Synchrony startup fails with "Failed to get mem_unit from sysinfo" error

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Platform Notice: Server and Data Center Only - This article only applies to Atlassian products on the server and data center platforms.

    

Summary

After upgrading Confluence to 7.x, Synchrony is not getting start and throwing below error in the logs

The following is found in atlassian-confluence.log

2020-03-20 14:30:29,874 WARN [lifecycle:thread-16] [plugins.synchrony.bootstrap.SynchronyInteropBootstrap] onStart An exception occurred while waiting for Synchrony to start: java.lang.UnsatisfiedLinkError: /home/confluence/.cache/JNA/temp/jna12881934674336678335.tmp: /home/confluence/.cache/JNA/temp/jna12881934674336678335.tmp: failed to map segment from shared object: Operation not permitted
2020-03-20 14:47:11,572 ERROR [Long running task: EnableTask] [confluence.util.longrunning.ConfluenceAbstractLongRunningTask] run Long running task "EnableTask" failed to run.
 -- url: /confluence/rest/synchrony-interop/enable | referer: https://t-conflu-app0.bnppua.net.intra/confluence/admin/confluence-collaborative-editor-plugin/configure.action | traceId: 20f1129098170d20 | userName: admin2
java.lang.NoClassDefFoundError: Could not initialize class oshi.jna.platform.linux.Libc
	at oshi.software.os.linux.LinuxOperatingSystem.getProcessId(LinuxOperatingSystem.java:344)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.getConfluenceProcessId(DefaultSynchronyProcessManager.java:702)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.setupEnvironment(DefaultSynchronyProcessManager.java:391)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.trySetup(DefaultSynchronyProcessManager.java:709)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.lambda$startProcess$1(DefaultSynchronyProcessManager.java:603)
	at java.base/java.util.concurrent.FutureTask.run(Unknown Source)
	at java.base/java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(Unknown Source)
	at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
	at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
	at java.base/java.lang.Thread.run(Unknown Source)
2020-03-20 14:49:09,179 ERROR [diagnostics-os-thread] [hardware.platform.linux.LinuxGlobalMemory] <init> Failed to get mem_unit from sysinfo. {}
java.lang.NoClassDefFoundError: Could not initialize class com.sun.jna.platform.linux.LibC$Sysinfo
	at oshi.hardware.platform.linux.LinuxGlobalMemory.<init>(LinuxGlobalMemory.java:62)
	at oshi.hardware.platform.linux.LinuxHardwareAbstractionLayer.getMemory(LinuxHardwareAbstractionLayer.java:59)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.getAvailableMemory(OperatingSystemMonitor.java:211)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.checkFreeMemory(OperatingSystemMonitor.java:158)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.lambda$startMonitorThread$1(OperatingSystemMonitor.java:122)
	at java.base/java.lang.Thread.run(Unknown Source)
2020-03-20 14:51:09,182 ERROR [diagnostics-os-thread] [hardware.platform.linux.LinuxGlobalMemory] <init> Failed to get mem_unit from sysinfo. {}
java.lang.NoClassDefFoundError: Could not initialize class com.sun.jna.platform.linux.LibC$Sysinfo
	at oshi.hardware.platform.linux.LinuxGlobalMemory.<init>(LinuxGlobalMemory.java:62)
	at oshi.hardware.platform.linux.LinuxHardwareAbstractionLayer.getMemory(LinuxHardwareAbstractionLayer.java:59)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.getAvailableMemory(OperatingSystemMonitor.java:211)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.checkFreeMemory(OperatingSystemMonitor.java:158)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.lambda$startMonitorThread$1(OperatingSystemMonitor.java:122)
	at java.base/java.lang.Thread.run(Unknown Source)
2020-03-20 14:53:09,183 ERROR [diagnostics-os-thread] [hardware.platform.linux.LinuxGlobalMemory] <init> Failed to get mem_unit from sysinfo. {}
java.lang.NoClassDefFoundError: Could not initialize class com.sun.jna.platform.linux.LibC$Sysinfo
	at oshi.hardware.platform.linux.LinuxGlobalMemory.<init>(LinuxGlobalMemory.java:62)
	at oshi.hardware.platform.linux.LinuxHardwareAbstractionLayer.getMemory(LinuxHardwareAbstractionLayer.java:59)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.getAvailableMemory(OperatingSystemMonitor.java:211)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.checkFreeMemory(OperatingSystemMonitor.java:158)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.lambda$startMonitorThread$1(OperatingSystemMonitor.java:122)
	at java.base/java.lang.Thread.run(Unknown Source)


Environment

  • Confluence version 7.x onwards

  • Linux / Unix like Operating system

Step to Reproduce

  • Install Confluence for ex: 7.x in the Linux OS where Confluence home is in /home and Confluence install is in /dev .

  • Mount /home to exec permission using below command and check the permission after that

$ mount --bind /home /home
$ mount -o remount,exec /home

  • With this Configuration, Synchrony get started properly


  • Now let’s Change /home to noexec using below command, Stop Confluence and execute below command,
$ mount -o remount,noexec /home


  • After this change, restart the Confluence,
  • Confluence started but Synchrony failed to start with below error,
2020-04-04 18:13:12,561 ERROR [StartEventPublisher:thread-1] [hardware.platform.linux.LinuxGlobalMemory] <init> Failed to get mem_unit from sysinfo. {}
java.lang.UnsatisfiedLinkError: /home/hemant/.cache/JNA/temp/jna40762817292981485.tmp: /home/hemant/.cache/JNA/temp/jna40762817292981485.tmp: failed to map segment from shared object
	at java.lang.ClassLoader$NativeLibrary.load(Native Method)
	at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1946)
	at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1828)
	at java.lang.Runtime.load0(Runtime.java:810)
	at java.lang.System.load(System.java:1088)
	at com.sun.jna.Native.loadNativeDispatchLibraryFromClasspath(Native.java:1018)
	at com.sun.jna.Native.loadNativeDispatchLibrary(Native.java:988)
	at com.sun.jna.Native.<clinit>(Native.java:195)
	at com.sun.jna.NativeLong.<clinit>(NativeLong.java:35)
	at com.sun.jna.platform.linux.LibC$Sysinfo.<clinit>(LibC.java:48)

2020-04-04 18:14:59,078 ERROR [Long running task: EnableTask] [confluence.util.longrunning.ConfluenceAbstractLongRunningTask] run Long running task "EnableTask" failed to run.
 -- url: /rest/synchrony-interop/enable | referer: http://192.168.1.8:8090/admin/confluence-collaborative-editor-plugin/configure.action | traceId: 80bbe0e1a4d102dd | userName: admin
java.lang.NoClassDefFoundError: Could not initialize class oshi.jna.platform.linux.Libc
	at oshi.software.os.linux.LinuxOperatingSystem.getProcessId(LinuxOperatingSystem.java:344)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.getConfluenceProcessId(DefaultSynchronyProcessManager.java:702)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.setupEnvironment(DefaultSynchronyProcessManager.java:391)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.trySetup(DefaultSynchronyProcessManager.java:709)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.lambda$startProcess$1(DefaultSynchronyProcessManager.java:603)

2020-04-04 18:16:07,990 ERROR [diagnostics-os-thread] [hardware.platform.linux.LinuxGlobalMemory] <init> Failed to get mem_unit from sysinfo. {}
java.lang.NoClassDefFoundError: Could not initialize class com.sun.jna.platform.linux.LibC$Sysinfo
	at oshi.hardware.platform.linux.LinuxGlobalMemory.<init>(LinuxGlobalMemory.java:62)
	at oshi.hardware.platform.linux.LinuxHardwareAbstractionLayer.getMemory(LinuxHardwareAbstractionLayer.java:59)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.getAvailableMemory(OperatingSystemMonitor.java:211)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.checkFreeMemory(OperatingSystemMonitor.java:158)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.lambda$startMonitorThread$1(OperatingSystemMonitor.java:122)
	at java.lang.Thread.run(Thread.java:748)

Expected Result

Synchrony should start properly without checking mount point permission. Before Confluence 7.1.x , the issue is not reproducible. If the mount has noexec, Synchrony is getting started without any problem.

Actual Result

User is unable to start the Synchrony and getting below error with Confluence version 7.x.x

2020-04-04 18:13:12,561 ERROR [StartEventPublisher:thread-1] [hardware.platform.linux.LinuxGlobalMemory] <init> Failed to get mem_unit from sysinfo. {}
java.lang.UnsatisfiedLinkError: /home/hemant/.cache/JNA/temp/jna40762817292981485.tmp: /home/hemant/.cache/JNA/temp/jna40762817292981485.tmp: failed to map segment from shared object
	at java.lang.ClassLoader$NativeLibrary.load(Native Method)
	at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1946)
	at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1828)
	at java.lang.Runtime.load0(Runtime.java:810)
	at java.lang.System.load(System.java:1088)
	at com.sun.jna.Native.loadNativeDispatchLibraryFromClasspath(Native.java:1018)
	at com.sun.jna.Native.loadNativeDispatchLibrary(Native.java:988)
	at com.sun.jna.Native.<clinit>(Native.java:195)
	at com.sun.jna.NativeLong.<clinit>(NativeLong.java:35)
	at com.sun.jna.platform.linux.LibC$Sysinfo.<clinit>(LibC.java:48)
	
	at java.lang.Thread.run(Thread.java:748)
2020-04-04 18:14:59,078 ERROR [Long running task: EnableTask] [confluence.util.longrunning.ConfluenceAbstractLongRunningTask] run Long running task "EnableTask" failed to run.
 -- url: /rest/synchrony-interop/enable | referer: http://192.168.1.8:8090/admin/confluence-collaborative-editor-plugin/configure.action | traceId: 80bbe0e1a4d102dd | userName: admin
java.lang.NoClassDefFoundError: Could not initialize class oshi.jna.platform.linux.Libc
	at oshi.software.os.linux.LinuxOperatingSystem.getProcessId(LinuxOperatingSystem.java:344)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.getConfluenceProcessId(DefaultSynchronyProcessManager.java:702)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.setupEnvironment(DefaultSynchronyProcessManager.java:391)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.trySetup(DefaultSynchronyProcessManager.java:709)
	at com.atlassian.confluence.plugins.synchrony.bootstrap.DefaultSynchronyProcessManager.lambda$startProcess$1(DefaultSynchronyProcessManager.java:603)
	
2020-04-04 18:16:07,990 ERROR [diagnostics-os-thread] [hardware.platform.linux.LinuxGlobalMemory] <init> Failed to get mem_unit from sysinfo. {}
java.lang.NoClassDefFoundError: Could not initialize class com.sun.jna.platform.linux.LibC$Sysinfo
	at oshi.hardware.platform.linux.LinuxGlobalMemory.<init>(LinuxGlobalMemory.java:62)
	at oshi.hardware.platform.linux.LinuxHardwareAbstractionLayer.getMemory(LinuxHardwareAbstractionLayer.java:59)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.getAvailableMemory(OperatingSystemMonitor.java:211)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.checkFreeMemory(OperatingSystemMonitor.java:158)
	at com.atlassian.confluence.internal.diagnostics.OperatingSystemMonitor.lambda$startMonitorThread$1(OperatingSystemMonitor.java:122)
	at java.lang.Thread.run(Thread.java:748)

Cause

This error seems to be Confluence User Home is mounted on noexec permission mount point.

Workaround

Confluence Bug for the same issue,

CONFSERVER-59815 - Getting issue details... STATUS

There are 2 workarounds to fix this issue,

1.) Remount /home as exec permission. For this use below command,

$ mount -o remount,exec /home

2.) Transfer Confluence Home directory to another File system which has exec permission.

Last modified on Jun 10, 2020

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