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Details

Type: Bug
Resolution: Fixed
Priority: Medium
Fix Version/s: 6.2.2, 6.2.3, 6.3-OD-2
Affects Version/s: 6.1.7, 6.2, 6.2.1
Component/s: Indexing
Labels:
- affects-server
- warranty

Introduced in Version:
6.01
Bug Fix Policy:
View Atlassian Server bug fix policy

Description

Summary

Attempting to reindex JIRA fails with the below exception. This does not fail for all issues, only a couple. It also causes JIRA Agile's upgrade tasks to fail, as tracked in ~~GHS-10348~~.

Environment

Java 7

Steps to Reproduce

Restore an instance with problematic data.
Install JIRA Agile and upgrade.

Expected Results

The reindex completes without error.

Actual Results

The below exception is thrown:

2014-02-04 11:31:28,768 JiraTaskExectionThread-2 ERROR admin 685x278x1 o72kxu 127.0.0.1 /secure/admin/jira/IndexReIndex.jspa [jira.util.index.CompositeIndexLifecycleManager] Reindex All FAILED.  Indexer: DefaultIndexManager: paths: [/Users/dcurrie/deployments/jira617/jira-home/caches/indexes/comments, /Users/dcurrie/deployments/jira617/jira-home/caches/indexes/issues, /Users/dcurrie/deployments/jira617/jira-home/caches/indexes/changes]
com.atlassian.jira.index.IndexingFailureException: Indexing completed with 3 errors
	at com.atlassian.jira.index.AccumulatingResultBuilder$CompositeResult.await(AccumulatingResultBuilder.java:147)
	at com.atlassian.jira.issue.index.DefaultIndexManager.doIndexIssuesInBatchMode(DefaultIndexManager.java:877)
	at com.atlassian.jira.issue.index.DefaultIndexManager.doStopTheWorldReindex(DefaultIndexManager.java:844)
	at com.atlassian.jira.issue.index.DefaultIndexManager.reIndexAll(DefaultIndexManager.java:307)
	at com.atlassian.jira.issue.index.DefaultIndexManager.reIndexAll(DefaultIndexManager.java:272)
	at com.atlassian.jira.issue.index.DefaultIndexManager.reIndexAll(DefaultIndexManager.java:267)  <+3> (NativeMethodAccessorImpl.java:57) (DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:606)
	at com.atlassian.util.profiling.object.ObjectProfiler.profiledInvoke(ObjectProfiler.java:83)
	at com.atlassian.jira.config.component.SwitchingInvocationHandler.invoke(SwitchingInvocationHandler.java:28)
	at com.sun.proxy.$Proxy140.reIndexAll(Unknown Source)
	at com.atlassian.jira.util.index.CompositeIndexLifecycleManager.reIndexAll(CompositeIndexLifecycleManager.java:56)
	at com.atlassian.jira.web.action.admin.index.ReIndexAsyncIndexerCommand.doReindex(ReIndexAsyncIndexerCommand.java:28)
	at com.atlassian.jira.web.action.admin.index.AbstractAsyncIndexerCommand.call(AbstractAsyncIndexerCommand.java:54)
	at com.atlassian.jira.web.action.admin.index.ReIndexAsyncIndexerCommand.call(ReIndexAsyncIndexerCommand.java:16)
	at com.atlassian.jira.web.action.admin.index.AbstractAsyncIndexerCommand.call(AbstractAsyncIndexerCommand.java:23)
	at com.atlassian.jira.task.TaskManagerImpl$TaskCallableDecorator.call(TaskManagerImpl.java:374)
	at java.util.concurrent.FutureTask.run(FutureTask.java:262)
	at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:471)
	at java.util.concurrent.FutureTask.run(FutureTask.java:262)
	at com.atlassian.jira.task.ForkedThreadExecutor$ForkedRunnableDecorator.run(ForkedThreadExecutor.java:250)
	at java.lang.Thread.run(Thread.java:744)

Tracking back into the logs reveals that exceptions were thrown during the indexing (the timestamp on this log is different however it's the same problem):

2014-03-08 21:07:32,716 JiraTaskExectionThread-1 WARN captain.planet 1267x112x1 h86sjy 74.57.203.161,127.0.0.1 /secure/admin/IndexReIndex.jspa [atlassian.jira.index.AccumulatingResultBuilder] java.util.concurrent.ExecutionException: java.lang.IllegalArgumentException: Comparison method violates its general contract!

Notes

It is important to note that indexing mostly finishes. It seems to fail for one or more issues that throws that exception.

Solution

Upgrade JIRA to 6.2.3+ using the instructions at Upgrading JIRA.

Workaround

Some customers have reported that reindexing has worked after upgrading to Java 1.7_u51. To check if this works for you, download the new Java and declare your JAVA_HOME variable in bin/setenv.bat (Windows) or bin/setenv.sh before you restart JIRA. Downtime is required to restart JIRA and re-index.
Downgrade Java to 1.6, perform the index, then switch JIRA back to 1.7. We recommend to do this only do this if there is no other option. Switching to Java 6 will allow the issues to be indexed. Please note that Java 6 is not supported in later versions of JIRA as per Supported Platforms. Downtime is required for two JIRA restarts and an indexing.

Attachments

Issue Links

causes

JSWSERVER-10348 Attempting to upgrade JIRA Agile fails with java.lang.IllegalArgumentException: Comparison method violates its general contract!

Closed

relates to

JRASERVER-35840 AccumulatingResultBuilder needs to provide a way to get full stack traces during reindex

Closed

was cloned as

JRASERVER-37822 Reindex all fails with an com.atlassian.jira.index.IndexingFailureException using Java 7

Closed

JDEV-27633 Loading...

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(5 mentioned in)

Reindex all fails with an com.atlassian.jira.index.IndexingFailureException using Java 7