Bamboo server shuts down automatically after a restart

[Deleted user]

We have been running Bamboo version 6.3.1 server. All of sudden when we try and start up, it seems to start coming up but then shuts itself down. It's not obvious what the cause for the shutdown is from the logs, we are hoping someone can take a look at the log and give us a hint. Here is the content of the catalina.out, last 19k characters:

 25-Jan-2018 06:13:44.332 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [1-PullRequestDetectionBackgroundThread:pool-4-thread-3] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
java.lang.Object.wait(Native Method)
java.lang.Object.wait(Object.java:502)
com.atlassian.bamboo.plan.ItemDetections.getDetectionRequest(ItemDetections.java:36)
com.atlassian.bamboo.plan.pullrequest.PullRequestDetector$1.run(PullRequestDetector.java:65)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:106)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:99)
com.atlassian.bamboo.plugin.BambooPluginUtils.callUnsafeCode(BambooPluginUtils.java:53)
com.atlassian.bamboo.plan.pullrequest.PullRequestDetector.run(PullRequestDetector.java:164)
com.atlassian.bamboo.utils.BambooRunnables$1.run(BambooRunnables.java:48)
com.atlassian.bamboo.security.ImpersonationHelper.runWith(ImpersonationHelper.java:26)
com.atlassian.bamboo.security.ImpersonationHelper.runWithSystemAuthority(ImpersonationHelper.java:17)
com.atlassian.bamboo.security.ImpersonationHelper$1.run(ImpersonationHelper.java:41)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.333 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [lucene-tracked-searchers-pruner-pool-5-thread-1] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
sun.misc.Unsafe.park(Native Method)
java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:2078)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:1093)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:809)
java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1067)
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1127)
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.333 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [lucene-tracked-searchers-pruner-pool-7-thread-1] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
sun.misc.Unsafe.park(Native Method)
java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:2078)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:1093)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:809)
java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1067)
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1127)
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.333 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [lucene-tracked-searchers-pruner-pool-9-thread-1] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
sun.misc.Unsafe.park(Native Method)
java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:2078)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:1093)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:809)
java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1067)
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1127)
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.333 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [mail-queue-processor-pool-14-thread-1] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
sun.misc.Unsafe.park(Native Method)
java.util.concurrent.locks.LockSupport.park(LockSupport.java:175)
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:2039)
java.util.concurrent.LinkedBlockingDeque.takeFirst(LinkedBlockingDeque.java:492)
java.util.concurrent.LinkedBlockingDeque.take(LinkedBlockingDeque.java:680)
com.atlassian.bamboo.mail.EmailService$MailQueueProcessor.run(EmailService.java:71)
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.334 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [XMPP Worker] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
java.lang.Object.wait(Native Method)
java.lang.Object.wait(Object.java:502)
com.atlassian.bamboo.util.concurrent.BlockingCircularFifoQueue.waitForItem(BlockingCircularFifoQueue.java:37)
com.atlassian.bamboo.util.concurrent.BlockingCircularFifoQueue.take(BlockingCircularFifoQueue.java:22)
com.atlassian.bamboo.xmpp.BambooSmackClient$XmppWorkerThread.run(BambooSmackClient.java:251)
25-Jan-2018 06:13:44.334 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [12-BranchDetectionBackgroundThread:pool-20-thread-1] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
java.lang.Object.wait(Native Method)
java.lang.Object.wait(Object.java:502)
com.atlassian.bamboo.plan.ItemDetections.getDetectionRequest(ItemDetections.java:36)
com.atlassian.bamboo.plan.branch.BranchDetectionServiceImpl$BranchDetector$1.run(BranchDetectionServiceImpl.java:119)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:106)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:99)
com.atlassian.bamboo.plugin.BambooPluginUtils.callUnsafeCode(BambooPluginUtils.java:53)
com.atlassian.bamboo.plan.branch.BranchDetectionServiceImpl$BranchDetector.run(BranchDetectionServiceImpl.java:168)
com.atlassian.bamboo.utils.BambooRunnables$1.run(BambooRunnables.java:48)
com.atlassian.bamboo.security.ImpersonationHelper.runWith(ImpersonationHelper.java:26)
com.atlassian.bamboo.security.ImpersonationHelper.runWithSystemAuthority(ImpersonationHelper.java:17)
com.atlassian.bamboo.security.ImpersonationHelper$1.run(ImpersonationHelper.java:41)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.334 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [12-BranchDetectionBackgroundThread:pool-20-thread-2] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
java.lang.Object.wait(Native Method)
java.lang.Object.wait(Object.java:502)
com.atlassian.bamboo.plan.ItemDetections.getDetectionRequest(ItemDetections.java:36)
com.atlassian.bamboo.plan.branch.BranchDetectionServiceImpl$BranchDetector$1.run(BranchDetectionServiceImpl.java:119)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:106)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:99)
com.atlassian.bamboo.plugin.BambooPluginUtils.callUnsafeCode(BambooPluginUtils.java:53)
com.atlassian.bamboo.plan.branch.BranchDetectionServiceImpl$BranchDetector.run(BranchDetectionServiceImpl.java:168)
com.atlassian.bamboo.utils.BambooRunnables$1.run(BambooRunnables.java:48)
com.atlassian.bamboo.security.ImpersonationHelper.runWith(ImpersonationHelper.java:26)
com.atlassian.bamboo.security.ImpersonationHelper.runWithSystemAuthority(ImpersonationHelper.java:17)
com.atlassian.bamboo.security.ImpersonationHelper$1.run(ImpersonationHelper.java:41)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.335 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [12-BranchDetectionBackgroundThread:pool-20-thread-3] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
java.lang.Object.wait(Native Method)
java.lang.Object.wait(Object.java:502)
com.atlassian.bamboo.plan.ItemDetections.getDetectionRequest(ItemDetections.java:36)
com.atlassian.bamboo.plan.branch.BranchDetectionServiceImpl$BranchDetector$1.run(BranchDetectionServiceImpl.java:119)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:106)
com.atlassian.bamboo.plugin.BambooPluginUtils$Runnable.call(BambooPluginUtils.java:99)
com.atlassian.bamboo.plugin.BambooPluginUtils.callUnsafeCode(BambooPluginUtils.java:53)
com.atlassian.bamboo.plan.branch.BranchDetectionServiceImpl$BranchDetector.run(BranchDetectionServiceImpl.java:168)
com.atlassian.bamboo.utils.BambooRunnables$1.run(BambooRunnables.java:48)
com.atlassian.bamboo.security.ImpersonationHelper.runWith(ImpersonationHelper.java:26)
com.atlassian.bamboo.security.ImpersonationHelper.runWithSystemAuthority(ImpersonationHelper.java:17)
com.atlassian.bamboo.security.ImpersonationHelper$1.run(ImpersonationHelper.java:41)
java.lang.Thread.run(Thread.java:748)
25-Jan-2018 06:13:44.335 WARNING [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads The web application [ROOT] appears to have started a thread named [LastResortTerminationThread] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
java.lang.Thread.sleep(Native Method)
java.lang.Thread.sleep(Thread.java:340)
java.util.concurrent.TimeUnit.sleep(TimeUnit.java:386)
com.atlassian.bamboo.container.ShutdownEnforcer$1.run(ShutdownEnforcer.java:26)
25-Jan-2018 06:13:44.336 SEVERE [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks The web application [ROOT] created a ThreadLocal with key of type [java.lang.ThreadLocal] (value [java.lang.ThreadLocal@10da5bff]) and a value of type [org.acegisecurity.context.SecurityContextImpl] (value [org.acegisecurity.context.SecurityContextImpl@caf53fa: Authentication: org.acegisecurity.adapters.PrincipalAcegiUserToken@caf53fa: Username: SYSTEM; Password: [PROTECTED]; Authenticated: true; Details: null; Granted Authorities: ROLE_SYSTEM, ROLE_ADMIN]) but failed to remove it when the web application was stopped. Threads are going to be renewed over time to try and avoid a probable memory leak.
25-Jan-2018 06:13:44.336 SEVERE [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks The web application [ROOT] created a ThreadLocal with key of type [java.lang.ThreadLocal] (value [java.lang.ThreadLocal@10da5bff]) and a value of type [org.acegisecurity.context.SecurityContextImpl] (value [org.acegisecurity.context.SecurityContextImpl@caf53fa: Authentication: org.acegisecurity.adapters.PrincipalAcegiUserToken@caf53fa: Username: SYSTEM; Password: [PROTECTED]; Authenticated: true; Details: null; Granted Authorities: ROLE_SYSTEM, ROLE_ADMIN]) but failed to remove it when the web application was stopped. Threads are going to be renewed over time to try and avoid a probable memory leak.
25-Jan-2018 06:13:44.336 SEVERE [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks The web application [ROOT] created a ThreadLocal with key of type [java.lang.ThreadLocal] (value [java.lang.ThreadLocal@10da5bff]) and a value of type [org.acegisecurity.context.SecurityContextImpl] (value [org.acegisecurity.context.SecurityContextImpl@caf53fa: Authentication: org.acegisecurity.adapters.PrincipalAcegiUserToken@caf53fa: Username: SYSTEM; Password: [PROTECTED]; Authenticated: true; Details: null; Granted Authorities: ROLE_SYSTEM, ROLE_ADMIN]) but failed to remove it when the web application was stopped. Threads are going to be renewed over time to try and avoid a probable memory leak.
25-Jan-2018 06:13:44.336 SEVERE [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks The web application [ROOT] created a ThreadLocal with key of type [java.lang.ThreadLocal] (value [java.lang.ThreadLocal@10da5bff]) and a value of type [org.acegisecurity.context.SecurityContextImpl] (value [org.acegisecurity.context.SecurityContextImpl@caf53fa: Authentication: org.acegisecurity.adapters.PrincipalAcegiUserToken@caf53fa: Username: SYSTEM; Password: [PROTECTED]; Authenticated: true; Details: null; Granted Authorities: ROLE_SYSTEM, ROLE_ADMIN]) but failed to remove it when the web application was stopped. Threads are going to be renewed over time to try and avoid a probable memory leak.
25-Jan-2018 06:13:44.337 SEVERE [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks The web application [ROOT] created a ThreadLocal with key of type [java.lang.ThreadLocal] (value [java.lang.ThreadLocal@10da5bff]) and a value of type [org.acegisecurity.context.SecurityContextImpl] (value [org.acegisecurity.context.SecurityContextImpl@caf53fa: Authentication: org.acegisecurity.adapters.PrincipalAcegiUserToken@caf53fa: Username: SYSTEM; Password: [PROTECTED]; Authenticated: true; Details: null; Granted Authorities: ROLE_SYSTEM, ROLE_ADMIN]) but failed to remove it when the web application was stopped. Threads are going to be renewed over time to try and avoid a probable memory leak.
25-Jan-2018 06:13:44.337 SEVERE [localhost-startStop-1] org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks The web application [ROOT] created a ThreadLocal with key of type [java.lang.ThreadLocal] (value [java.lang.ThreadLocal@10da5bff]) and a value of type [org.acegisecurity.context.SecurityContextImpl] (value [org.acegisecurity.context.SecurityContextImpl@caf53fa: Authentication: org.acegisecurity.adapters.PrincipalAcegiUserToken@caf53fa: Username: SYSTEM; Password: [PROTECTED]; Authenticated: true; Details: null; Granted Authorities: ROLE_SYSTEM, ROLE_ADMIN]) but failed to remove it when the web application was stopped. Threads are going to be renewed over time to try and avoid a probable memory leak.
25-Jan-2018 06:13:44.344 INFO [main] org.apache.coyote.AbstractProtocol.start Starting ProtocolHandler ["http-nio-8085"]
25-Jan-2018 06:13:44.347 INFO [main] org.apache.catalina.startup.Catalina.start Server startup in 34476 ms
2018-01-25 06:13:59,228 WARN [LastResortTerminationThread] [ShutdownEnforcer] Shutting down Bamboo despite the fact that a non-daemon thread Thread[main,5,main] is still running.
2018-01-25 06:13:59,229 WARN [LastResortTerminationThread] [ShutdownEnforcer] Shutting down Bamboo despite the fact that a non-daemon thread Thread[lucene-tracked-searchers-pruner-pool-2-thread-1,5,main] is still running.
2018-01-25 06:13:59,229 WARN [LastResortTerminationThread] [ShutdownEnforcer] Shutting down Bamboo despite the fact that a non-daemon thread Thread[lucene-tracked-searchers-pruner-pool-5-thread-1,5,main] is still running.
2018-01-25 06:13:59,229 WARN [LastResortTerminationThread] [ShutdownEnforcer] Shutting down Bamboo despite the fact that a non-daemon thread Thread[lucene-tracked-searchers-pruner-pool-7-thread-1,5,main] is still running.
2018-01-25 06:13:59,230 WARN [LastResortTerminationThread] [ShutdownEnforcer] Shutting down Bamboo despite the fact that a non-daemon thread Thread[lucene-tracked-searchers-pruner-pool-9-thread-1,5,main] is still running.
2018-01-25 06:13:59,230 WARN [LastResortTerminationThread] [ShutdownEnforcer] Shutting down Bamboo despite the fact that a non-daemon thread Thread[mail-queue-processor-pool-14-thread-1,5,main] is still running.
2018-01-25 06:13:59,230 INFO [LastResortTerminationThread] [lifecycle] *******************************
2018-01-25 06:13:59,230 INFO [LastResortTerminationThread] [lifecycle] * Bamboo has been shut down *
2018-01-25 06:13:59,230 INFO [LastResortTerminationThread] [lifecycle] *******************************
2018-01-25 06:13:59,230 WARN [LastResortTerminationThread] [ShutdownEnforcer] Calling System.exit()
25-Jan-2018 06:13:59.232 INFO [Thread-28] org.apache.coyote.AbstractProtocol.pause Pausing ProtocolHandler ["http-nio-8085"]
25-Jan-2018 06:13:59.284 INFO [Thread-28] org.apache.catalina.core.StandardService.stopInternal Stopping service Catalina
25-Jan-2018 06:13:59.288 INFO [Thread-28] org.apache.coyote.AbstractProtocol.stop Stopping ProtocolHandler ["http-nio-8085"]
25-Jan-2018 06:13:59.291 INFO [Thread-28] org.apache.coyote.AbstractProtocol.destroy Destroying ProtocolHandler ["http-nio-8085"]

[Alexey Chystoprudov]

Please create support request at support.atlassian.com as it requires much more details from your side to understand what's going on. Logs provided here just not enough.

[Deleted user]

Thanks for the prompt reply. We don't have technical support which is why we posted here.

We originally installed and ran as root.

We thought better of this and created an atlassian user and group to run as.

So we had to change ownership and permissions as follows for bamboo and bamboo.home:

chown -R altlassian:atlassian bamboo

chmod -R u=rwx,g=rx,o=rx bamboo

We did this for bamboo and bamboo.home.

Was that not correct?

[Alexey Chystoprudov]

Then we need another part of the logs. Just between 

[Server] * You can see Bamboo by visiting YOUR_URL

 and

[ActiveMQ ShutdownHook] [BrokerService] Apache ActiveMQ 5.14.5 (bamboo, id-54995-1516891896457-0:1) is shutting down

[Deleted user]

First part:

25-Jan-2018 06:13:09.824 WARNING [main] org.apache.tomcat.util.digester.SetPropertiesRule.begin [SetPropertiesRule]{Server/Service/Engine/Valve} Setting property 'resolveHosts' to 'false' did not find a matching property.
25-Jan-2018 06:13:09.828 INFO [main] org.apache.catalina.core.AprLifecycleListener.lifecycleEvent The APR based Apache Tomcat Native library which allows optimal performance in production environments was not found on the java.library.path: /usr/java/packages/lib/amd64:/usr/lib64:/lib64:/lib:/usr/lib
25-Jan-2018 06:13:09.861 INFO [main] org.apache.coyote.AbstractProtocol.init Initializing ProtocolHandler ["http-nio-8085"]
25-Jan-2018 06:13:09.869 INFO [main] org.apache.tomcat.util.net.NioSelectorPool.getSharedSelector Using a shared selector for servlet write/read
25-Jan-2018 06:13:09.870 INFO [main] org.apache.catalina.startup.Catalina.load Initialization processed in 261 ms
25-Jan-2018 06:13:09.876 INFO [main] org.apache.catalina.core.StandardService.startInternal Starting service Catalina
25-Jan-2018 06:13:09.876 INFO [main] org.apache.catalina.core.StandardEngine.startInternal Starting Servlet Engine: Apache Tomcat/8.0.36
25-Jan-2018 06:13:16.387 INFO [localhost-startStop-1] org.apache.jasper.servlet.TldScanner.scanJars At least one JAR was scanned for TLDs yet contained no TLDs. Enable debug logging for this logger for a complete list of JARs that were scanned but no TLDs were found in them. Skipping unneeded JARs during scanning can improve startup time and JSP compilation time.
2018-01-25 06:13:16,574 INFO [localhost-startStop-1] [BootstrapLoaderListener] Starting BootstrapLoaderListener
2018-01-25 06:13:16,574 INFO [localhost-startStop-1] [lifecycle] *******************************
2018-01-25 06:13:16,574 INFO [localhost-startStop-1] [lifecycle] * Bamboo is starting up *
2018-01-25 06:13:16,574 INFO [localhost-startStop-1] [lifecycle] *******************************
2018-01-25 06:13:16,575 INFO [localhost-startStop-1] [ServletContextHolder] Setting servlet context: Bamboo
2018-01-25 06:13:16,617 INFO [localhost-startStop-1] [lifecycle] atlassian.org.osgi.framework.bootdelegation set to javax.servlet,javax.servlet.*,sun.*,com.sun.*,org.w3c.dom.*,org.apache.xerces.*,org.jboss.byteman.*,jdk.internal.reflect
2018-01-25 06:13:16,709 INFO [localhost-startStop-1] [BootstrapLoaderListener] App classloader is the same as web app classloader
2018-01-25 06:13:17,367 INFO [localhost-startStop-1] [lifecycle] Starting Bamboo 6.3.1 (build #60306 Fri Jan 12 10:28:20 EST 2018) using Java 1.8.0_131 from Oracle Corporation
2018-01-25 06:13:17,367 INFO [localhost-startStop-1] [lifecycle] Real path of servlet context: /home/atlassian/atlassian-bamboo-6.3.1/atlassian-bamboo/
2018-01-25 06:13:17,489 INFO [localhost-startStop-1] [DefaultBootstrapManager] Running validation tasks
2018-01-25 06:13:17,518 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ----------------------------------------------------------------------
2018-01-25 06:13:17,519 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 1 : Assert that Bamboo isn't running on HSQL database (post-bootstrap)
2018-01-25 06:13:17,519 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ----------------------------------------------------------------------
2018-01-25 06:13:17,521 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 1 completed successfully.
2018-01-25 06:13:17,534 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------------------------------
2018-01-25 06:13:17,535 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 2 : Validate that JDBC driver is available in classpath (bootstrap)
2018-01-25 06:13:17,535 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------------------------------
2018-01-25 06:13:17,536 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 2 completed successfully.
2018-01-25 06:13:17,542 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------------------------
2018-01-25 06:13:17,542 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 3 : Validate if build number in home directory matches database (bootstrap)
2018-01-25 06:13:17,542 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------------------------
2018-01-25 06:13:17,688 INFO [MLog-Init-Reporter] [MLog] MLog clients using slf4j logging.
2018-01-25 06:13:17,750 INFO [localhost-startStop-1] [C3P0Registry] Initializing c3p0-0.9.5.2 [built 08-December-2015 22:06:04 -0800; debug? true; trace: 10]
2018-01-25 06:13:17,812 INFO [localhost-startStop-1] [AbstractPoolBackedDataSource] Initializing c3p0 pool... com.mchange.v2.c3p0.PoolBackedDataSource@fda06f0e [ connectionPoolDataSource -> com.mchange.v2.c3p0.WrapperConnectionPoolDataSource@6e588fb3 [ acquireIncrement -> 3, acquireRetryAttempts -> 30, acquireRetryDelay -> 1000, autoCommitOnClose -> false, automaticTestTable -> null, breakAfterAcquireFailure -> false, checkoutTimeout -> 0, connectionCustomizerClassName -> null, connectionTesterClassName -> com.mchange.v2.c3p0.impl.DefaultConnectionTester, contextClassLoaderSource -> caller, debugUnreturnedConnectionStackTraces -> false, factoryClassLocation -> null, forceIgnoreUnresolvedTransactions -> false, forceSynchronousCheckins -> false, identityToken -> z8kflt9tchplsv1g8jc55|a0e1c38, idleConnectionTestPeriod -> 30, initialPoolSize -> 3, maxAdministrativeTaskTime -> 0, maxConnectionAge -> 0, maxIdleTime -> 120, maxIdleTimeExcessConnections -> 0, maxPoolSize -> 100, maxStatements -> 0, maxStatementsPerConnection -> 0, minPoolSize -> 3, nestedDataSource -> com.mchange.v2.c3p0.DriverManagerDataSource@cb28e704 [ description -> null, driverClass -> null, factoryClassLocation -> null, forceUseNamedDriverClass -> false, identityToken -> z8kflt9tchplsv1g8jc55|2e69d5d7, jdbcUrl -> jdbc:mysql://armantafs008.armanta.local:3306/bamboo?autoReconnect=true, properties -> {user=******, password=******} ], preferredTestQuery -> null, privilegeSpawnedThreads -> false, propertyCycle -> 0, statementCacheNumDeferredCloseThreads -> 0, testConnectionOnCheckin -> false, testConnectionOnCheckout -> false, unreturnedConnectionTimeout -> 0, usesTraditionalReflectiveProxies -> false; userOverrides: {} ], dataSourceName -> null, extensions -> {}, factoryClassLocation -> null, identityToken -> z8kflt9tchplsv1g8jc55|72e71675, numHelperThreads -> 3 ]
2018-01-25 06:13:18,005 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 3 completed successfully.
2018-01-25 06:13:18,011 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -----------------------------------------------------------------
2018-01-25 06:13:18,011 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 2901 : Test if build number is applicable for upgrade (bootstrap)
2018-01-25 06:13:18,011 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -----------------------------------------------------------------
2018-01-25 06:13:18,011 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 2901 completed successfully.
2018-01-25 06:13:18,017 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ------------------------------------------------------------
2018-01-25 06:13:18,018 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 2902 : Test if plan keys are correctly formatted (bootstrap)
2018-01-25 06:13:18,018 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ------------------------------------------------------------
2018-01-25 06:13:18,034 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 2902 completed successfully.
2018-01-25 06:13:18,039 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -----------------------------------------------------------------------------
2018-01-25 06:13:18,039 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 4300 : Make sure there's single row in HIBERNATE_UNIQUE_KEY table (bootstrap)
2018-01-25 06:13:18,039 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -----------------------------------------------------------------------------
2018-01-25 06:13:18,041 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 4300 completed successfully.
2018-01-25 06:13:18,057 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------------------------------------------------
2018-01-25 06:13:18,057 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 4410 : Make sure that all branch keys start with their master's chain key (bootstrap)
2018-01-25 06:13:18,057 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------------------------------------------------
2018-01-25 06:13:18,060 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 4410 completed successfully.
2018-01-25 06:13:18,065 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------
2018-01-25 06:13:18,065 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51010 : Check if lucene index root dir exists (bootstrap)
2018-01-25 06:13:18,065 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------

[Deleted user]

Second part:

2018-01-25 06:13:18,066 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51010 completed successfully.
2018-01-25 06:13:18,071 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -----------------------------------------------------------------------------
2018-01-25 06:13:18,071 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51012 : Make sure that MySQL server uses InnoDB engine for tables (bootstrap)
2018-01-25 06:13:18,071 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -----------------------------------------------------------------------------
2018-01-25 06:13:18,080 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51012 completed successfully.
2018-01-25 06:13:18,085 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] --------------------------------------------------------------------------
2018-01-25 06:13:18,085 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51102 : Make sure server key has been initialized and is valid (bootstrap)
2018-01-25 06:13:18,085 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] --------------------------------------------------------------------------
2018-01-25 06:13:18,085 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51102 completed successfully.
2018-01-25 06:13:18,093 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------
2018-01-25 06:13:18,093 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51111 : Verify DB compatibility (bootstrap)
2018-01-25 06:13:18,093 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------
2018-01-25 06:13:18,100 INFO [localhost-startStop-1] [DatabaseIsSupported] Testing compatibility of [MySQL] 5.5.13 (5.5.13) using JDBC driver [MySQL-AB JDBC Driver] 5.1.0 (mysql-connector-java-5.1.10 ( Revision: ${svn.Revision} )) with this version of Bamboo.
2018-01-25 06:13:18,100 ERROR [localhost-startStop-1] [DatabaseIsSupported] Detected MYSQL version [MySQL] 5.5.13 (5.5.13), minimal supported version is 5.6.3
2018-01-25 06:13:18,100 ERROR [localhost-startStop-1] [DatabaseIsSupported] Bamboo doesn't support MySQL version 5.5.13. Please check https://confluence.atlassian.com/display/BAMBOO/Supported+Platforms for more information.
2018-01-25 06:13:18,100 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51111 completed successfully.
2018-01-25 06:13:18,107 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------
2018-01-25 06:13:18,107 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51210 : Verify file name encoding (bootstrap)
2018-01-25 06:13:18,107 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------
2018-01-25 06:13:18,107 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51210 completed successfully.
2018-01-25 06:13:18,113 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------------------------
2018-01-25 06:13:18,113 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51301 : Test if collation and commit isolation is set correctly (bootstrap)
2018-01-25 06:13:18,113 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------------------------
2018-01-25 06:13:18,113 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51301 completed successfully.
2018-01-25 06:13:18,118 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ----------------------------------------------------------------
2018-01-25 06:13:18,118 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51302 : Check that MySQL tables are case insensitive (bootstrap)
2018-01-25 06:13:18,118 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ----------------------------------------------------------------
2018-01-25 06:13:18,121 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51302 completed successfully.
2018-01-25 06:13:18,126 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------------------------------------
2018-01-25 06:13:18,126 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 51404 : Make sure OSGi bundle cache directory is empty, clean it if needed. (bootstrap)
2018-01-25 06:13:18,126 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] ---------------------------------------------------------------------------------------
2018-01-25 06:13:18,128 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 51404 completed successfully.
2018-01-25 06:13:18,133 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------------------------------
2018-01-25 06:13:18,134 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] 60001 : Make sure JNDI location of mail server is valid (bootstrap)
2018-01-25 06:13:18,134 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] -------------------------------------------------------------------
2018-01-25 06:13:18,134 INFO [localhost-startStop-1] [MailServerJndiLocationIsValid] Validating JNDI location of mail server in configuration file '/home/atlassian/bamboo.home/bamboo-mail.cfg.xml'.
2018-01-25 06:13:18,150 INFO [localhost-startStop-1] [BootstrapUpgradeManagerImpl] Task 60001 completed successfully.
2018-01-25 06:13:18,150 INFO [localhost-startStop-1] [DefaultBootstrapManager] Running pre-bootstrap upgrade tasks
2018-01-25 06:13:18,157 INFO [localhost-startStop-1] [lifecycle] Bamboo home directory: /home/atlassian/bamboo.home
2018-01-25 06:13:18,158 INFO [localhost-startStop-1] [lifecycle] Default charset: UTF-8, file name ecoding: UTF-8
2018-01-25 06:13:19,276 INFO [localhost-startStop-1] [BambooBootstrapPlaceholderConfigurer] Loading properties file from class path resource [bamboo-init.properties]
2018-01-25 06:13:19,845 WARN [localhost-startStop-1] [GenericTypeAwarePropertyDescriptor] Invalid JavaBean property 'mappingResources' being accessed! Ambiguous write methods found next to actually used [public void bucket.core.persistence.hibernate.ConfigurableLocalSessionFactoryBean.setMappingResources(bucket.core.persistence.hibernate.MappingResources)]: [public void org.springframework.orm.hibernate5.LocalSessionFactoryBean.setMappingResources(java.lang.String[])]
2018-01-25 06:13:20,814 INFO [localhost-startStop-1] [AbstractPoolBackedDataSource] Initializing c3p0 pool... com.mchange.v2.c3p0.PoolBackedDataSource@3901bcb6 [ connectionPoolDataSource -> com.mchange.v2.c3p0.WrapperConnectionPoolDataSource@5f9a11c6 [ acquireIncrement -> 3, acquireRetryAttempts -> 30, acquireRetryDelay -> 1000, autoCommitOnClose -> false, automaticTestTable -> null, breakAfterAcquireFailure -> false, checkoutTimeout -> 0, connectionCustomizerClassName -> null, connectionTesterClassName -> com.mchange.v2.c3p0.impl.DefaultConnectionTester, contextClassLoaderSource -> caller, debugUnreturnedConnectionStackTraces -> false, factoryClassLocation -> null, forceIgnoreUnresolvedTransactions -> false, forceSynchronousCheckins -> false, identityToken -> z8kflt9tchplsv1g8jc55|38e8e1b6, idleConnectionTestPeriod -> 30, initialPoolSize -> 3, maxAdministrativeTaskTime -> 0, maxConnectionAge -> 0, maxIdleTime -> 120, maxIdleTimeExcessConnections -> 0, maxPoolSize -> 100, maxStatements -> 0, maxStatementsPerConnection -> 0, minPoolSize -> 3, nestedDataSource -> com.mchange.v2.c3p0.DriverManagerDataSource@ec45c653 [ description -> null, driverClass -> null, factoryClassLocation -> null, forceUseNamedDriverClass -> false, identityToken -> z8kflt9tchplsv1g8jc55|6156fce7, jdbcUrl -> jdbc:mysql://armantafs008.armanta.local:3306/bamboo?autoReconnect=true, properties -> {handling_mode=DELAYED_ACQUISITION_AND_HOLD, user=******, password=******} ], preferredTestQuery -> null, privilegeSpawnedThreads -> false, propertyCycle -> 0, statementCacheNumDeferredCloseThreads -> 0, testConnectionOnCheckin -> false, testConnectionOnCheckout -> false, unreturnedConnectionTimeout -> 0, usesTraditionalReflectiveProxies -> false; userOverrides: {} ], dataSourceName -> null, extensions -> {}, factoryClassLocation -> null, identityToken -> z8kflt9tchplsv1g8jc55|3f02c237, numHelperThreads -> 3 ]
2018-01-25 06:13:21,304 INFO [localhost-startStop-1] [ResettableTableHiLoGenerator] Registering exportables...
2018-01-25 06:13:21,309 INFO [localhost-startStop-1] [ResettableTableHiLoGenerator] Generator table: org.hibernate.mapping.Table(hibernate_unique_key)
2018-01-25 06:13:21,891 WARN [localhost-startStop-1] [AbstractEhcacheRegionFactory] HHH020003: Could not find a specific ehcache configuration for cache named [org.hibernate.cache.spi.UpdateTimestampsCache]; using defaults.
2018-01-25 06:13:21,898 WARN [localhost-startStop-1] [AbstractEhcacheRegionFactory] HHH020003: Could not find a specific ehcache configuration for cache named [org.hibernate.cache.internal.StandardQueryCache]; using defaults.
2018-01-25 06:13:22,169 WARN [localhost-startStop-1] [AbstractEhcacheRegionFactory] HHH020003: Could not find a specific ehcache configuration for cache named [bucket.user.propertyset.BucketPropertySetItem]; using defaults.
2018-01-25 06:13:22,267 WARN [localhost-startStop-1] [AbstractEhcacheRegionFactory] HHH020003: Could not find a specific ehcache configuration for cache named [com.atlassian.user.impl.hibernate3.DefaultHibernateExternalEntity]; using defaults.
2018-01-25 06:13:22,370 WARN [localhost-startStop-1] [AbstractEhcacheRegionFactory] HHH020003: Could not find a specific ehcache configuration for cache named [com.atlassian.user.impl.hibernate3.DefaultHibernateExternalEntity.groups]; using defaults.
2018-01-25 06:13:22,733 ERROR [localhost-startStop-1] [MetadataContext] HHH015007: Illegal argument on static metamodel field injection : com.atlassian.bamboo.agent.elastic.server.ElasticImageConfigurationImpl_#availabilityZones; expected type : org.hibernate.metamodel.internal.SingularAttributeImpl; encountered type : javax.persistence.metamodel.CollectionAttribute
2018-01-25 06:13:22,733 ERROR [localhost-startStop-1] [MetadataContext] HHH015007: Illegal argument on static metamodel field injection : com.atlassian.bamboo.agent.elastic.server.ElasticImageConfigurationImpl_#subnetIds; expected type : org.hibernate.metamodel.internal.SingularAttributeImpl; encountered type : javax.persistence.metamodel.CollectionAttribute
2018-01-25 06:13:22,743 ERROR [localhost-startStop-1] [MetadataContext] HHH015007: Illegal argument on static metamodel field injection : com.atlassian.bamboo.project.DefaultProject_#allPlans; expected type : org.hibernate.metamodel.internal.PluralAttributeImpl$CollectionAttributeImpl; encountered type : javax.persistence.metamodel.ListAttribute
2018-01-25 06:13:26,200 INFO [localhost-startStop-1] [BrokerService] Loaded the Bouncy Castle security provider.
2018-01-25 06:13:26,362 INFO [localhost-startStop-1] [BrokerService] Using Persistence Adapter: KahaDBPersistenceAdapter[/home/atlassian/bamboo.home/jms-store/bamboo/KahaDB]
2018-01-25 06:13:26,380 INFO [localhost-startStop-1] [MessageDatabase] Persistence store purged.
2018-01-25 06:13:26,624 INFO [localhost-startStop-1] [PListStoreImpl] PListStore:[/home/atlassian/bamboo.home/jms-store/bamboo/tmp_storage] started
2018-01-25 06:13:26,756 INFO [localhost-startStop-1] [BrokerService] Apache ActiveMQ 5.14.5 (bamboo, ID:armantafs026-36260-1516878806631-0:1) is starting
2018-01-25 06:13:26,759 INFO [localhost-startStop-1] [BrokerPluginSupport] Broker Plugin org.apache.activemq.broker.util.TimeStampingBrokerPlugin started
2018-01-25 06:13:26,760 INFO [localhost-startStop-1] [BrokerService] Apache ActiveMQ 5.14.5 (bamboo, ID:armantafs026-36260-1516878806631-0:1) started
2018-01-25 06:13:26,761 INFO [localhost-startStop-1] [BrokerService] For help or more information please see: http://activemq.apache.org
2018-01-25 06:13:28,091 INFO [localhost-startStop-1] [BouncyCastleProviderUtils] Bouncy Castle provider already present
2018-01-25 06:13:28,681 INFO [localhost-startStop-1] [StdSchedulerFactory] Using default implementation for ThreadExecutor
2018-01-25 06:13:28,691 INFO [localhost-startStop-1] [SchedulerSignalerImpl] Initialized Scheduler Signaller of type: class org.quartz.core.SchedulerSignalerImpl
2018-01-25 06:13:28,691 INFO [localhost-startStop-1] [QuartzScheduler] Quartz Scheduler v.2.2.3 created.
2018-01-25 06:13:28,691 INFO [localhost-startStop-1] [RAMJobStore] RAMJobStore initialized.
2018-01-25 06:13:28,692 INFO [localhost-startStop-1] [QuartzScheduler] Scheduler meta-data: Quartz Scheduler (v2.2.3) 'scheduler' with instanceId 'NON_CLUSTERED'
 Scheduler class: 'org.quartz.core.QuartzScheduler' - running locally.
 NOT STARTED.
 Currently in standby mode.
 Number of jobs executed: 0
 Using thread pool 'com.atlassian.bamboo.quartz.SystemAuthorizedThreadPool' - with 10 threads.
 Using job-store 'org.quartz.simpl.RAMJobStore' - which does not support persistence. and is not clustered.

2018-01-25 06:13:28,692 INFO [localhost-startStop-1] [StdSchedulerFactory] Quartz scheduler 'scheduler' initialized from an externally provided properties instance.
2018-01-25 06:13:28,692 INFO [localhost-startStop-1] [StdSchedulerFactory] Quartz scheduler version: 2.2.3
2018-01-25 06:13:28,692 INFO [localhost-startStop-1] [QuartzScheduler] JobFactory set to: com.atlassian.bamboo.quartz.AutowiringJobFactory@44dbac66
2018-01-25 06:13:32,771 INFO [localhost-startStop-1] [BambooActiveMQConnectionFactory] Setting broker URL to 'vm://bamboo'
2018-01-25 06:13:32,972 INFO [localhost-startStop-1] [JmsSslManagementUtils] Loading an existing key store from /home/atlassian/bamboo.home/xml-data/configuration/broker.ks
2018-01-25 06:13:33,000 INFO [localhost-startStop-1] [JmsSslManagementUtils] Keystore successfully loaded
2018-01-25 06:13:33,008 INFO [localhost-startStop-1] [BambooBrokerService] Registering custom http transport in ActiveMQ.
2018-01-25 06:13:33,013 INFO [localhost-startStop-1] [TomcatHttpTransportServer] Starting TomcatHttpTransportServer...
2018-01-25 06:13:33,047 INFO [localhost-startStop-1] [TransportConnector] Connector http://localhost/bamboo/jmsServlet started
2018-01-25 06:13:33,404 WARN [localhost-startStop-1] [EhCacheHelper] No PeerProviders configured in ehcache, replication cannot be configured for non-local cache
2018-01-25 06:13:33,698 INFO [mail-queue-processor-pool-14-thread-1] [EmailService] Successfully initialised mail queue processor
2018-01-25 06:13:34,259 INFO [localhost-startStop-1] [RemoteAgentManagerImpl] Heartbeat timeout for remote agents: 600 seconds.
2018-01-25 06:13:34,339 INFO [localhost-startStop-1] [TransportConnector] Connector vm://bamboo started
Security framework of XStream not initialized, XStream is probably vulnerable.
2018-01-25 06:13:36,246 WARN [localhost-startStop-1] [ResourceResolver] Unable to find resource bamboo-capabilities.properties
2018-01-25 06:13:36,256 INFO [localhost-startStop-1] [DefaultAgentCapabilityManagerImpl] Failed to load bamboo-capabilities.properties
2018-01-25 06:13:36,260 INFO [localhost-startStop-1] [lifecycle] *******************************
2018-01-25 06:13:36,260 INFO [localhost-startStop-1] [lifecycle] * System information *
2018-01-25 06:13:36,260 INFO [localhost-startStop-1] [lifecycle] *******************************
2018-01-25 06:13:36,276 INFO [localhost-startStop-1] [lifecycle] com.atlassian.bamboo.configuration.SystemInfoImpl@1a587003[
 userName=atlassian
 userTimezone=America/New_York
 userLocale=English (United States)
 systemEncoding=UTF-8
 operatingSystem=Linux 4.2.0-16-generic
 operatingSystemArchitecture=amd64
 systemDate=Thursday, 25 Jan 2018
 systemTime=06:13:36
 tempDir=/home/atlassian/atlassian-bamboo-6.3.1/temp
 userHome=/home/atlassian
 totalMemory=765
 freeMemory=478
 usedMemory=287
 availableProcessors=8
 startupTimestamp=1516878814256
 currentDirectory=/home/atlassian/atlassian-bamboo-6.3.1/bin
 applicationHome=/home/atlassian/bamboo.home
 buildWorkingDirectory=/home/atlassian/bamboo.home/xml-data/build-dir
 currentDate=Thu Jan 25 06:13:36 EST 2018
 freeDiskSpace=121338336
 hostName=localhost
 ipAddress=127.0.0.1
]
2018-01-25 06:13:37,178 INFO [localhost-startStop-1] [QuartzScheduler] Scheduler scheduler_$_NON_CLUSTERED started.
2018-01-25 06:13:37,186 INFO [localhost-startStop-1] [UpgradeLauncher] Starting UpgradeLauncher
2018-01-25 06:13:37,186 INFO [localhost-startStop-1] [UpgradeLauncher] Updating database schema...
2018-01-25 06:13:37,707 INFO [localhost-startStop-1] [BambooSchemaHelper] Applying schema fixups, it's safe to ignore any problems listed below...
25-Jan-2018 06:13:37.903 SEVERE [localhost-startStop-1] org.apache.catalina.core.StandardContext.startInternal One or more listeners failed to start. Full details will be found in the appropriate container log file
25-Jan-2018 06:13:37.906 SEVERE [localhost-startStop-1] org.apache.catalina.core.StandardContext.startInternal Context [] startup failed due to previous errors
2018-01-25 06:13:37,917 INFO [localhost-startStop-1] [QuartzScheduler] Scheduler scheduler_$_NON_CLUSTERED paused.
2018-01-25 06:13:37,920 INFO [localhost-startStop-1] [SVNClientManagerFactory] Destroying SVNClientManagerFactories...
2018-01-25 06:13:44,226 INFO [localhost-startStop-1] [ShutdownEnforcer] Container being shut down: starting last-resort termination thread.
2018-01-25 06:13:44,283 INFO [localhost-startStop-1] [AgentManagerImpl] Stopping all local agents...
2018-01-25 06:13:44,288 INFO [localhost-startStop-1] [TransportConnector] Connector vm://bamboo stopped
2018-01-25 06:13:44,291 INFO [localhost-startStop-1] [QuartzScheduler] Scheduler scheduler_$_NON_CLUSTERED shutting down.
2018-01-25 06:13:44,291 INFO [localhost-startStop-1] [QuartzScheduler] Scheduler scheduler_$_NON_CLUSTERED paused.
2018-01-25 06:13:44,291 INFO [localhost-startStop-1] [QuartzScheduler] Scheduler scheduler_$_NON_CLUSTERED shutdown complete.
2018-01-25 06:13:44,295 INFO [localhost-startStop-1] [BrokerService] Apache ActiveMQ 5.14.5 (bamboo, ID:armantafs026-36260-1516878806631-0:1) is shutting down

[Deleted user]

Could permissions be an issue?

[Alexey Chystoprudov]

Well, the most interesting part here is this line

25-Jan-2018 06:13:37.903 SEVERE [localhost-startStop-1] org.apache.catalina.core.StandardContext.startInternal One or more listeners failed to start. Full details will be found in the appropriate container log file

So look at catalina.out logs if it contains any errors.

Also validation tasks says you use MySQL 5.5.13, but Bamboo 6.3.1 requires MySQL 5.6.3+

[Deleted user]

I suspect this is significant. We are using java 1.8. Perhaps that changed?

java.lang.AbstractMethodError: com.mysql.jdbc.JDBC4Connection.getSchema()Ljava/lang/String;
 at com.mchange.v2.c3p0.impl.NewProxyConnection.getSchema(NewProxyConnection.java:1642)
 at com.atlassian.bamboo.utils.db.AbstractDbmsBean.getSchemaUncached(AbstractDbmsBean.java:419)
 at com.atlassian.bamboo.utils.db.AbstractDbmsBean.getSchema(AbstractDbmsBean.java:411)
 at com.atlassian.bamboo.utils.db.AbstractDbmsBean.getColumns(AbstractDbmsBean.java:357)
 at com.atlassian.bamboo.utils.db.AbstractDbmsBean.getColumnDefinition(AbstractDbmsBean.java:395)
 at com.atlassian.bamboo.utils.db.AbstractDbmsBean.changeColumnToNotNull(AbstractDbmsBean.java:306)
 at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
 at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
 at java.lang.reflect.Method.invoke(Method.java:498)
 at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:333)
 at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207)
 at com.sun.proxy.$Proxy83.changeColumnToNotNull(Unknown Source)
 at com.atlassian.bamboo.hibernate.BambooSchemaHelper.lambda$null$0(BambooSchemaHelper.java:96)
 at org.hibernate.jdbc.WorkExecutor.executeWork(WorkExecutor.java:37)
 at org.hibernate.internal.SessionImpl$1.accept(SessionImpl.java:2321)
 at org.hibernate.internal.SessionImpl$1.accept(SessionImpl.java:2318)
 at org.hibernate.engine.jdbc.internal.JdbcCoordinatorImpl.coordinateWork(JdbcCoordinatorImpl.java:314)
 at org.hibernate.internal.SessionImpl.doWork(SessionImpl.java:2340)
 at org.hibernate.internal.SessionImpl.doWork(SessionImpl.java:2325)
 at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
 at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
 at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
 at java.lang.reflect.Method.invoke(Method.java:498)
 at org.springframework.orm.hibernate5.HibernateTemplate$CloseSuppressingInvocationHandler.invoke(HibernateTemplate.java:1284)
 at com.sun.proxy.$Proxy267.doWork(Unknown Source)
 at com.atlassian.bamboo.hibernate.BambooSchemaHelper.doWork(BambooSchemaHelper.java:103)
 at com.atlassian.bamboo.hibernate.BambooSchemaHelper.lambda$applySchemaFixups$1(BambooSchemaHelper.java:96)
 at org.springframework.orm.hibernate5.HibernateTemplate.doExecute(HibernateTemplate.java:359)
 at org.springframework.orm.hibernate5.HibernateTemplate.execute(HibernateTemplate.java:313)
 at org.springframework.orm.hibernate5.HibernateTemplate$$FastClassBySpringCGLIB$$6a61e9cc.invoke(<generated>)
 at org.springframework.cglib.proxy.MethodProxy.invoke(MethodProxy.java:204)
 at org.springframework.aop.framework.CglibAopProxy$DynamicAdvisedInterceptor.intercept(CglibAopProxy.java:652)
 at org.springframework.orm.hibernate5.HibernateTemplate$$EnhancerBySpringCGLIB$$777ff295.execute(<generated>)
 at com.atlassian.bamboo.hibernate.BambooSchemaHelper.applySchemaFixups(BambooSchemaHelper.java:95)

[Deleted user]

I believe this was all about the mysql driver being out of date. Not sure why I didn't see this before.

Anyway I am good now.

Just want to say that you guys kick ass. Your products are pretty incredible, keep it going, huge fan.

[Alexey Chystoprudov]

Thank you