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From Eddie Epstein <eaepst...@gmail.com>
Subject Re: XmiCasSerializer error in UIMA-AS
Date Mon, 28 Oct 2013 12:47:34 GMT
Assuming you would rather not share the CAS files, what I'd be looking for
is the xmi:id values changing between the before and after files. There is
some code in ruta that replaces CASes with serialization from files which
could be the cause of this problem.

Eddie


On Tue, Oct 22, 2013 at 10:21 AM, Eddie Epstein <eaepstein@gmail.com> wrote:

> Can you share the before and after XmiCas files for a case where UIMA-AS
> service serialization failed? No confidential info please!
>
> Eddie
>
>
>
> On Tue, Oct 22, 2013 at 2:27 AM, Prokopis Prokopidis <prokopis@ilsp.gr>wrote:
>
>> No, this is not an easily reproduced error: I have noticed it so far only
>> upon application of typesystem-specific ruta rules. I will try to come up
>> with an easily reproducible example.
>>
>> In the meantime, I followed your suggestions and added 2 XMI
>> serialization calls at the end of the AE processing for the failing case,
>> just before and just after using the ruta rules for modifying the
>> annotations in my CAS. In both cases, serialization to file succeeded, with
>> the second file containing the expected results of rule application.
>>
>> Unfortunately, the UIMA-AS serialization still produces the error in my
>> original mail.
>>
>> Prokopis
>>
>>
>> On 10/18/2013 07:09 PM, Eddie Epstein wrote:
>>
>>> Is this a solid error that is easily reproduced?
>>>
>>> The error is occurring when UIMA-AS is returning the CAS from the
>>> service.
>>> You could add XMI serialization to file at the end of AE processing, for
>>> the good and failing cases. If so lucky to have that serialization fail
>>> too, could try inserting the serialization at points earlier.
>>>
>>> Note that the UIMA-AS serialization is only serializing the delta changes
>>> from the input CAS, different from what you would do.
>>>
>>> Eddie
>>>
>>>
>>>
>>> On Thu, Oct 17, 2013 at 12:19 PM, Prokopis Prokopidis <prokopis@ilsp.gr
>>> >wrote:
>>>
>>>  Hi all,
>>>>
>>>> I have an AE that produces the error below when deployed as a UIMA-AS
>>>> 2.4.0 service. The same AE as part of a UIMA 2.4.2 CPE or a uimafit 2.*
>>>> pipeline does not produce any errors and works as expected.
>>>>
>>>> Among other things, this AE uses ruta rules to process the CAS. When the
>>>> rules are not used,  the AE works as expected in both UIMA and UIMA-AS.
>>>>
>>>> I have tried to log all annotations generated by the AE when the rules
>>>> are
>>>> used and just before the AE processing is finished. The annotations seem
>>>> the same in both the UIMA and the UIMA-AS processing scenarios.
>>>>
>>>> Does anyone have hints on what the cause of this might be or how I
>>>> should
>>>> proceed in debugging?
>>>>
>>>> Many thanks in advance,
>>>>
>>>> Prokopis
>>>>
>>>> WARNING:
>>>> java.lang.****ArrayIndexOutOfBoundsException
>>>>          at org.apache.uima.internal.util.**
>>>> **IntVector.remove(IntVector.****
>>>> java:207)
>>>>          at org.apache.uima.internal.util.**
>>>> **IntSet.remove(IntSet.java:**77)
>>>>          at org.apache.uima.cas.impl.****FSIndexRepositoryImpl.**
>>>> processIndexUpdates(****FSIndexRepositoryImpl.java:****1756)
>>>>          at org.apache.uima.cas.impl.****FSIndexRepositoryImpl.****
>>>> isModified(*
>>>> *FSIndexRepositoryImpl.java:****1800)
>>>>          at org.apache.uima.cas.impl.****XmiCasSerializer$**
>>>> XmiCasDocSerializer.serialize(****XmiCasSerializer.java:256)
>>>>          at org.apache.uima.cas.impl.****XmiCasSerializer$**
>>>> XmiCasDocSerializer.access$****700(XmiCasSerializer.java:108)
>>>>          at org.apache.uima.cas.impl.****XmiCasSerializer.serialize(**
>>>> XmiCasSerializer.java:1566)
>>>>          at org.apache.uima.aae.****UimaSerializer.****
>>>> serializeCasToXmi(**
>>>> UimaSerializer.java:160)
>>>>          at org.apache.uima.adapter.jms.****
>>>> activemq.JmsOutputChannel.**
>>>> serializeCAS(JmsOutputChannel.****java:237)
>>>>          at org.apache.uima.adapter.jms.****
>>>> activemq.JmsOutputChannel.**
>>>> getSerializedCas(****JmsOutputChannel.java:1223)
>>>>          at org.apache.uima.adapter.jms.****
>>>> activemq.JmsOutputChannel.**
>>>> sendReply(JmsOutputChannel.****java:786)
>>>>          at org.apache.uima.aae.****controller.**
>>>> PrimitiveAnalysisEngineControl****ler_impl.process(**
>>>> PrimitiveAnalysisEngineControl****ler_impl.java:1036)
>>>>          at org.apache.uima.aae.handler.****
>>>> HandlerBase.invokeProcess(**
>>>> HandlerBase.java:121)
>>>>          at org.apache.uima.aae.handler.****
>>>> input.ProcessRequestHandler_**
>>>> impl.****handleProcessRequestFromRemote****Client(**
>>>> ProcessRequestHandler_**
>>>> impl.java:542)
>>>>          at org.apache.uima.aae.handler.****
>>>> input.ProcessRequestHandler_**
>>>> impl.handle(****ProcessRequestHandler_impl.****java:1041)
>>>>          at org.apache.uima.aae.handler.****
>>>> input.MetadataRequestHandler_****
>>>> impl.handle(****MetadataRequestHandler_impl.****java:78)
>>>>          at org.apache.uima.adapter.jms.****activemq.JmsInputChannel.**
>>>> onMessage(JmsInputChannel.****java:706)
>>>>          at org.springframework.jms.****listener.**
>>>> AbstractMessageListenerContain****er.doInvokeListener(**
>>>> AbstractMessageListenerContain****er.java:535)
>>>>          at org.springframework.jms.****listener.**
>>>> AbstractMessageListenerContain****er.invokeListener(**
>>>> AbstractMessageListenerContain****er.java:495)
>>>>          at org.springframework.jms.****listener.**
>>>> AbstractMessageListenerContain****er.doExecuteListener(**
>>>> AbstractMessageListenerContain****er.java:467)
>>>>          at org.springframework.jms.****listener.**
>>>> AbstractPollingMessageListener****Container.**doReceiveAndExecute(**
>>>> AbstractPollingMessageListener****Container.java:325)
>>>>          at org.springframework.jms.****listener.**
>>>> AbstractPollingMessageListener****Container.receiveAndExecute(****
>>>> AbstractPollingMessageListener****Container.java:263)
>>>>          at org.springframework.jms.****listener.**
>>>> DefaultMessageListenerContaine****r$**AsyncMessageListenerInvoker.**
>>>> invokeListener(****DefaultMessageListenerContaine****r.java:1058)
>>>>          at org.springframework.jms.****listener.**
>>>> DefaultMessageListenerContaine****r$**AsyncMessageListenerInvoker.****
>>>> run(**
>>>> DefaultMessageListenerContaine****r.java:952)
>>>>          at java.util.concurrent.****ThreadPoolExecutor.runWorker(****
>>>> ThreadPoolExecutor.java:1145)
>>>>          at java.util.concurrent.****ThreadPoolExecutor$Worker.run(****
>>>> ThreadPoolExecutor.java:615)
>>>>          at org.apache.uima.aae.****UimaAsThreadFactory$1.run(**
>>>> UimaAsThreadFactory.java:118)
>>>>          at java.lang.Thread.run(Thread.****java:724)
>>>>
>>>>
>>>>
>>>>
>>>>
>>
>

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