PM org.springframework.context.support.AbstractApplicationContext prepareRefresh
INFO: Refreshing org.springframework.osgi.context.support.OsgiBundleXmlApplicationContext@4ea20232: display name [OsgiBundleXmlApplicationContext(bundle=net.bioclipse.cdk.business, config=osgibundle:/META-INF/spring/*.xml)]; startup date [Fri Dec 11 16:32:32 CET 2009]; root of context hierarchy
Dec 11, 2009 4:32:32 PM org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext startRefresh
SEVERE: Pre refresh error
org.apache.commons.logging.LogConfigurationException: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@134510ac for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category) (Caused by org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@134510ac for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category))
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:543)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:235)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:209)
at org.apache.commons.logging.LogFactory.getLog(LogFactory.java:351)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.<init>(DefaultSingletonBeanRegistry.java:83)
at org.springframework.beans.factory.support.FactoryBeanRegistrySupport.<init>(FactoryBeanRegistrySupport.java:40)
at org.springframework.beans.factory.support.AbstractBeanFactory.<init>(AbstractBeanFactory.java:146)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:140)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:151)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.<init>(DefaultListableBeanFactory.java:115)
at org.springframework.context.support.AbstractRefreshableApplicationContext.createBeanFactory(AbstractRefreshableApplicationContext.java:150)
at org.springframework.context.support.AbstractRefreshableApplicationContext.refreshBeanFactory(AbstractRefreshableApplicationContext.java:95)
at org.springframework.context.support.AbstractApplicationContext.obtainFreshBeanFactory(AbstractApplicationContext.java:411)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.startRefresh(AbstractDelegatedExecutionApplicationContext.java:191)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.stageOne(DependencyWaiterApplicationContextExecutor.java:212)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.refresh(DependencyWaiterApplicationContextExecutor.java:163)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.refresh(AbstractDelegatedExecutionApplicationContext.java:125)
at org.springframework.osgi.extender.internal.ContextLoaderListener$2.run(ContextLoaderListener.java:630)
at java.lang.Thread.run(Thread.java:636)
Caused by: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@134510ac for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:413)
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:529)
... 18 more
Caused by: java.lang.NoClassDefFoundError: org/apache/log4j/Category
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:2406)
at java.lang.Class.getConstructor0(Class.java:2716)
at java.lang.Class.getConstructor(Class.java:1674)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:410)
... 19 more
Caused by: java.lang.ClassNotFoundException: org.apache.log4j.Category
at org.eclipse.osgi.internal.loader.BundleLoader.findClassInternal(BundleLoader.java:494)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:410)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:398)
at org.eclipse.osgi.internal.baseadaptor.DefaultClassLoader.loadClass(DefaultClassLoader.java:105)
at java.lang.ClassLoader.loadClass(ClassLoader.java:264)
at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:332)
... 24 more
Dec 11, 2009 4:32:32 PM org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor fail
SEVERE: Unable to create application context for [net.bioclipse.cdk.business], unsatisfied dependencies: none
org.apache.commons.logging.LogConfigurationException: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@134510ac for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category) (Caused by org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@134510ac for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category))
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:543)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:235)
at org.apache.commons.logging.impl.LogFactoryImpl.getInstance(LogFactoryImpl.java:209)
at org.apache.commons.logging.LogFactory.getLog(LogFactory.java:351)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.<init>(DefaultSingletonBeanRegistry.java:83)
at org.springframework.beans.factory.support.FactoryBeanRegistrySupport.<init>(FactoryBeanRegistrySupport.java:40)
at org.springframework.beans.factory.support.AbstractBeanFactory.<init>(AbstractBeanFactory.java:146)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:140)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.<init>(AbstractAutowireCapableBeanFactory.java:151)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.<init>(DefaultListableBeanFactory.java:115)
at org.springframework.context.support.AbstractRefreshableApplicationContext.createBeanFactory(AbstractRefreshableApplicationContext.java:150)
at org.springframework.context.support.AbstractRefreshableApplicationContext.refreshBeanFactory(AbstractRefreshableApplicationContext.java:95)
at org.springframework.context.support.AbstractApplicationContext.obtainFreshBeanFactory(AbstractApplicationContext.java:411)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.startRefresh(AbstractDelegatedExecutionApplicationContext.java:191)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.stageOne(DependencyWaiterApplicationContextExecutor.java:212)
at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor.refresh(DependencyWaiterApplicationContextExecutor.java:163)
at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.refresh(AbstractDelegatedExecutionApplicationContext.java:125)
at org.springframework.osgi.extender.internal.ContextLoaderListener$2.run(ContextLoaderListener.java:630)
at java.lang.Thread.run(Thread.java:636)
Caused by: org.apache.commons.logging.LogConfigurationException: No suitable Log constructor [Ljava.lang.Class;@134510ac for org.apache.commons.logging.impl.Log4JLogger (Caused by java.lang.NoClassDefFoundError: org/apache/log4j/Category)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:413)
at org.apache.commons.logging.impl.LogFactoryImpl.newInstance(LogFactoryImpl.java:529)
... 18 more
Caused by: java.lang.NoClassDefFoundError: org/apache/log4j/Category
at java.lang.Class.getDeclaredConstructors0(Native Method)
at java.lang.Class.privateGetDeclaredConstructors(Class.java:2406)
at java.lang.Class.getConstructor0(Class.java:2716)
at java.lang.Class.getConstructor(Class.java:1674)
at org.apache.commons.logging.impl.LogFactoryImpl.getLogConstructor(LogFactoryImpl.java:410)
... 19 more
Caused by: java.lang.ClassNotFoundException: org.apache.log4j.Category
at org.eclipse.osgi.internal.loader.BundleLoader.findClassInternal(BundleLoader.java:494)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:410)
at org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:398)
at org.eclipse.osgi.internal.baseadaptor.DefaultClassLoader.loadClass(DefaultClassLoader.java:105)
at java.lang.ClassLoader.loadClass(ClassLoader.java:264)
at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:332)
... 24 more
DEBUG - Found available feature: Blue Obelisk Data Repository Feature
DEBUG - Found available feature: MetaPrint2D
DEBUG - Found available feature: CDK QSAR Xmpp
DEBUG - Found available feature: QSAR Feature
DEBUG - Found available feature: DrugBank Feature
DEBUG - Found available feature: Sample Data Feature
DEBUG - Found available feature: Bioclipse CDK Feature
DEBUG - Found available feature: Pellet Feature
DEBUG - Found available feature: RDF Feature
DEBUG - Found available feature: Bioclipse BIRT
DEBUG - Found available feature: XMPP Web Services
DEBUG - Found available feature: Bioclipse Social Feature
DEBUG - Found available feature: JOELib Feature
DEBUG - Contacting update site: http://update2-experimental.bioclipse.net
DEBUG - Found available feature: Decision Support Reporting
DEBUG - Found available feature: Decision Support Feature
DEBUG - Found available feature: Bioclipse Experimental
DEBUG - Found available feature: Bioinformatics_feature Feature
DEBUG - Found available feature: VScreen
DEBUG - Found available feature: StructureDB Feature
DEBUG - Processing update site feature: Blue Obelisk Data Repository Feature
DEBUG - The feature: Blue Obelisk Data Repository Feature version: 2.1.0 is not installed
DEBUG - Processing update site feature: MetaPrint2D
DEBUG - The feature: MetaPrint2D version: 1.0.0.v20091103 is not installed
DEBUG - Processing update site feature: CDK QSAR Xmpp
DEBUG - The feature: CDK QSAR Xmpp version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: QSAR Feature
DEBUG - The feature: QSAR Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: DrugBank Feature
DEBUG - The feature: DrugBank Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Sample Data Feature
DEBUG - The feature: Sample Data Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Bioclipse CDK Feature
DEBUG - Local feature: Bioclipse CDK Feature is already installed with version: 2.2.0.RC2
DEBUG - Update site feature: Bioclipse CDK Feature is available with version: 2.2.0.RC2
DEBUG - Update site feature: Bioclipse CDK Feature version: 2.2.0.RC2 SKIPPED due to not newer than existing version.
DEBUG - Processing update site feature: Pellet Feature
DEBUG - The feature: Pellet Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: RDF Feature
DEBUG - The feature: RDF Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Bioclipse BIRT
DEBUG - The feature: Bioclipse BIRT version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: XMPP Web Services
DEBUG - The feature: XMPP Web Services version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Bioclipse Social Feature
DEBUG - The feature: Bioclipse Social Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: JOELib Feature
DEBUG - The feature: JOELib Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Decision Support Reporting
DEBUG - The feature: Decision Support Reporting version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Decision Support Feature
DEBUG - The feature: Decision Support Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Bioclipse Experimental
DEBUG - The feature: Bioclipse Experimental version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: Bioinformatics_feature Feature
DEBUG - The feature: Bioinformatics_feature Feature version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: VScreen
DEBUG - The feature: VScreen version: 2.2.0.RC2 is not installed
DEBUG - Processing update site feature: StructureDB Feature
DEBUG - The feature: StructureDB Feature version: 2.2.0.RC2 is not installed
DEBUG - ** No features found on update site
DEBUG - ## Finished checking for updates.
Dec 11, 2009 4:32:52 PM org.springframework.osgi.extender.internal.ContextLoaderListener shutdown
INFO: Stopping org.springframework.osgi.extender bundle
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