Bitbucket Server could not create the merge diff for this pull request

[Tripline]

Users started to see this error after a restart of the Linux server. 

Bitbucket Server could not create the merge diff for this pull request. To resolve this warning you could try to push a new commit to update the pull request, attempt to merge the pull request anyway...

Manually pulling the PR as a fix isn't something we want to do moving forward.

I looked at the logs and it shows Please clone 'X', checkout 'Y' and merge 'Z' (or commit '1da27846f205f3a54c8270d355716e61d86c7ddd') manually, resolving any conflicts, and push the result.

a bit further in the logs says

Caused by: com.atlassian.bitbucket.scm.CommandFailedException: '/usr/bin/git merge -m Automatic merge --no-ff --no-log --allow-unrelated-histories 1da27846f205f3a54c8270d355716e61d86c7ddd' exited with code 128 saying: error: add_cacheinfo failed to refresh for path 'src/Common/Utilities/Serializers/LevelEditor/CompartmentV2.h'; merge aborting.

Caused by: com.atlassian.utils.process.ProcessException: Non-zero exit code: 128

[Caterina Curti]

Hi @Tripline,

Could you the entire stack trace around the CommandFailedException so that we can see the exact code path that is being executed and is failing?

We will also need the following details:

- Bitbucket Server version

- Git version installed on the server and used by Bitbucket Server. You can get this by browsing to <Bitbucket URL>/plugins/servlet/troubleshooting/view and searching for Git on the page.

Cheers,

Caterina - Atlassian

[Tripline]

Bitbucket 5.8.0 Git 2.18.0
2018-07-13 00:29:10,184 INFO [http-nio-7990-exec-65] BGreen @4IK5R3x29x158105x0 6jaa5j 192.168.1.9 "GET /rest/api/latest/projects/BCAD/repos/beastcad/pull-requests/36/merge HTTP/1.1" c.a.s.i.s.g.p.DefaultPullRequestAutoMergeStrategy BCAD/beastcad[36]: Pull request 36@2 failed automatic merging
com.atlassian.bitbucket.scm.MergeException: The merge could not be completed automatically. Please clone 'BCAD/beastcad', checkout 'develop' and merge 'bugfix/Fix_Chunk_Exporter_Not_Exporting' (or commit '5e41074dd93ef20b1c73b0aeaae927562fa62dc7') manually, resolving any conflicts, and push the result.
at com.atlassian.stash.internal.scm.git.merge.MergeCommand.newMergeException(MergeCommand.java:190)
at com.atlassian.stash.internal.scm.git.merge.MergeCommand.doWithWorkTree(MergeCommand.java:184)
at com.atlassian.stash.internal.scm.git.merge.MergeCommand.call(MergeCommand.java:74)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestAutoMergeStrategy.doMerge(DefaultPullRequestAutoMergeStrategy.java:108)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestAutoMergeStrategy.merge(DefaultPullRequestAutoMergeStrategy.java:76)
at com.atlassian.stash.internal.scm.git.pull.CompositePullRequestAutoMergeStrategy.merge(CompositePullRequestAutoMergeStrategy.java:22)
at com.atlassian.stash.internal.scm.git.pull.CachingPullRequestAutoMergeStrategy.merge(CachingPullRequestAutoMergeStrategy.java:52)
at com.atlassian.stash.internal.scm.git.pull.CompositePullRequestAutoMergeStrategy.merge(CompositePullRequestAutoMergeStrategy.java:22)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper.resolveNewEffectiveDiff(DefaultPullRequestRefHelper.java:421)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper.access$500(DefaultPullRequestRefHelper.java:52)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper$EffectiveDiffOperation.perform(DefaultPullRequestRefHelper.java:541)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper$EffectiveDiffOperation.perform(DefaultPullRequestRefHelper.java:506)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper$AbstractOperation.perform(DefaultPullRequestRefHelper.java:472)
at com.atlassian.stash.internal.concurrent.ClusterMappedLock.withLock(ClusterMappedLock.java:49)
at com.atlassian.stash.internal.concurrent.ClusterPullRequestLock.withLock(ClusterPullRequestLock.java:25)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper.withLock(DefaultPullRequestRefHelper.java:454)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper.access$300(DefaultPullRequestRefHelper.java:52)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper$EffectiveDiffOperation.call(DefaultPullRequestRefHelper.java:518)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper$EffectiveDiffOperation.call(DefaultPullRequestRefHelper.java:506)
at java.util.concurrent.FutureTask.run(FutureTask.java:266)
at com.atlassian.util.concurrent.ConcurrentOperationMapImpl$CallerRunsFuture.get(ConcurrentOperationMapImpl.java:63)
at com.atlassian.util.concurrent.ConcurrentOperationMapImpl.runOperation(ConcurrentOperationMapImpl.java:51)
at com.atlassian.stash.internal.scm.git.pull.DefaultPullRequestRefHelper.resolveEffectiveDiff(DefaultPullRequestRefHelper.java:128)
at com.atlassian.stash.internal.scm.git.DefaultGitPullRequestCommandFactory$2.call(DefaultGitPullRequestCommandFactory.java:205)
at com.atlassian.stash.internal.scm.git.DefaultGitPullRequestCommandFactory$2.call(DefaultGitPullRequestCommandFactory.java:200)
at com.atlassian.stash.internal.pull.DefaultMergeRequestCheckService.tryMerge(DefaultMergeRequestCheckService.java:73)
at com.atlassian.stash.internal.pull.DefaultMergeRequestCheckService.checkMergeability(DefaultMergeRequestCheckService.java:50)
at com.atlassian.stash.internal.pull.DefaultPullRequestService.canMerge(DefaultPullRequestService.java:247)
at com.atlassian.plugin.util.ContextClassLoaderSettingInvocationHandler.invoke(ContextClassLoaderSettingInvocationHandler.java:26)
at org.eclipse.gemini.blueprint.service.importer.support.internal.aop.ServiceInvoker.doInvoke(ServiceInvoker.java:56)
at org.eclipse.gemini.blueprint.service.importer.support.internal.aop.ServiceInvoker.invoke(ServiceInvoker.java:60)
at org.eclipse.gemini.blueprint.service.util.internal.aop.ServiceTCCLInterceptor.invokeUnprivileged(ServiceTCCLInterceptor.java:70)
at org.eclipse.gemini.blueprint.service.util.internal.aop.ServiceTCCLInterceptor.invoke(ServiceTCCLInterceptor.java:53)
at org.eclipse.gemini.blueprint.service.importer.support.LocalBundleContextAdvice.invoke(LocalBundleContextAdvice.java:57)
at com.atlassian.stash.internal.rest.pull.PullRequestResource.canMerge(PullRequestResource.java:480)
at com.atlassian.applinks.core.rest.context.ContextFilter.doFilter(ContextFilter.java:24)
at com.atlassian.applinks.core.rest.context.ContextFilter.doFilter(ContextFilter.java:24)
at com.atlassian.applinks.core.rest.context.ContextFilter.doFilter(ContextFilter.java:24)
at com.atlassian.applinks.core.rest.context.ContextFilter.doFilter(ContextFilter.java:24)
at com.atlassian.applinks.core.rest.context.ContextFilter.doFilter(ContextFilter.java:24)
at com.atlassian.analytics.client.filter.UniversalAnalyticsFilter.doFilter(UniversalAnalyticsFilter.java:92)
at com.atlassian.analytics.client.filter.AbstractHttpFilter.doFilter(AbstractHttpFilter.java:39)
at com.atlassian.stash.internal.spring.lifecycle.LifecycleJohnsonServletFilterModuleContainerFilter.doFilter(LifecycleJohnsonServletFilterModuleContainerFilter.java:42)
at com.atlassian.plugin.connect.plugin.auth.scope.ApiScopingFilter.doFilter(ApiScopingFilter.java:81)
at com.atlassian.stash.internal.spring.lifecycle.LifecycleJohnsonServletFilterModuleContainerFilter.doFilter(LifecycleJohnsonServletFilterModuleContainerFilter.java:42)
at com.atlassian.stash.internal.spring.security.StashAuthenticationFilter.doFilter(StashAuthenticationFilter.java:85)
at com.atlassian.stash.internal.web.auth.BeforeLoginPluginAuthenticationFilter.doInsideSpringSecurityChain(BeforeLoginPluginAuthenticationFilter.java:112)
at com.atlassian.stash.internal.web.auth.BeforeLoginPluginAuthenticationFilter.doFilter(BeforeLoginPluginAuthenticationFilter.java:75)
at com.atlassian.security.auth.trustedapps.filter.TrustedApplicationsFilter.doFilter(TrustedApplicationsFilter.java:94)
at com.atlassian.oauth.serviceprovider.internal.servlet.OAuthFilter.doFilter(OAuthFilter.java:67)
at com.atlassian.stash.internal.spring.lifecycle.LifecycleJohnsonServletFilterModuleContainerFilter.doFilter(LifecycleJohnsonServletFilterModuleContainerFilter.java:42)
at com.atlassian.plugin.connect.plugin.auth.oauth2.DefaultSalAuthenticationFilter.doFilter(DefaultSalAuthenticationFilter.java:69)
at com.atlassian.plugin.connect.plugin.auth.user.ThreeLeggedAuthFilter.doFilter(ThreeLeggedAuthFilter.java:109)
at com.atlassian.jwt.internal.servlet.JwtAuthFilter.doFilter(JwtAuthFilter.java:32)
at com.atlassian.analytics.client.filter.DefaultAnalyticsFilter.doFilter(DefaultAnalyticsFilter.java:38)
at com.atlassian.analytics.client.filter.AbstractHttpFilter.doFilter(AbstractHttpFilter.java:39)
at com.atlassian.stash.internal.spring.lifecycle.LifecycleJohnsonServletFilterModuleContainerFilter.doFilter(LifecycleJohnsonServletFilterModuleContainerFilter.java:42)
at com.atlassian.stash.internal.web.auth.BeforeLoginPluginAuthenticationFilter.doBeforeBeforeLoginFilters(BeforeLoginPluginAuthenticationFilter.java:90)
at com.atlassian.stash.internal.web.auth.BeforeLoginPluginAuthenticationFilter.doFilter(BeforeLoginPluginAuthenticationFilter.java:73)
at com.atlassian.stash.internal.request.DefaultRequestManager.doAsRequest(DefaultRequestManager.java:89)
at com.atlassian.stash.internal.hazelcast.ConfigurableWebFilter.doFilter(ConfigurableWebFilter.java:38)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.lang.Thread.run(Thread.java:745)
... 310 frames trimmed
Caused by: com.atlassian.bitbucket.scm.CommandFailedException: '/usr/bin/git merge -m Automatic merge --no-ff --no-log --allow-unrelated-histories 5e41074dd93ef20b1c73b0aeaae927562fa62dc7' exited with code 128 saying: error: add_cacheinfo failed to refresh for path 'src/Common/Utilities/Serializers/LevelEditor/CompartmentV2.h'; merge aborting.
at com.atlassian.bitbucket.scm.DefaultCommandExitHandler.onError(DefaultCommandExitHandler.java:46)
at com.atlassian.bitbucket.scm.git.command.GitCommandExitHandler.evaluateThrowable(GitCommandExitHandler.java:104)
at com.atlassian.bitbucket.scm.git.command.GitCommandExitHandler.onError(GitCommandExitHandler.java:201)
at com.atlassian.bitbucket.scm.DefaultCommandExitHandler.onExit(DefaultCommandExitHandler.java:31)
at com.atlassian.bitbucket.scm.BaseCommand.callExitHandler(BaseCommand.java:146)
at com.atlassian.bitbucket.scm.BaseCommand$CommandFuture.internalGet(BaseCommand.java:280)
at com.atlassian.bitbucket.scm.BaseCommand$CommandFuture.get(BaseCommand.java:244)
at com.atlassian.bitbucket.scm.BaseCommand.call(BaseCommand.java:83)
at com.atlassian.stash.internal.scm.git.porcelain.AbstractTimedRequest.configureAndCall(AbstractTimedRequest.java:42)
at com.atlassian.stash.internal.scm.git.merge.DefaultMergeStrategy.merge(DefaultMergeStrategy.java:57)
at com.atlassian.stash.internal.scm.git.merge.TimedMergeStrategy.merge(TimedMergeStrategy.java:37)
at com.atlassian.stash.internal.scm.git.merge.MergeCommand.doMerge(MergeCommand.java:139)
at com.atlassian.stash.internal.scm.git.pull.PullRequestAutoMergeCommand.doMerge(PullRequestAutoMergeCommand.java:105)
at com.atlassian.stash.internal.scm.git.merge.MergeCommand.doWithWorkTree(MergeCommand.java:144)
... 62 common frames omitted
Caused by: com.atlassian.utils.process.ProcessException: Non-zero exit code: 128
at com.atlassian.bitbucket.scm.SummarizingProcessHandler.complete(SummarizingProcessHandler.java:47)
at com.atlassian.utils.process.ExternalProcessImpl.wrapUpProcess(ExternalProcessImpl.java:667)
at com.atlassian.utils.process.ExternalProcessImpl.finish(ExternalProcessImpl.java:163)
at com.atlassian.bitbucket.scm.BaseCommand$CommandFuture.get(BaseCommand.java:242)
... 69 common frames omitted