[ome-users] NullPointerException in FileMaker

[Harri Jäälinoja]

Hi again,

I forgot to mention that this error is repeated once a minute:

[root at omerovm-1 ~]# grep ERROR /var/log/OMERO/Blitz-0.log |tail
2012-08-06 12:21:16,970 ERROR [.services.blitz.repo.AbstractRepositoryI] 
(2-thread-5) Unexpected error in called executor on takeover
2012-08-06 12:22:16,988 ERROR [.services.blitz.repo.AbstractRepositoryI] 
(2-thread-3) Unexpected error in called executor on takeover
2012-08-06 12:23:16,971 ERROR [.services.blitz.repo.AbstractRepositoryI] 
(2-thread-2) Unexpected error in called executor on takeover
2012-08-06 12:24:16,951 ERROR [.services.blitz.repo.AbstractRepositoryI] 
(2-thread-3) Unexpected error in called executor on takeover
2012-08-06 12:25:16,964 ERROR [.services.blitz.repo.AbstractRepositoryI] 
(2-thread-2) Unexpected error in called executor on takeover

Regards,
Harri

On 03/08/12 14:37, harri.jaalinoja at helsinki.fi wrote:
> Hello,
>
> looking at
> https://github.com/openmicroscopy/openmicroscopy/blob/master/components/blitz/src/ome/services/blitz/repo/FileMaker.java,
>
>
> the NPE is thrown because there is no lock to release:
>          try {
>                  lock.release(); // line 132
>              } catch (IOException e) {
>                  log.warn("Failed to release lock");
>              }
>
> It seems lock is only initialized if getLine() is called, otherwise it
> is null:
>
>      public String getLine() throws Exception {
>          synchronized (mutex) {
>
>              if (dbUuid == null) {
>                  throw new InternalException("Not initialized");
>              }
>
>              lock = dotLockRaf.getChannel().lock();
>
>
> So somehow the getLine call was omitted now?
>
> Cheers,
> Harri
>
>
> Quoting harri.jaalinoja at helsinki.fi:
>
>> Hello All,
>> I noticed an error in the OMERO 4.4.1 logs (on RedHat5.8). I just
>> restarted OMERO server, so this in not initiated by user action
>> (unless OMERO stores jobs over shutdown and continues them after
>> restart: yesterday I left "combine images" script running).
>>
>> The stack trace is below. Any ideas what is wrong?
>>
>> Thanks,
>> Harri
>>
>> ----
>> 2012-08-03 13:28:16,981 WARN  [
>> ome.services.util.ServiceHandler] (2-thread-4) Method interface
>> ome.services.util.Executor$Work.doWork invocation took 6043
>> 2012-08-03 13:28:16,981 ERROR
>> [.services.blitz.repo.AbstractRepositoryI] (2-thread-4) Unexpected
>> error in called executor on takeover
>> ome.conditions.InternalException:  Wrapped Exception:
>> (java.lang.NullPointerException):
>> null
>>     at ome.services.blitz.repo.FileMaker.close(FileMaker.java:132)
>>     at
>> ome.services.blitz.repo.AbstractRepositoryI$GetOrCreateRepo.doWork(AbstractRepositoryI.java:301)
>>
>>     at sun.reflect.GeneratedMethodAccessor225.invoke(Unknown Source)
>>     at
>> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
>>
>>     at java.lang.reflect.Method.invoke(Method.java:597)
>>     at
>> org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:307)
>>
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:183)
>>
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150)
>>
>>     at
>> ome.services.util.Executor$Impl$Interceptor.invoke(Executor.java:508)
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
>>
>>     at ome.security.basic.EventHandler.invoke(EventHandler.java:154)
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
>>
>>     at
>> org.springframework.orm.hibernate3.HibernateInterceptor.invoke(HibernateInterceptor.java:111)
>>
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
>>
>>     at
>> org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:108)
>>
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
>>
>>     at
>> ome.tools.hibernate.ProxyCleanupFilter$Interceptor.invoke(ProxyCleanupFilter.java:241)
>>
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
>>
>>     at ome.services.util.ServiceHandler.invoke(ServiceHandler.java:116)
>>     at
>> org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
>>
>>     at
>> org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
>>
>>     at $Proxy65.doWork(Unknown Source)
>>     at ome.services.util.Executor$Impl.execute(Executor.java:406)
>>     at ome.services.util.Executor$Impl.execute(Executor.java:350)
>>     at
>> ome.services.blitz.repo.AbstractRepositoryI.takeover(AbstractRepositoryI.java:120)
>>
>>     at sun.reflect.GeneratedMethodAccessor240.invoke(Unknown Source)
>>     at
>> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
>>
>>     at java.lang.reflect.Method.invoke(Method.java:597)
>>     at
>> org.springframework.util.MethodInvoker.invoke(MethodInvoker.java:273)
>>     at
>> org.springframework.scheduling.quartz.MethodInvokingJobDetailFactoryBean$MethodInvokingJob.executeInternal(MethodInvokingJobDetailFactoryBean.java:264)
>>
>>     at
>> org.springframework.scheduling.quartz.QuartzJobBean.execute(QuartzJobBean.java:86)
>>
>>     at org.quartz.core.JobRunShell.run(JobRunShell.java:203)
>>     at
>> java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
>>
>>     at
>> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
>>
>>     at java.lang.Thread.run(Thread.java:662)
>>
>> _______________________________________________
>> ome-users mailing list
>> ome-users at lists.openmicroscopy.org.uk
>> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>>
>
>
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