[ome-users] OMERO crash: Too many open files

[Mark Henshall]

doing 'cat /proc/sys/fs/file-max' gives 596753

doing 'ulimit -Hn' as omero gives 1024





Quoting Josh Moore <josh at glencoesoftware.com>:

>
> On Jan 26, 2012, at 6:41 PM, Alexander Tournier wrote:
>
>> Hi there,
>>
>> I've been using OMERO quite heavily and ... it crashed. ie I can't 
>> login to OMERO anymore although others seem to be able to.
>> The most interesting is the error message below.
>> I was saving quite a lot of data and I realise that I didn't close 
>> the rawPixelStore which might explain the error.
>> The problem I have at the moment is that it doesn't seem to be 
>> rectifying itself on its own.
>> Is there a time delay by which the open files are forcefully closed 
>> and services resumed or do we need to reboot OMERO?
>
> The services won't be closed until the session is closed. If you are 
> somehow keeping that alive (e.g. by doing other activities) _and_ not 
> closing your services, then you'll run out of file handles. Do you 
> know how many are configured for your server?
>
> ~Josh
>
>> Thanks,
>> Alexander
>>
>>
>> Error using omero.client/createSession
>> Java exception occurred:
>> Glacier2.PermissionDeniedException
>>    reason = "Internal error. Please contact your administrator:
>>               Wrapped Exception:
>>               (org.springframework.ldap.CommunicationException):
>>              uk-lri-ldco02.crwin.crnet.org:636; nested exception is
>>              javax.naming.CommunicationException:
>>              uk-lri-ldco02.crwin.crnet.org:636 [Root exception is
>>              java.net.SocketException: Too many open files]"
>>    at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
>>    at sun.reflect.NativeConstructorAccessorImpl.newInstance(Unknown Source)
>>    at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(Unknown
>>        Source)
>>    at java.lang.reflect.Constructor.newInstance(Unknown Source)
>>    at java.lang.Class.newInstance0(Unknown Source)
>>    at java.lang.Class.newInstance(Unknown Source)
>>    at
>>        
>> IceInternal.BasicStream$DynamicUserExceptionFactory.createAndThrow(BasicStream.java:2243)
>>            at IceInternal.BasicStream.throwException(BasicStream.java:1632)
>>    at IceInternal.Outgoing.throwUserException(Outgoing.java:442)
>>    at Glacier2._RouterDelM.createSession(_RouterDelM.java:42)
>>    at Glacier2.RouterPrxHelper.createSession(RouterPrxHelper.java:51)
>>    at Glacier2.RouterPrxHelper.createSession(RouterPrxHelper.java:29)
>>    at omero.client.createSession(client.java:628)
>>    at omero.client.createSession(client.java:567)
>
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>



Mark Henshall
Unix Administrator
Cancer Research UK London Research Institute
Lincoln's Inn Fields Laboratories
44 Lincoln's Inn Fields
London WC2A 3LY
Registered charity number 1089464

t: 0207 269 3602
m: 07890664727
f: 0207 061 8011
e: Mark.Henshall at cancer.org.uk




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