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Can't start OMERO server after uid/gid change

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Can't start OMERO server after uid/gid change

Postby ClayB » Fri Apr 24, 2015 6:00 pm

Our sysadmin ran into a problem with the omero user account that required a change in the user id and group id numbers. Obviously these are different than when the account was set up and the server (5.0.6) was installed. After the id change, the home account and all files there were updated with the new owner and group numbers. When attempting to start up the server, the process timed out.

[omero@g1 ~]$ OMERO.server/bin/omero admin start
No descriptor given. Using etc/grid/default.xml
Waiting on startup. Use CTRL-C to exit
.............................
Failed to startup some components after 300 seconds
Calling "stop" on remaining components
Waiting on shutdown. Use CTRL-C to exit
......

This makes me think that I might need to reset something else that is not in the home account.

From the example of some of the other posts like this, I've added the relevant lines from the Blitz-0.log:

Code: Select all
2015-04-24 10:19:52,153 INFO  [                ome.services.blitz.Entry] (      main) Creating OMERO.blitz. Please wait...
2015-04-24 10:19:53,095 INFO  [.s.ShutdownSafeEhcacheManagerFactoryBean] (      main) Initializing EHCache CacheManager
2015-04-24 10:19:53,348 INFO  [          ome.services.util.DBPatchCheck] (      main) Verified database patch: OMERO5.0__0
2015-04-24 10:19:53,375 INFO  [           ome.services.util.DBUserCheck] (      main) User root.id = 0
2015-04-24 10:19:53,376 INFO  [           ome.services.util.DBUserCheck] (      main) User guest.id = 1
2015-04-24 10:19:53,376 INFO  [           ome.services.util.DBUserCheck] (      main) Group system.id = 0
2015-04-24 10:19:53,376 INFO  [           ome.services.util.DBUserCheck] (      main) Group user.id = 1
2015-04-24 10:19:53,376 INFO  [           ome.services.util.DBUserCheck] (      main) Group guest.id = 2
2015-04-24 10:19:54,848 INFO  [  ome.services.fulltext.FullTextAnalyzer] (      main) Initialized FullTextAnalyzer
2015-04-24 10:19:56,818 INFO  [        ome.services.db.DatabaseIdentity] (      main) Using LSID format: urn:lsid:export.openmicroscopy.org:%s:56591a90-976f-4cb9-94c4-c5b3638e3d37_%s%s
2015-04-24 10:19:57,524 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895996858] time[665] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,599 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997524] time[74] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,682 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997599] time[83] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,724 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997683] time[41] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,751 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997726] time[25] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,776 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997752] time[24] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,800 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997776] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,824 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997800] time[24] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,849 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997824] time[24] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,873 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997849] time[24] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,897 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997873] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,921 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997897] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,945 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997921] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,969 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997945] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:57,993 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997969] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:58,019 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895997993] time[26] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:58,042 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895998019] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:58,066 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895998043] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:58,089 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895998066] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:58,112 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429895998089] time[23] tag[ome.io.nio.SimpleBackOff.256X256]
2015-04-24 10:19:58,120 INFO  [                ome.io.nio.PixelsService] (      main) Using Bio-Formats Cache: /OMERO/BioFormatsCache
2015-04-24 10:19:58,120 INFO  [                ome.io.nio.PixelsService] (      main) PixelsService(path=/OMERO/, resolver=ome.services.OmeroFilePathResolver@61757aaa, backoff=ome.io.nio.SimpleBackOff(factor=23.3), sizes=ome.io.nio.ConfiguredTileSizes(w=256,h=256,W=3192,H=3192))
2015-04-24 10:19:58,250 INFO  [    ome.services.fulltext.FullTextThread] (      main) Initializing Full-Text Indexer
2015-04-24 10:19:58,260 INFO  [  ome.services.pixeldata.PixelDataThread] (      main) Initializing PixelDataThread (create events only)
2015-04-24 10:19:58,266 INFO  [      ome.services.util.JvmSettingsCheck] (      main) Java version: 1.7.0_79; Linux; amd64; 2.6.32-431.5.1.el6.x86_64
2015-04-24 10:19:58,267 INFO  [      ome.services.util.JvmSettingsCheck] (      main) Max Memory (MB):   =   6400
2015-04-24 10:19:58,267 INFO  [      ome.services.util.JvmSettingsCheck] (      main) OS Memory (MB):    = 128957
2015-04-24 10:19:58,267 INFO  [      ome.services.util.JvmSettingsCheck] (      main) Processors:        =     16
2015-04-24 10:19:58,385 INFO  [    ome.services.util.ServerVersionCheck] (      main) -------------------------------------------------
2015-04-24 10:19:58,385 INFO  [    ome.services.util.ServerVersionCheck] (      main) OMERO Version: 5.0.6-ice35-b53 Ready.
2015-04-24 10:19:58,385 INFO  [    ome.services.util.ServerVersionCheck] (      main) -------------------------------------------------
2015-04-24 10:20:08,451 ERROR [                 ome.system.UpgradeCheck] (      main) Error reading from url: http://upgrade.openmicroscopy.org.uk?version=5.0.6-ice35-b53;os.name=Linux;os.arch=amd64;os.version=2.6.32-431.5.1.el6.x86_64;java.runtime.version=1.7.0_79-mockbuild_2015_04_15_00_02-b00;java.vm.vendor=Oracle+Corporation "connect timed out"
2015-04-24 10:20:08,456 INFO  [    ome.tools.hibernate.ExtendedMetadata] (      main) Calculating ExtendedMetadata...
2015-04-24 10:20:08,555 INFO  [      o.s.scheduler.SchedulerFactoryBean] (      main) Starting Quartz Scheduler now
2015-04-24 10:20:08,559 INFO  [        ome.services.util.ServiceHandler] (      main)  Executor.doWork -- ome.services.util.NamespaceCheck.namespaceCheck
2015-04-24 10:20:08,559 INFO  [        ome.services.util.ServiceHandler] (      main)  Args:   [null, InternalSF@1920399883]
2015-04-24 10:20:08,671 INFO  [         ome.security.basic.EventHandler] (      main)  Auth:   user=0,group=0,event=601(Internal),sess=24382d88-35e5-4709-8a5c-44d0abb0a17c
2015-04-24 10:20:08,715 INFO  [                 org.perf4j.TimingLogger] (      main) start[1429896008559] time[155] tag[omero.call.success.ome.services.util.NamespaceCheck$1.doWork]
2015-04-24 10:20:08,715 INFO  [        ome.services.util.ServiceHandler] (      main)  Rslt:   null
2015-04-24 10:20:08,877 INFO  [o.services.blitz.util.BlitzConfiguration] (      main) Initializing Ice.Communicator
2015-04-24 10:20:08,953 ERROR [o.services.blitz.util.BlitzConfiguration] (      main) Fatal error creating adapter. See the troubleshooting page
Ice.SocketException: java.net.SocketException: Protocol family unavailable
   at IceInternal.Network.doBind(Network.java:251) ~[ice.jar:na]
   at IceInternal.TcpAcceptor.<init>(TcpAcceptor.java:119) ~[ice.jar:na]
   at IceInternal.TcpEndpointI.acceptor(TcpEndpointI.java:414) ~[ice.jar:na]
   at IceInternal.IncomingConnectionFactory.<init>(IncomingConnectionFactory.java:376) ~[ice.jar:na]
   at Ice.ObjectAdapterI.<init>(ObjectAdapterI.java:1028) ~[ice.jar:na]
   at IceInternal.ObjectAdapterFactory.createObjectAdapter(ObjectAdapterFactory.java:160) ~[ice.jar:na]
   at Ice.CommunicatorI.createObjectAdapter(CommunicatorI.java:77) ~[ice.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.createAdapter(BlitzConfiguration.java:244) [blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:120) [blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:82) [blitz.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) [na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) [na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) [na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.instantiateUsingFactoryMethod(ConstructorResolver.java:344) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateUsingFactoryMethod(AbstractAutowireCapableBeanFactory.java:964) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:870) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:322) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:106) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1308) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1067) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:511) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:562) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:871) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:423) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:139) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.<init>(OmeroContext.java:103) [common.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) [na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) [na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) [na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.getBean(AbstractApplicationContext.java:1048) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:397) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.getInstance(OmeroContext.java:203) [common.jar:na]
   at ome.services.blitz.Entry.start(Entry.java:193) [blitz.jar:na]
   at ome.services.blitz.Entry.main(Entry.java:150) [blitz.jar:na]
Caused by: java.net.SocketException: Protocol family unavailable
   at sun.nio.ch.Net.bind0(Native Method) ~[na:1.7.0_79]
   at sun.nio.ch.Net.bind(Net.java:444) ~[na:1.7.0_79]
   at sun.nio.ch.Net.bind(Net.java:436) ~[na:1.7.0_79]
   at sun.nio.ch.ServerSocketChannelImpl.bind(ServerSocketChannelImpl.java:214) ~[na:1.7.0_79]
   at sun.nio.ch.ServerSocketAdaptor.bind(ServerSocketAdaptor.java:74) ~[na:1.7.0_79]
   at IceInternal.Network.doBind(Network.java:245) ~[ice.jar:na]
   ... 68 common frames omitted
2015-04-24 10:20:08,954 ERROR [            ome.services.blitz.fire.Ring] (      main) Error stopping ring ome.services.blitz.fire.Ring@767a1c46
java.lang.NullPointerException: null
   at ome.services.blitz.fire.Ring.destroy(Ring.java:201) ~[blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.destroy(BlitzConfiguration.java:286) [blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:135) [blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:82) [blitz.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) [na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) [na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) [na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.instantiateUsingFactoryMethod(ConstructorResolver.java:344) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateUsingFactoryMethod(AbstractAutowireCapableBeanFactory.java:964) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:870) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:322) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:106) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1308) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1067) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:511) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:562) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:871) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:423) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:139) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.<init>(OmeroContext.java:103) [common.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) [na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) [na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) [na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.getBean(AbstractApplicationContext.java:1048) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:397) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.getInstance(OmeroContext.java:203) [common.jar:na]
   at ome.services.blitz.Entry.start(Entry.java:193) [blitz.jar:na]
   at ome.services.blitz.Entry.main(Entry.java:150) [blitz.jar:na]
2015-04-24 10:20:08,955 ERROR [            ome.services.blitz.fire.Ring] (      main) Error signaling down to: null
java.lang.NullPointerException: null
   at ome.services.blitz.fire.Ring.destroy(Ring.java:214) ~[blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.destroy(BlitzConfiguration.java:286) [blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:135) [blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:82) [blitz.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) [na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) [na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) [na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.instantiateUsingFactoryMethod(ConstructorResolver.java:344) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateUsingFactoryMethod(AbstractAutowireCapableBeanFactory.java:964) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:870) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:322) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:106) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1308) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1067) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:511) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:562) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:871) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:423) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:139) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.<init>(OmeroContext.java:103) [common.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) [na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) [na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) [na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.getBean(AbstractApplicationContext.java:1048) [org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:397) [org.springframework.beans.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.getInstance(OmeroContext.java:203) [common.jar:na]
   at ome.services.blitz.Entry.start(Entry.java:193) [blitz.jar:na]
   at ome.services.blitz.Entry.main(Entry.java:150) [blitz.jar:na]
2015-04-24 10:20:08,955 INFO  [o.services.blitz.util.BlitzConfiguration] (      main) Shutting down Ice.Communicator
2015-04-24 10:20:08,963 ERROR [                ome.services.blitz.Entry] (      main) Error on startup.
org.springframework.beans.factory.access.BootstrapException: Unable to return specified BeanFactory instance: factory key [OMERO.blitz], from group with resource name [classpath*:beanRefContext.xml]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'OMERO.blitz' defined in URL [jar:file:/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/server/blitz.jar!/beanRefContext.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.system.OmeroContext]: Constructor threw exception; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'omero.rtypes.RTypeObjectFactoryRegistry#0' defined in class path resource [ome/services/objectfactories.xml]: Cannot resolve reference to bean 'Ice.Communicator' while setting bean property 'iceCommunicator'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'configuration' defined in URL [jar:file:/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/server/blitz.jar!/ome/services/blitz-config.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.services.blitz.util.BlitzConfiguration]: Constructor threw exception; nested exception is org.springframework.beans.FatalBeanException: Could not find Ice config for object adapter [ BlitzAdapter ]
   at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:409) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.getInstance(OmeroContext.java:203) ~[common.jar:na]
   at ome.services.blitz.Entry.start(Entry.java:193) [blitz.jar:na]
   at ome.services.blitz.Entry.main(Entry.java:150) [blitz.jar:na]
Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'OMERO.blitz' defined in URL [jar:file:/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/server/blitz.jar!/beanRefContext.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.system.OmeroContext]: Constructor threw exception; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'omero.rtypes.RTypeObjectFactoryRegistry#0' defined in class path resource [ome/services/objectfactories.xml]: Cannot resolve reference to bean 'Ice.Communicator' while setting bean property 'iceCommunicator'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'configuration' defined in URL [jar:file:/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/server/blitz.jar!/ome/services/blitz-config.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.services.blitz.util.BlitzConfiguration]: Constructor threw exception; nested exception is org.springframework.beans.FatalBeanException: Could not find Ice config for object adapter [ BlitzAdapter ]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:281) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:193) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.getBean(AbstractApplicationContext.java:1048) ~[org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.access.SingletonBeanFactoryLocator.useBeanFactory(SingletonBeanFactoryLocator.java:397) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   ... 3 common frames omitted
Caused by: org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.system.OmeroContext]: Constructor threw exception; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'omero.rtypes.RTypeObjectFactoryRegistry#0' defined in class path resource [ome/services/objectfactories.xml]: Cannot resolve reference to bean 'Ice.Communicator' while setting bean property 'iceCommunicator'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'configuration' defined in URL [jar:file:/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/server/blitz.jar!/ome/services/blitz-config.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.services.blitz.util.BlitzConfiguration]: Constructor threw exception; nested exception is org.springframework.beans.FatalBeanException: Could not find Ice config for object adapter [ BlitzAdapter ]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:141) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   ... 13 common frames omitted
Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'omero.rtypes.RTypeObjectFactoryRegistry#0' defined in class path resource [ome/services/objectfactories.xml]: Cannot resolve reference to bean 'Ice.Communicator' while setting bean property 'iceCommunicator'; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'configuration' defined in URL [jar:file:/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/server/blitz.jar!/ome/services/blitz-config.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.services.blitz.util.BlitzConfiguration]: Constructor threw exception; nested exception is org.springframework.beans.FatalBeanException: Could not find Ice config for object adapter [ BlitzAdapter ]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:328) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:106) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1308) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1067) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:511) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:562) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:871) ~[org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:423) ~[org.springframework.context.jar:3.0.1.RELEASE-A]
   at org.springframework.context.support.ClassPathXmlApplicationContext.<init>(ClassPathXmlApplicationContext.java:139) ~[org.springframework.context.jar:3.0.1.RELEASE-A]
   at ome.system.OmeroContext.<init>(OmeroContext.java:103) ~[common.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) ~[na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) ~[na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) ~[na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) ~[na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   ... 15 common frames omitted
Caused by: org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'configuration' defined in URL [jar:file:/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/server/blitz.jar!/ome/services/blitz-config.xml]: Instantiation of bean failed; nested exception is org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.services.blitz.util.BlitzConfiguration]: Constructor threw exception; nested exception is org.springframework.beans.FatalBeanException: Could not find Ice config for object adapter [ BlitzAdapter ]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:281) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.autowireConstructor(AbstractAutowireCapableBeanFactory.java:984) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:888) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.instantiateUsingFactoryMethod(ConstructorResolver.java:344) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateUsingFactoryMethod(AbstractAutowireCapableBeanFactory.java:964) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:870) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:479) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:450) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:290) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:287) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:189) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:322) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   ... 34 common frames omitted
Caused by: org.springframework.beans.BeanInstantiationException: Could not instantiate bean class [ome.services.blitz.util.BlitzConfiguration]: Constructor threw exception; nested exception is org.springframework.beans.FatalBeanException: Could not find Ice config for object adapter [ BlitzAdapter ]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:141) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:107) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   at org.springframework.beans.factory.support.ConstructorResolver.autowireConstructor(ConstructorResolver.java:273) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   ... 52 common frames omitted
Caused by: org.springframework.beans.FatalBeanException: Could not find Ice config for object adapter [ BlitzAdapter ]
   at ome.services.blitz.util.BlitzConfiguration.createAdapter(BlitzConfiguration.java:249) ~[blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:120) ~[blitz.jar:na]
   at ome.services.blitz.util.BlitzConfiguration.<init>(BlitzConfiguration.java:82) ~[blitz.jar:na]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) ~[na:1.7.0_79]
   at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:57) ~[na:1.7.0_79]
   at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) ~[na:1.7.0_79]
   at java.lang.reflect.Constructor.newInstance(Constructor.java:526) ~[na:1.7.0_79]
   at org.springframework.beans.BeanUtils.instantiateClass(BeanUtils.java:126) ~[org.springframework.beans.jar:3.0.1.RELEASE-A]
   ... 54 common frames omitted


and the master.err file:

Code: Select all
Traceback (most recent call last):
  File "lib/python/runTables.py", line 16, in <module>
    import omero.tables
  File "/mnt/app_hdd/home/omero/OMERO.server-5.0.6-ice35-b53/lib/python/omero/tables.py", line 35, in <module>
    tables = __import__("tables") # Pytables
ImportError: No module named tables
-! 04/24/15 10:20:09.301 OMERO.Glacier2: warning: unable to contact permissions verifier `BlitzVerifier@BlitzAdapters'
   Reference.cpp:1663: Ice::NoEndpointException:
   no suitable endpoint available for proxy `BlitzVerifier -t -e 1.1 @ BlitzAdapters'
-! 04/24/15 10:20:09.302 OMERO.Glacier2: warning: unable to contact session manager `BlitzManager@BlitzAdapters'
   Reference.cpp:1663: Ice::NoEndpointException:
   no suitable endpoint available for proxy `BlitzManager -t -e 1.1 @ BlitzAdapters'


This server was working before the user id problem was discovered and some test images had been uploaded.

Any ideas on what may be going wrong and how to fix this? Since we're not in production with this, yet, I can start the installation over again (now that the conflicts are resolved), but would prefer a simpler solution if possible.

Thanks.
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ClayB
 
Posts: 12
Joined: Wed Apr 08, 2015 7:16 pm
Location: Hillsboro, OR USA
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Re: Can't start OMERO server after uid/gid change

Postby manics » Mon Apr 27, 2015 8:19 am

Could you try deleting the OMERO.server/var directory? If that doesn't work, could you try setting
Code: Select all
bin/omero config set Ice.IPv6 1
(https://www.openmicroscopy.org/site/sup ... g.html#ice) since the error in your Blitz log looks similar to viewtopic.php?f=5&t=7527

Simon
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manics
Team Member
 
Posts: 261
Joined: Mon Oct 08, 2012 11:01 am
Location: Dundee
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Re: Can't start OMERO server after uid/gid change

Postby ClayB » Mon Apr 27, 2015 6:49 pm

Removing the OMERO.server/var directory did not fix the issue. Nor did setting Ice.IPv6 to 1. After both, trying to launch the server failed with a time out.

I reset the ICE.IPv6 to 0 (zero) and tried again. The server started up.

Thanks for the help.
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ClayB
 
Posts: 12
Joined: Wed Apr 08, 2015 7:16 pm
Location: Hillsboro, OR USA
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