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Unable to install / use many of the installed plugins

Anamika Sen
Anamika Sen November 24, 2025

Hi,

JIRA has been recently upgraded to 11.2.0. 

However, we have been unable to use most of the installed apps. Some of these apps are Time Tracker by Tempo, Structure.Testy, Tempo Accounts, Tempo Core

 

These are logs at atlassian-jira.log when I try to install the Time tracker app:

 

2025-11-24 09:52:07,317-0500 http-nio-8080-exec-25 WARN sena4 592x55305x4 h7dgun 130.14.235.64,127.0.0.1 /rest/plugins/1.0/com.tempoplugin.tempo-core-key/media/plugin-icon [c.a.p.o.hook.dmz.DmzResolverHook] Package com.atlassian.plugin.webresource is internal and is not available for export to plugin com.tempoplugin.tempo-core
2025-11-24 09:52:07,329-0500 http-nio-8080-exec-5 WARN sena4 592x55306x4 h7dgun 130.14.235.64,127.0.0.1 /rest/plugins/1.0/com.tempoplugin.tempo-plan-core-key/media/plugin-icon [c.a.p.o.hook.dmz.DmzResolverHook] Package com.atlassian.plugin.web.descriptors is internal and is not available for export to plugin com.tempoplugin.tempo-core
2025-11-24 09:52:07,329-0500 http-nio-8080-exec-5 WARN sena4 592x55306x4 h7dgun 130.14.235.64,127.0.0.1 /rest/plugins/1.0/com.tempoplugin.tempo-plan-core-key/media/plugin-icon [c.a.p.o.hook.dmz.DmzResolverHook] Package com.atlassian.plugin.web.model is internal and is not available for export to plugin com.tempoplugin.tempo-core
2025-11-24 09:52:07,329-0500 http-nio-8080-exec-5 WARN sena4 592x55306x4 h7dgun 130.14.235.64,127.0.0.1 /rest/plugins/1.0/com.tempoplugin.tempo-plan-core-key/media/plugin-icon [c.a.p.o.hook.dmz.DmzResolverHook] Package com.atlassian.plugin.webresource is internal and is not available for export to plugin com.tempoplugin.tempo-core
2025-11-24 09:52:15,638-0500 http-nio-8080-exec-17 WARN sena4 592x55324x1 h7dgun 130.14.235.64,127.0.0.1 /plugins/servlet/upm [c.a.u.s.api.config.UpmConfig] Failed to list certificates files from /var/atlassian/application-data/jira/upmconfig/truststore
2025-11-24 09:52:18,317-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 19% complete. Current index: Issue
2025-11-24 09:52:23,257-0500 http-nio-8080-exec-10 WARN sena4 592x55358x1 h7dgun 130.14.235.64,127.0.0.1 /plugins/servlet/upm [c.a.u.s.api.config.UpmConfig] Failed to list certificates files from /var/atlassian/application-data/jira/upmconfig/truststore
2025-11-24 09:52:27,365-0500 http-nio-8080-exec-19 WARN sena4 592x55368x1 h7dgun 130.14.235.64,127.0.0.1 /plugins/servlet/upm [c.a.u.s.api.config.UpmConfig] Failed to list certificates files from /var/atlassian/application-data/jira/upmconfig/truststore
2025-11-24 09:52:32,278-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 20% complete. Current index: Issue
2025-11-24 09:52:46,628-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 21% complete. Current index: Issue
2025-11-24 09:52:56,975-0500 Caesium-1-3 INFO anonymous     [c.a.j.search.lucene.LuceneConsistencyChecker] Start to check for index consistency.
2025-11-24 09:52:57,059-0500 Caesium-1-3 INFO anonymous     [c.a.j.search.lucene.LuceneConsistencyChecker] Index consistency check finished. indexConsistent: true; timeToCheckIndexConsistency: 84 ms
2025-11-24 09:53:00,910-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 22% complete. Current index: Issue
2025-11-24 09:53:02,480-0500 http-nio-8080-exec-24 INFO sena4 593x55404x1 h7dgun 130.14.235.64,127.0.0.1 /rest/plugins/1.0/jira-timesheet-plugin-key [c.a.plugin.util.WaitUntil] Plugins that have yet to be enabled: (1): [jira-timesheet-plugin], 300 seconds remaining
2025-11-24 09:53:02,549-0500 ThreadPoolAsyncTaskExecutor::Thread 32 DEBUG      [c.a.activeobjects.osgi.ActiveObjectsServiceFactory] getService bundle [com.fdu.jira.plugin.jira-timesheet-plugin]
2025-11-24 09:53:02,549-0500 ThreadPoolAsyncTaskExecutor::Thread 32 DEBUG      [c.a.activeobjects.osgi.ActiveObjectsDelegate] init bundle [com.fdu.jira.plugin.jira-timesheet-plugin]
2025-11-24 09:53:02,549-0500 ThreadPoolAsyncTaskExecutor::Thread 32 DEBUG      [c.a.activeobjects.osgi.ActiveObjectsDelegate] bundle [com.fdu.jira.plugin.jira-timesheet-plugin] loading new AO promise for singleton
2025-11-24 09:53:02,550-0500 ThreadPoolAsyncTaskExecutor::Thread 32 WARN      [c.a.p.i.querydsl.schema.DatabaseSchemaCreationImpl] ActiveObjects method flushAll is not available : org.joor.ReflectException: java.lang.reflect.InvocationTargetException
2025-11-24 09:53:02,562-0500 ThreadPoolAsyncTaskExecutor::Thread 32 WARN      [o.s.context.annotation.CommonAnnotationBeanPostProcessor] Destroy method on bean with name 'timesheet-scheduler' threw an exception: java.lang.IllegalStateException: plugin [{com.fdu.jira.plugin.jira-timesheet-plugin}] invoking ActiveObjects before <ao> configuration module is enabled or plugin is missing an <ao> configuration module. Note that scanning of entities from the ao.model package is no longer supported.
2025-11-24 09:53:02,563-0500 ThreadPoolAsyncTaskExecutor::Thread 32 WARN      [o.s.b.factory.support.DisposableBeanAdapter] Invocation of destroy method failed on bean with name 'timesheet-scheduler': java.lang.IllegalStateException: plugin [{com.fdu.jira.plugin.jira-timesheet-plugin}] invoking ActiveObjects before <ao> configuration module is enabled or plugin is missing an <ao> configuration module. Note that scanning of entities from the ao.model package is no longer supported.
2025-11-24 09:53:02,569-0500 ThreadPoolAsyncTaskExecutor::Thread 32 ERROR      [c.a.p.osgi.factory.OsgiPlugin] Unable to start the plugin container for plugin 'jira-timesheet-plugin'
org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'issueService': Lookup method resolution failed
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.checkLookupMethods(AutowiredAnnotationBeanPostProcessor.java:498)
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.determineCandidateConstructors(AutowiredAnnotationBeanPostProcessor.java:368)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.determineConstructorsFromBeanPostProcessors(AbstractAutowireCapableBeanFactory.java:1334)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1229)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:569)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:529)
at org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:339)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:373)
at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:337)
at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:202)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.instantiateSingleton(DefaultListableBeanFactory.java:1221)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingleton(DefaultListableBeanFactory.java:1187)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:1123)
at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:987)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext.access$1100(AbstractDelegatedExecutionApplicationContext.java:57)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext$4.run(AbstractDelegatedExecutionApplicationContext.java:322)
at org.eclipse.gemini.blueprint.util.internal.PrivilegedUtils.executeWithCustomTCCL(PrivilegedUtils.java:85)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext.completeRefresh(AbstractDelegatedExecutionApplicationContext.java:287)
at org.eclipse.gemini.blueprint.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor$CompleteRefreshTask.run(DependencyWaiterApplicationContextExecutor.java:137)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: java.lang.IllegalStateException: Failed to introspect Class [com.fdu.jira.plugin.service.IssueServiceImpl] from ClassLoader [com.fdu.jira.plugin.jira-timesheet-plugin [202]]
at org.springframework.util.ReflectionUtils.getDeclaredMethods(ReflectionUtils.java:483)
at org.springframework.util.ReflectionUtils.doWithLocalMethods(ReflectionUtils.java:320)
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.checkLookupMethods(AutowiredAnnotationBeanPostProcessor.java:476)
... 21 more
Caused by: java.lang.NoClassDefFoundError: com/atlassian/jira/jql/query/IssueIdCollector
at java.base/java.lang.Class.getDeclaredMethods0(Native Method)
at java.base/java.lang.Class.privateGetDeclaredMethods(Unknown Source)
at java.base/java.lang.Class.getDeclaredMethods(Unknown Source)
at org.springframework.util.ReflectionUtils.getDeclaredMethods(ReflectionUtils.java:465)
... 23 more
Caused by: java.lang.ClassNotFoundException: com.atlassian.jira.jql.query.IssueIdCollector
at org.apache.catalina.loader.WebappClassLoaderBase.loadClass(WebappClassLoaderBase.java:1380)
at org.apache.catalina.loader.WebappClassLoaderBase.loadClass(WebappClassLoaderBase.java:1189)
at org.apache.felix.framework.ExtensionManager$ExtensionManagerWiring.getClassByDelegation(ExtensionManager.java:1212)
at org.apache.felix.framework.BundleWiringImpl.searchImports(BundleWiringImpl.java:1612)
at org.apache.felix.framework.BundleWiringImpl.findClassOrResourceByDelegation(BundleWiringImpl.java:1528)
at org.apache.felix.framework.BundleWiringImpl.access$300(BundleWiringImpl.java:79)
at org.apache.felix.framework.BundleWiringImpl$BundleClassLoader.loadClass(BundleWiringImpl.java:1976)
at java.base/java.lang.ClassLoader.loadClass(Unknown Source)
... 27 more
2025-11-24 09:53:02,571-0500 ThreadPoolAsyncTaskExecutor::Thread 32 DEBUG      [c.a.activeobjects.osgi.ActiveObjectsServiceFactory] ungetService bundle [com.fdu.jira.plugin.jira-timesheet-plugin]
2025-11-24 09:53:02,572-0500 ThreadPoolAsyncTaskExecutor::Thread 32 ERROR      [o.e.g.b.e.internal.support.ExtenderConfiguration] Application context refresh failed (NonValidatingOsgiBundleXmlApplicationContext(bundle=com.fdu.jira.plugin.jira-timesheet-plugin, config=osgibundle:/META-INF/spring/*.xml))
org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'issueService': Lookup method resolution failed
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.checkLookupMethods(AutowiredAnnotationBeanPostProcessor.java:498)
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.determineCandidateConstructors(AutowiredAnnotationBeanPostProcessor.java:368)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.determineConstructorsFromBeanPostProcessors(AbstractAutowireCapableBeanFactory.java:1334)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1229)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:569)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:529)
at org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:339)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:373)
at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:337)
at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:202)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.instantiateSingleton(DefaultListableBeanFactory.java:1221)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingleton(DefaultListableBeanFactory.java:1187)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:1123)
at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:987)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext.access$1100(AbstractDelegatedExecutionApplicationContext.java:57)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext$4.run(AbstractDelegatedExecutionApplicationContext.java:322)
at org.eclipse.gemini.blueprint.util.internal.PrivilegedUtils.executeWithCustomTCCL(PrivilegedUtils.java:85)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext.completeRefresh(AbstractDelegatedExecutionApplicationContext.java:287)
at org.eclipse.gemini.blueprint.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor$CompleteRefreshTask.run(DependencyWaiterApplicationContextExecutor.java:137)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: java.lang.IllegalStateException: Failed to introspect Class [com.fdu.jira.plugin.service.IssueServiceImpl] from ClassLoader [com.fdu.jira.plugin.jira-timesheet-plugin [202]]
at org.springframework.util.ReflectionUtils.getDeclaredMethods(ReflectionUtils.java:483)
at org.springframework.util.ReflectionUtils.doWithLocalMethods(ReflectionUtils.java:320)
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.checkLookupMethods(AutowiredAnnotationBeanPostProcessor.java:476)
... 21 more
Caused by: java.lang.NoClassDefFoundError: com/atlassian/jira/jql/query/IssueIdCollector
at java.base/java.lang.Class.getDeclaredMethods0(Native Method)
at java.base/java.lang.Class.privateGetDeclaredMethods(Unknown Source)
at java.base/java.lang.Class.getDeclaredMethods(Unknown Source)
at org.springframework.util.ReflectionUtils.getDeclaredMethods(ReflectionUtils.java:465)
... 23 more
Caused by: java.lang.ClassNotFoundException: com.atlassian.jira.jql.query.IssueIdCollector
at org.apache.catalina.loader.WebappClassLoaderBase.loadClass(WebappClassLoaderBase.java:1380)
at org.apache.catalina.loader.WebappClassLoaderBase.loadClass(WebappClassLoaderBase.java:1189)
at org.apache.felix.framework.ExtensionManager$ExtensionManagerWiring.getClassByDelegation(ExtensionManager.java:1212)
at org.apache.felix.framework.BundleWiringImpl.searchImports(BundleWiringImpl.java:1612)
at org.apache.felix.framework.BundleWiringImpl.findClassOrResourceByDelegation(BundleWiringImpl.java:1528)
at org.apache.felix.framework.BundleWiringImpl.access$300(BundleWiringImpl.java:79)
at org.apache.felix.framework.BundleWiringImpl$BundleClassLoader.loadClass(BundleWiringImpl.java:1976)
at java.base/java.lang.ClassLoader.loadClass(Unknown Source)
... 27 more
2025-11-24 09:53:02,573-0500 ThreadPoolAsyncTaskExecutor::Thread 32 ERROR      [o.e.g.b.e.i.dependencies.startup.DependencyWaiterApplicationContextExecutor] Unable to create application context for [com.fdu.jira.plugin.jira-timesheet-plugin], unsatisfied dependencies: none
org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'issueService': Lookup method resolution failed
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.checkLookupMethods(AutowiredAnnotationBeanPostProcessor.java:498)
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.determineCandidateConstructors(AutowiredAnnotationBeanPostProcessor.java:368)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.determineConstructorsFromBeanPostProcessors(AbstractAutowireCapableBeanFactory.java:1334)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1229)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:569)
at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:529)
at org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:339)
at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:373)
at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:337)
at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:202)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.instantiateSingleton(DefaultListableBeanFactory.java:1221)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingleton(DefaultListableBeanFactory.java:1187)
at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:1123)
at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:987)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext.access$1100(AbstractDelegatedExecutionApplicationContext.java:57)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext$4.run(AbstractDelegatedExecutionApplicationContext.java:322)
at org.eclipse.gemini.blueprint.util.internal.PrivilegedUtils.executeWithCustomTCCL(PrivilegedUtils.java:85)
at org.eclipse.gemini.blueprint.context.support.AbstractDelegatedExecutionApplicationContext.completeRefresh(AbstractDelegatedExecutionApplicationContext.java:287)
at org.eclipse.gemini.blueprint.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor$CompleteRefreshTask.run(DependencyWaiterApplicationContextExecutor.java:137)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: java.lang.IllegalStateException: Failed to introspect Class [com.fdu.jira.plugin.service.IssueServiceImpl] from ClassLoader [com.fdu.jira.plugin.jira-timesheet-plugin [202]]
at org.springframework.util.ReflectionUtils.getDeclaredMethods(ReflectionUtils.java:483)
at org.springframework.util.ReflectionUtils.doWithLocalMethods(ReflectionUtils.java:320)
at org.springframework.beans.factory.annotation.AutowiredAnnotationBeanPostProcessor.checkLookupMethods(AutowiredAnnotationBeanPostProcessor.java:476)
... 21 more
Caused by: java.lang.NoClassDefFoundError: com/atlassian/jira/jql/query/IssueIdCollector
at java.base/java.lang.Class.getDeclaredMethods0(Native Method)
at java.base/java.lang.Class.privateGetDeclaredMethods(Unknown Source)
at java.base/java.lang.Class.getDeclaredMethods(Unknown Source)
at org.springframework.util.ReflectionUtils.getDeclaredMethods(ReflectionUtils.java:465)
... 23 more
Caused by: java.lang.ClassNotFoundException: com.atlassian.jira.jql.query.IssueIdCollector
at org.apache.catalina.loader.WebappClassLoaderBase.loadClass(WebappClassLoaderBase.java:1380)
at org.apache.catalina.loader.WebappClassLoaderBase.loadClass(WebappClassLoaderBase.java:1189)
at org.apache.felix.framework.ExtensionManager$ExtensionManagerWiring.getClassByDelegation(ExtensionManager.java:1212)
at org.apache.felix.framework.BundleWiringImpl.searchImports(BundleWiringImpl.java:1612)
at org.apache.felix.framework.BundleWiringImpl.findClassOrResourceByDelegation(BundleWiringImpl.java:1528)
at org.apache.felix.framework.BundleWiringImpl.access$300(BundleWiringImpl.java:79)
at org.apache.felix.framework.BundleWiringImpl$BundleClassLoader.loadClass(BundleWiringImpl.java:1976)
at java.base/java.lang.ClassLoader.loadClass(Unknown Source)
... 27 more
2025-11-24 09:53:14,714-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 23% complete. Current index: Issue
2025-11-24 09:53:28,275-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 24% complete. Current index: Issue
2025-11-24 09:53:42,323-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 25% complete. Current index: Issue
2025-11-24 09:53:52,840-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 WARN      [o.e.jgit.lib.CoreConfig] Option core.trustFolderStat is deprecated, replace it by core.trustStat.
2025-11-24 09:53:52,932-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error retrieving pull/merge requests for the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
com.bigbrassband.jira.git.exceptions.params.WrongUsernamePasswordException: Not authorized
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:146)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiService.lambda$new$0(GitLabApiService.java:69)
at com.google.common.base.Suppliers$NonSerializableMemoizingSupplier.get(Suppliers.java:186)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabRepoApi.getMergeRequestsUpdatedSince(GitLabRepoApi.java:101)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.lambda$load$0(MergeRequestLoaderTailHandler.java:110)
at com.bigbrassband.jira.git.utils.RetryWithValues.execute(RetryWithValues.java:30)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.load(MergeRequestLoaderTailHandler.java:109)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestRetrieverImpl.updateMergeRequests(MergeRequestRetrieverImpl.java:63)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.lambda$innerUpdateIndexMainNode$1(GitPluginIndexManagerImpl.java:397)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.executeOptionalIndexPart(GitPluginIndexManagerImpl.java:847)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:395)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: org.gitlab.api.GitlabWrongPATException: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:191)
at org.gitlab.api.GitlabAPI.create(GitlabAPI.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.create(GitLabApiPool.java:232)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:202)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:124)
... 27 more
Caused by: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.http.GitlabHTTPRequestor.handleAPIError(GitlabHTTPRequestor.java:682)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:250)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:212)
at org.gitlab.api.GitlabAPI.getVersion(GitlabAPI.java:3599)
at org.gitlab.api.GitlabAPI.parseVersion(GitlabAPI.java:247)
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:187)
... 32 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at java.base/jdk.internal.reflect.DirectConstructorHandleAccessor.newInstance(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstanceWithCaller(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstance(Unknown Source)
at java.base/java.security.AccessController.doPrivileged(Unknown Source)
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:623)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:247)
... 36 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:608)
... 37 more
2025-11-24 09:53:53,053-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error updating the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
org.eclipse.jgit.errors.TransportException: https://lhc-git.nlm.nih.gov/mor/rxnav/atcprod-tool-jar.git: not authorized
at org.eclipse.jgit.transport.TransportHttp.connect(TransportHttp.java:710)
at org.eclipse.jgit.transport.TransportHttp.openFetch(TransportHttp.java:465)
at org.eclipse.jgit.transport.FetchProcess.executeImp(FetchProcess.java:153)
at org.eclipse.jgit.transport.FetchProcess.execute(FetchProcess.java:105)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1458)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1386)
at com.bigbrassband.jira.git.services.gitmanager.SingleGitManagerImpl.fetch(SingleGitManagerImpl.java:1342)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.callFetch(GitPluginIndexManagerImpl.java:809)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:407)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)
2025-11-24 09:53:53,093-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 WARN      [o.e.jgit.lib.CoreConfig] Option core.trustFolderStat is deprecated, replace it by core.trustStat.
2025-11-24 09:53:53,136-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error retrieving pull/merge requests for the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
com.bigbrassband.jira.git.exceptions.params.WrongUsernamePasswordException: Not authorized
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:146)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiService.lambda$new$0(GitLabApiService.java:69)
at com.google.common.base.Suppliers$NonSerializableMemoizingSupplier.get(Suppliers.java:186)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabRepoApi.getMergeRequestsUpdatedSince(GitLabRepoApi.java:101)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.lambda$load$0(MergeRequestLoaderTailHandler.java:110)
at com.bigbrassband.jira.git.utils.RetryWithValues.execute(RetryWithValues.java:30)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.load(MergeRequestLoaderTailHandler.java:109)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestRetrieverImpl.updateMergeRequests(MergeRequestRetrieverImpl.java:63)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.lambda$innerUpdateIndexMainNode$1(GitPluginIndexManagerImpl.java:397)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.executeOptionalIndexPart(GitPluginIndexManagerImpl.java:847)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:395)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: org.gitlab.api.GitlabWrongPATException: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:191)
at org.gitlab.api.GitlabAPI.create(GitlabAPI.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.create(GitLabApiPool.java:232)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:202)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:124)
... 27 more
Caused by: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.http.GitlabHTTPRequestor.handleAPIError(GitlabHTTPRequestor.java:682)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:250)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:212)
at org.gitlab.api.GitlabAPI.getVersion(GitlabAPI.java:3599)
at org.gitlab.api.GitlabAPI.parseVersion(GitlabAPI.java:247)
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:187)
... 32 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at java.base/jdk.internal.reflect.DirectConstructorHandleAccessor.newInstance(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstanceWithCaller(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstance(Unknown Source)
at java.base/java.security.AccessController.doPrivileged(Unknown Source)
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:623)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:247)
... 36 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:608)
... 37 more
2025-11-24 09:53:53,252-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error updating the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
org.eclipse.jgit.errors.TransportException: https://lhc-git.nlm.nih.gov/mor/rxnav/atcprod-tool-jar.git: not authorized
at org.eclipse.jgit.transport.TransportHttp.connect(TransportHttp.java:710)
at org.eclipse.jgit.transport.TransportHttp.openFetch(TransportHttp.java:465)
at org.eclipse.jgit.transport.FetchProcess.executeImp(FetchProcess.java:153)
at org.eclipse.jgit.transport.FetchProcess.execute(FetchProcess.java:105)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1458)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1386)
at com.bigbrassband.jira.git.services.gitmanager.SingleGitManagerImpl.fetch(SingleGitManagerImpl.java:1342)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.callFetch(GitPluginIndexManagerImpl.java:809)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:407)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)
2025-11-24 09:53:55,963-0500 ISSUE-indexQueue:thread-1 INFO      [c.a.j.w.a.admin.index.IndexAdminImpl] Re-indexing is 26% complete. Current index: Issue
2025-11-24 09:54:08,473-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 WARN      [o.e.jgit.lib.CoreConfig] Option core.trustFolderStat is deprecated, replace it by core.trustStat.
2025-11-24 09:54:08,521-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error retrieving pull/merge requests for the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
com.bigbrassband.jira.git.exceptions.params.WrongUsernamePasswordException: Not authorized
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:146)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiService.lambda$new$0(GitLabApiService.java:69)
at com.google.common.base.Suppliers$NonSerializableMemoizingSupplier.get(Suppliers.java:186)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabRepoApi.getMergeRequestsUpdatedSince(GitLabRepoApi.java:101)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.lambda$load$0(MergeRequestLoaderTailHandler.java:110)
at com.bigbrassband.jira.git.utils.RetryWithValues.execute(RetryWithValues.java:30)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.load(MergeRequestLoaderTailHandler.java:109)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestRetrieverImpl.updateMergeRequests(MergeRequestRetrieverImpl.java:63)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.lambda$innerUpdateIndexMainNode$1(GitPluginIndexManagerImpl.java:397)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.executeOptionalIndexPart(GitPluginIndexManagerImpl.java:847)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:395)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: org.gitlab.api.GitlabWrongPATException: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:191)
at org.gitlab.api.GitlabAPI.create(GitlabAPI.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.create(GitLabApiPool.java:232)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:202)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:124)
... 27 more
Caused by: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.http.GitlabHTTPRequestor.handleAPIError(GitlabHTTPRequestor.java:682)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:250)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:212)
at org.gitlab.api.GitlabAPI.getVersion(GitlabAPI.java:3599)
at org.gitlab.api.GitlabAPI.parseVersion(GitlabAPI.java:247)
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:187)
... 32 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at java.base/jdk.internal.reflect.DirectConstructorHandleAccessor.newInstance(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstanceWithCaller(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstance(Unknown Source)
at java.base/java.security.AccessController.doPrivileged(Unknown Source)
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:623)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:247)
... 36 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:608)
... 37 more
2025-11-24 09:54:08,637-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error updating the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
org.eclipse.jgit.errors.TransportException: https://lhc-git.nlm.nih.gov/mor/rxnav/atcprod-tool-jar.git: not authorized
at org.eclipse.jgit.transport.TransportHttp.connect(TransportHttp.java:710)
at org.eclipse.jgit.transport.TransportHttp.openFetch(TransportHttp.java:465)
at org.eclipse.jgit.transport.FetchProcess.executeImp(FetchProcess.java:153)
at org.eclipse.jgit.transport.FetchProcess.execute(FetchProcess.java:105)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1458)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1386)
at com.bigbrassband.jira.git.services.gitmanager.SingleGitManagerImpl.fetch(SingleGitManagerImpl.java:1342)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.callFetch(GitPluginIndexManagerImpl.java:809)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:407)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)
2025-11-24 09:54:08,672-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 WARN      [o.e.jgit.lib.CoreConfig] Option core.trustFolderStat is deprecated, replace it by core.trustStat.
2025-11-24 09:54:08,714-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error retrieving pull/merge requests for the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
com.bigbrassband.jira.git.exceptions.params.WrongUsernamePasswordException: Not authorized
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:146)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiService.lambda$new$0(GitLabApiService.java:69)
at com.google.common.base.Suppliers$NonSerializableMemoizingSupplier.get(Suppliers.java:186)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabRepoApi.getMergeRequestsUpdatedSince(GitLabRepoApi.java:101)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.lambda$load$0(MergeRequestLoaderTailHandler.java:110)
at com.bigbrassband.jira.git.utils.RetryWithValues.execute(RetryWithValues.java:30)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestLoaderTailHandler.load(MergeRequestLoaderTailHandler.java:109)
at com.bigbrassband.jira.git.services.indexer.pullrequests.MergeRequestRetrieverImpl.updateMergeRequests(MergeRequestRetrieverImpl.java:63)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.lambda$innerUpdateIndexMainNode$1(GitPluginIndexManagerImpl.java:397)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.executeOptionalIndexPart(GitPluginIndexManagerImpl.java:847)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:395)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)
Caused by: org.gitlab.api.GitlabWrongPATException: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:191)
at org.gitlab.api.GitlabAPI.create(GitlabAPI.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.create(GitLabApiPool.java:232)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:202)
at com.bigbrassband.jira.git.services.integration.gitlab.GitLabApiPool.get(GitLabApiPool.java:174)
at com.bigbrassband.jira.git.services.integration.gitlab.CachedGitLabApi.<init>(CachedGitLabApi.java:124)
... 27 more
Caused by: org.gitlab.api.GitlabWrongCredentialsException: {"error":"invalid_token","error_description":"Token is expired. You can either do re-authorization or token refresh."}
at org.gitlab.api.http.GitlabHTTPRequestor.handleAPIError(GitlabHTTPRequestor.java:682)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:250)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:212)
at org.gitlab.api.GitlabAPI.getVersion(GitlabAPI.java:3599)
at org.gitlab.api.GitlabAPI.parseVersion(GitlabAPI.java:247)
at org.gitlab.api.GitlabAPI.createPATAuthOnly(GitlabAPI.java:187)
... 32 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at java.base/jdk.internal.reflect.DirectConstructorHandleAccessor.newInstance(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstanceWithCaller(Unknown Source)
at java.base/java.lang.reflect.Constructor.newInstance(Unknown Source)
at java.base/java.security.AccessController.doPrivileged(Unknown Source)
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:623)
at org.gitlab.api.http.GitlabHTTPRequestor.to(GitlabHTTPRequestor.java:247)
... 36 more
Caused by: java.io.IOException: Server returned HTTP response code: 401 for URL: https://lhc-git.nlm.nih.gov/api/v4/version
at org.gitlab.api.http.GitlabHTTPRequestor.parse(GitlabHTTPRequestor.java:608)
... 37 more
2025-11-24 09:54:08,808-0500 bigbrassband-gitplugin-reindex-queue:thread - 1 ERROR      [c.b.j.g.services.gitmanager.RepositoryStatusManagerImpl] Error updating the repository 'mor/rxnav/atcprod-tool-jar' (repoId=682)
org.eclipse.jgit.errors.TransportException: https://lhc-git.nlm.nih.gov/mor/rxnav/atcprod-tool-jar.git: not authorized
at org.eclipse.jgit.transport.TransportHttp.connect(TransportHttp.java:710)
at org.eclipse.jgit.transport.TransportHttp.openFetch(TransportHttp.java:465)
at org.eclipse.jgit.transport.FetchProcess.executeImp(FetchProcess.java:153)
at org.eclipse.jgit.transport.FetchProcess.execute(FetchProcess.java:105)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1458)
at org.eclipse.jgit.transport.Transport.fetch(Transport.java:1386)
at com.bigbrassband.jira.git.services.gitmanager.SingleGitManagerImpl.fetch(SingleGitManagerImpl.java:1342)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.callFetch(GitPluginIndexManagerImpl.java:809)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.innerUpdateIndexMainNode(GitPluginIndexManagerImpl.java:407)
at com.bigbrassband.jira.git.services.indexer.revisions.GitPluginIndexManagerImpl.updateIndexMainNode(GitPluginIndexManagerImpl.java:357)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRepositoryUpdate(ReindexQueueReindexTask.java:468)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.visit(ReindexQueueReindexTask.java:236)
at com.bigbrassband.jira.git.services.gitmanager.SubGitManager.accept(SubGitManager.java:142)
at com.bigbrassband.jira.git.services.async.ReindexQueueReindexTask.doRun(ReindexQueueReindexTask.java:184)
at com.bigbrassband.jira.git.services.async.ReindexQueueTask.run(ReindexQueueTask.java:41)
at com.bigbrassband.jira.git.services.async.ReindexQueueManagerImpl$QueueTask.doRun(ReindexQueueManagerImpl.java:276)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.run1(CancellableTask.java:38)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:25)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableTask.call(CancellableTask.java:8)
at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.RunnableFutureWrapper.run(RunnableFutureWrapper.java:33)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at com.bigbrassband.jira.git.utils.concurrent.JiraAdaptedThreadFactory.lambda$wrap$1(JiraAdaptedThreadFactory.java:42)
at com.bigbrassband.jira.git.utils.concurrent.cancel.CancellableJiraAdaptedThreadFactory.lambda$wrap$0(CancellableJiraAdaptedThreadFactory.java:24)
at java.base/java.lang.Thread.run(Unknown Source)

 

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