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Date: Tue, 22 Oct 2013 10:21:06 -0400
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Subject: Re: XmiCasSerializer error in UIMA-AS
From: Eddie Epstein <eaepstein@gmail.com>
To: user@uima.apache.org
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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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