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Posted to user@ctakes.apache.org by "Measure, Alex - BLS" <Me...@bls.gov> on 2014/03/13 16:48:33 UTC
Resource Initialization Exception cTAKES 3.1.1
I am trying to resolve a Resource Initialization Exception I am receiving while loading the AggregatePlaintextUMLSProcessor, can anyone assist me? Details are below:
I am using ctakes-3.1.1 along with ctakes-resources-3.1.0, installed per the User Guide on a Windows 7 machine. I have entered my UMLS license information in the CVD.bat file and increased the max heap size to 4096M (my machine has 8GB of memory).
When I attempt to load the AggregatePlaintextUMLSProcessor in the CVD I receive a Resource Initialization Exception. I have no trouble loading and running the AggregatePlaintextProcessor. I also have no trouble using the AggregatePlaintextUMLSProcessor with an earlier version of ctakes, ctakes-3.0-incubating.
If I look at the command prompt as the CVD is attempting to load the Processor, it appears to be getting stuck at:
Loading model:
.............................
13 Mar 2014 11:38:36 INFO Chunker - Chunker model file: C:\Users\measure_a\Desktop\apache
-ctakes-3.1.1\apache-ctakes-3.1.1\resources\org\apache\ctakes\chunker\models\chunker-model
.zip
The full log file is below:
3/13/14 11:38:36 AM - 14: org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE: Exception occurred
org.apache.uima.resource.ResourceInitializationException
at org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:130)
at org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
at org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
at org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
at org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387)
at org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354)
at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
at org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
at org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.actionPerformed(AnnotatorOpenEventHandler.java:52)
at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
at javax.swing.AbstractButton.doClick(Unknown Source)
at javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown Source)
at java.awt.Component.processMouseEvent(Unknown Source)
at javax.swing.JComponent.processMouseEvent(Unknown Source)
at java.awt.Component.processEvent(Unknown Source)
at java.awt.Container.processEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Window.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$200(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source)
Caused by: java.sql.SQLException: File input/output error: java.io.IOException: Stream closed
at org.hsqldb.jdbc.Util.sqlException(Unknown Source)
at org.hsqldb.jdbc.jdbcConnection.<init>(Unknown Source)
at org.hsqldb.jdbcDriver.getConnection(Unknown Source)
at org.hsqldb.jdbcDriver.connect(Unknown Source)
at java.sql.DriverManager.getConnection(Unknown Source)
at java.sql.DriverManager.getConnection(Unknown Source)
at org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:109)
... 58 more
I would greatly appreciate any assistance you might provide.
Alex
Re: Resource Initialization Exception cTAKES 3.1.1
Posted by Xiayuan Huang <hu...@cs.wisc.edu>.
Hi Pei,
I followed the instructions and copied umls resources to my ctakes home
directory where contains one resources folder. But that exception still
happens. And another question, how can I enlarge my memory setting in
order to avoid outofmemory exception.
Thanks
Xiayuan
On 2014-03-18 10:17, Pei Chen wrote:
> Hi Xiayuan,
> Caused by: java.io.FileNotFoundException:
> org/apache/ctakes/dictionary/lookup/rxnorm_index
>
> Do you have the file the folder in your class path?
> Normally, it should be inside the resources directory.
> Note: The RxNorm indexes are UMLS resources and require
> a separate download.
>
> Resources
> Resources are required to run most of cTAKES. They are available for
> download from SourceForge: ctakes-resources-3.1.0.zip [1].
> Please download, unzip and add/merge the contents to the existing
> resources directory. Follow the User or Developer Install Guide to
> direct you through the installation process.
>
> [1] http://sourceforge.net/projects/ctakesresources/files/ctakes-resources-3.1.0.zip/download
> [1]
>
> --Pei
>
> On Mon, Mar 17, 2014 at 5:48 PM, Xiayuan Huang <hu...@cs.wisc.edu>
> wrote:
>
>> Hello Pei,
>>
>> I met the similar exception, I tried to solve it for long but still
>> cnt figure it out. Could you please have a look?
>>
>> 3/17/14 4:10:14 PM - 15:
>> org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE:
>> Exception occurred
>> org.apache.uima.resource.ResourceInitializationException
>> at
>>
> org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl.load(LuceneIndexReaderResourceImpl.java:80)
>>
>> at
>>
> org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
>> at
>>
> org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
>> at
>>
> org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
>> at
>>
> org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
>> at
>>
> org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
>> at
>>
> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
>> at
>>
> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
>> at
>>
> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
>> at
>>
> org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387)
>> at
>>
> org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254)
>> at
>>
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
>> at
>>
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
>> at
>>
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
>> at
>>
> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
>> at
>>
> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
>> at
>>
> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
>> at
>>
> org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354)
>> at
>> org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
>> at
>>
> org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
>> at
>>
> org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.actionPerformed(AnnotatorOpenEventHandler.java:52)
>> at
>>
> javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2018)
>> at
>>
> javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2341)
>> at
>>
> javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:402)
>> at
>>
> javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
>> at
>> javax.swing.AbstractButton.doClick(AbstractButton.java:376)
>> at
>>
> javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:833)
>> at
>>
> javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:877)
>> at
>> java.awt.Component.processMouseEvent(Component.java:6505)
>> at
>> javax.swing.JComponent.processMouseEvent(JComponent.java:3321)
>> at java.awt.Component.processEvent(Component.java:6270)
>> at java.awt.Container.processEvent(Container.java:2229)
>> at
>> java.awt.Component.dispatchEventImpl(Component.java:4861)
>> at
>> java.awt.Container.dispatchEventImpl(Container.java:2287)
>> at
>> java.awt.Component.dispatchEvent(Component.java:4687)
>> at
>>
> java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4832)
>> at
>>
> java.awt.LightweightDispatcher.processMouseEvent(Container.java:4492)
>> at
>> java.awt.LightweightDispatcher.dispatchEvent(Container.java:4422)
>> at
>> java.awt.Container.dispatchEventImpl(Container.java:2273)
>> at java.awt.Window.dispatchEventImpl(Window.java:2719)
>> at
>> java.awt.Component.dispatchEvent(Component.java:4687)
>> at
>> java.awt.EventQueue.dispatchEventImpl(EventQueue.java:723)
>> at java.awt.EventQueue.access$200(EventQueue.java:103)
>> at java.awt.EventQueue$3.run(EventQueue.java:682)
>> at java.awt.EventQueue$3.run(EventQueue.java:680)
>> at java.security.AccessController.doPrivileged(Native
>> Method)
>> at
>>
> java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:76)
>> at
>>
> java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:87)
>> at java.awt.EventQueue$4.run(EventQueue.java:696)
>> at java.awt.EventQueue$4.run(EventQueue.java:694)
>> at java.security.AccessController.doPrivileged(Native
>> Method)
>> at
>>
> java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:76)
>> at
>> java.awt.EventQueue.dispatchEvent(EventQueue.java:693)
>> at
>>
> java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:244)
>> at
>>
> java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:163)
>> at
>>
> java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:151)
>> at
>>
> java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:147)
>> at
>>
> java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:139)
>> at
>> java.awt.EventDispatchThread.run(EventDispatchThread.java:97)
>> Caused by: java.io.FileNotFoundException:
>> org/apache/ctakes/dictionary/lookup/rxnorm_index
>> at
>>
> org.apache.ctakes.core.resource.FileLocator.locateExplicitly(FileLocator.java:93)
>> at
>>
> org.apache.ctakes.core.resource.FileLocator.locateFile(FileLocator.java:68)
>> at
>>
> org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl.load(LuceneIndexReaderResourceImpl.java:58)
>> ... 58 more
>>
>> On 2014-03-13 11:22, Measure, Alex - BLS wrote:
>>
>>> Thanks Pei. I did that previously, but I redid it again per your
>>> instructions and everything works perfectly now. I must have made
>>> an
>>> error. Thanks!
>>>
>>> Alex
>>>
>>> -----Original Message-----
>>> From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
>>> Sent: Thursday, March 13, 2014 11:59 AM
>>> To: user@ctakes.apache.org
>>> Subject: RE: Resource Initialization Exception cTAKES 3.1.1
>>>
>>> From the downloads page, have you tried:
>>> Resources
>>> Resources are required to run most of cTAKES. They are available
>>> for
>>> download from SourceForge: ctakes-resources-3.1.0.zip [1].
>>> Please download, unzip and add/merge the contents to the existing
>>> resources directory. Follow the User or Developer Install
>>> Guide to
>>> direct you through the installation process.
>>> [1]
>>>
>>
> http://sourceforge.net/projects/ctakesresources/files/ctakes-resources-3.1.0.zip/download
>>> [1]
>>>
>>> From: Measure, Alex - BLS [mailto:Measure.Alex@bls.gov]
>>> Sent: Thursday, March 13, 2014 11:53 AM
>>> To: 'user@ctakes.apache.org'
>>> Subject: Resource Initialization Exception cTAKES 3.1.1
>>>
>>> I am trying to resolve a Resource Initialization Exception I am
>>> receiving while loading the AggregatePlaintextUMLSProcessor, can
>>> anyone assist me? Details are below:
>>>
>>> I am using ctakes-3.1.1 along with ctakes-resources-3.1.0,
>>> installed
>>> per the User Guide on a Windows 7 machine. I have entered my UMLS
>>> license information in the CVD.bat file and increased the max
>>> heap
>>> size to 4096M (my machine has 8GB of memory).
>>>
>>> When I attempt to load the AggregatePlaintextUMLSProcessor in the
>>> CVD
>>> I receive a Resource Initialization Exception. I have no trouble
>>> loading and running the AggregatePlaintextProcessor. I also have
>>> no
>>> trouble using the AggregatePlaintextUMLSProcessor with an earlier
>>> version of ctakes, ctakes-3.0-incubating.
>>>
>>> If I look at the command prompt as the CVD is attempting to load
>>> the
>>> Processor, it appears to be getting stuck at:
>>>
>>> Loading model:
>>> .............................
>>> 13 Mar 2014 11:38:36 INFO Chunker - Chunker model file:
>>> C:Usersmeasure_aDesktopapache
>>>
>>
> -ctakes-3.1.1apache-ctakes-3.1.1resourcesorgapachectakeschunkermodelschunker-model
>>> .zip
>>>
>>> The full log file is below:
>>> 3/13/14 11:38:36 AM - 14:
>>> org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE:
>>> Exception occurred
>>> org.apache.uima.resource.ResourceInitializationException
>>> at
>>>
>>
> org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:130)
>>> at
>>>
>>
> org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
>>> at
>>>
>>
> org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
>>> at
>>>
>>
> org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
>>> at
>>>
>>
> org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
>>> at
>>>
>>
> org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
>>> at
>>>
>>
> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
>>> at
>>>
>>
> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
>>> at
>>>
>>
> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
>>> at
>>>
>>
> org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387)
>>> at
>>>
>>
> org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254)
>>> at
>>>
>>
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
>>> at
>>>
>>
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
>>> at
>>>
>>
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
>>> at
>>>
>>
> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
>>> at
>>>
>>
> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
>>> at
>>>
>>
> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
>>> at
>>>
>>
> org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354)
>>> at
>>> org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
>>> at
>>>
>>
> org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
>>> at
>>>
>>
> org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.actionPerformed(AnnotatorOpenEventHandler.java:52)
>>> at
>>> javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
>>> at
>>> javax.swing.AbstractButton$Handler.actionPerformed(Unknown
>>> Source)
>>> at
>>> javax.swing.DefaultButtonModel.fireActionPerformed(Unknown
>>> Source)
>>> at
>>> javax.swing.DefaultButtonModel.setPressed(Unknown Source)
>>> at
>>> javax.swing.AbstractButton.doClick(Unknown Source)
>>> at
>>> javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
>>> at
>>>
>> javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown
>>> Source)
>>> at
>>> java.awt.Component.processMouseEvent(Unknown Source)
>>> at
>>> javax.swing.JComponent.processMouseEvent(Unknown Source)
>>> at
>>> java.awt.Component.processEvent(Unknown Source)
>>> at
>>> java.awt.Container.processEvent(Unknown Source)
>>> at
>>> java.awt.Component.dispatchEventImpl(Unknown Source)
>>> at
>>> java.awt.Container.dispatchEventImpl(Unknown Source)
>>> at
>>> java.awt.Component.dispatchEvent(Unknown Source)
>>> at
>>> java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
>>> at
>>> java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
>>> at
>>> java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
>>> at
>>> java.awt.Container.dispatchEventImpl(Unknown Source)
>>> at
>>> java.awt.Window.dispatchEventImpl(Unknown Source)
>>> at
>>> java.awt.Component.dispatchEvent(Unknown Source)
>>> at
>>> java.awt.EventQueue.dispatchEventImpl(Unknown Source)
>>> at
>>> java.awt.EventQueue.access$200(Unknown Source)
>>> at
>>> java.awt.EventQueue$3.run(Unknown Source)
>>> at
>>> java.awt.EventQueue$3.run(Unknown Source)
>>> at
>>> java.security.AccessController.doPrivileged(Native Method)
>>> at
>>> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
>>> Source)
>>> at
>>> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
>>> Source)
>>> at
>>> java.awt.EventQueue$4.run(Unknown Source)
>>> at
>>> java.awt.EventQueue$4.run(Unknown Source)
>>> at
>>> java.security.AccessController.doPrivileged(Native Method)
>>> at
>>> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
>>> Source)
>>> at
>>> java.awt.EventQueue.dispatchEvent(Unknown Source)
>>> at
>>> java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown
>>> Source)
>>> at
>>> java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
>>> at
>>> java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown
>>> Source)
>>> at
>>> java.awt.EventDispatchThread.pumpEvents(Unknown Source)
>>> at
>>> java.awt.EventDispatchThread.pumpEvents(Unknown Source)
>>> at
>>> java.awt.EventDispatchThread.run(Unknown Source)
>>> Caused by: java.sql.SQLException: File input/output error:
>>> java.io.IOException: Stream closed
>>> at
>>> org.hsqldb.jdbc.Util.sqlException(Unknown Source)
>>> at
>>> org.hsqldb.jdbc.jdbcConnection.<init>(Unknown Source)
>>> at
>>> org.hsqldb.jdbcDriver.getConnection(Unknown Source)
>>> at
>>> org.hsqldb.jdbcDriver.connect(Unknown Source)
>>> at
>>> java.sql.DriverManager.getConnection(Unknown Source)
>>> at
>>> java.sql.DriverManager.getConnection(Unknown Source)
>>> at
>>>
>>
> org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:109)
>>> ... 58 more
>>>
>>> I would greatly appreciate any assistance you might provide.
>>>
>>> Alex
>
>
>
> Links:
> ------
> [1]
> http://sourceforge.net/projects/ctakesresources/files/ctakes-resources-3.1.0.zip/download
Re: Resource Initialization Exception cTAKES 3.1.1
Posted by Pei Chen <ch...@apache.org>.
Hi Xiayuan,
Caused by: java.io.FileNotFoundException: org/apache/ctakes/dictionary/l
ookup/rxnorm_index
Do you have the file the folder in your class path?
Normally, it should be inside the resources directory.
Note: The RxNorm indexes are UMLS resources and require a separate download.
Resources
Resources are required to run most of cTAKES. They are available for
download from SourceForge: ctakes-resources-3.1.0.zip [1].
Please download, unzip and add/merge the contents to the existing resources
directory. Follow the User or Developer Install Guide to direct you through
the installation process.
[1]
http://sourceforge.net/projects/ctakesresources/files/ctakes-resources-3.1.0.zip/download
--Pei
On Mon, Mar 17, 2014 at 5:48 PM, Xiayuan Huang <hu...@cs.wisc.edu> wrote:
> Hello Pei,
>
> I met the similar exception, I tried to solve it for long but still cnt
> figure it out. Could you please have a look?
>
>
>
> 3/17/14 4:10:14 PM - 15: org.apache.uima.tools.cvd.
> MainFrame.handleException(527): SEVERE: Exception occurred
> org.apache.uima.resource.ResourceInitializationException
> at org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl.
> load(LuceneIndexReaderResourceImpl.java:80)
>
> at org.apache.uima.resource.impl.ResourceManager_impl.
> registerResource(ResourceManager_impl.java:603)
> at org.apache.uima.resource.impl.ResourceManager_impl.
> initializeExternalResources(ResourceManager_impl.java:442)
> at org.apache.uima.resource.Resource_ImplBase.initialize(
> Resource_ImplBase.java:153)
> at org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.
> initialize(AnalysisEngineImplBase.java:157)
> at org.apache.uima.analysis_engine.impl.
> PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.
> java:123)
> at org.apache.uima.impl.AnalysisEngineFactory_impl.
> produceResource(AnalysisEngineFactory_impl.java:94)
> at org.apache.uima.impl.CompositeResourceFactory_impl.
> produceResource(CompositeResourceFactory_impl.java:62)
> at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.
> java:269)
> at org.apache.uima.UIMAFramework.produceAnalysisEngine(
> UIMAFramework.java:387)
> at org.apache.uima.analysis_engine.asb.impl.ASB_impl.
> setup(ASB_impl.java:254)
> at org.apache.uima.analysis_engine.impl.
> AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.
> java:431)
> at org.apache.uima.analysis_engine.impl.
> AggregateAnalysisEngine_impl.initializeAggregateAnalysisEng
> ine(AggregateAnalysisEngine_impl.java:375)
> at org.apache.uima.analysis_engine.impl.
> AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.
> java:185)
> at org.apache.uima.impl.AnalysisEngineFactory_impl.
> produceResource(AnalysisEngineFactory_impl.java:94)
> at org.apache.uima.impl.CompositeResourceFactory_impl.
> produceResource(CompositeResourceFactory_impl.java:62)
> at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.
> java:269)
> at org.apache.uima.UIMAFramework.produceAnalysisEngine(
> UIMAFramework.java:354)
> at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.
> java:1484)
> at org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(
> MainFrame.java:477)
> at org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.
> actionPerformed(AnnotatorOpenEventHandler.java:52)
> at javax.swing.AbstractButton.fireActionPerformed(
> AbstractButton.java:2018)
> at javax.swing.AbstractButton$Handler.actionPerformed(
> AbstractButton.java:2341)
> at javax.swing.DefaultButtonModel.fireActionPerformed(
> DefaultButtonModel.java:402)
> at javax.swing.DefaultButtonModel.setPressed(
> DefaultButtonModel.java:259)
> at javax.swing.AbstractButton.doClick(AbstractButton.java:376)
> at javax.swing.plaf.basic.BasicMenuItemUI.doClick(
> BasicMenuItemUI.java:833)
> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.
> mouseReleased(BasicMenuItemUI.java:877)
> at java.awt.Component.processMouseEvent(Component.java:6505)
> at javax.swing.JComponent.processMouseEvent(JComponent.java:3321)
> at java.awt.Component.processEvent(Component.java:6270)
> at java.awt.Container.processEvent(Container.java:2229)
> at java.awt.Component.dispatchEventImpl(Component.java:4861)
> at java.awt.Container.dispatchEventImpl(Container.java:2287)
> at java.awt.Component.dispatchEvent(Component.java:4687)
> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.
> java:4832)
> at java.awt.LightweightDispatcher.processMouseEvent(Container.
> java:4492)
> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:
> 4422)
> at java.awt.Container.dispatchEventImpl(Container.java:2273)
> at java.awt.Window.dispatchEventImpl(Window.java:2719)
> at java.awt.Component.dispatchEvent(Component.java:4687)
> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:723)
> at java.awt.EventQueue.access$200(EventQueue.java:103)
> at java.awt.EventQueue$3.run(EventQueue.java:682)
> at java.awt.EventQueue$3.run(EventQueue.java:680)
> at java.security.AccessController.doPrivileged(Native Method)
> at java.security.ProtectionDomain$1.doIntersectionPrivilege(
> ProtectionDomain.java:76)
> at java.security.ProtectionDomain$1.doIntersectionPrivilege(
> ProtectionDomain.java:87)
> at java.awt.EventQueue$4.run(EventQueue.java:696)
> at java.awt.EventQueue$4.run(EventQueue.java:694)
> at java.security.AccessController.doPrivileged(Native Method)
> at java.security.ProtectionDomain$1.doIntersectionPrivilege(
> ProtectionDomain.java:76)
> at java.awt.EventQueue.dispatchEvent(EventQueue.java:693)
> at java.awt.EventDispatchThread.pumpOneEventForFilters(
> EventDispatchThread.java:244)
> at java.awt.EventDispatchThread.pumpEventsForFilter(
> EventDispatchThread.java:163)
> at java.awt.EventDispatchThread.pumpEventsForHierarchy(
> EventDispatchThread.java:151)
> at java.awt.EventDispatchThread.pumpEvents(
> EventDispatchThread.java:147)
> at java.awt.EventDispatchThread.pumpEvents(
> EventDispatchThread.java:139)
> at java.awt.EventDispatchThread.run(EventDispatchThread.java:97)
> Caused by: java.io.FileNotFoundException: org/apache/ctakes/dictionary/
> lookup/rxnorm_index
> at org.apache.ctakes.core.resource.FileLocator.
> locateExplicitly(FileLocator.java:93)
> at org.apache.ctakes.core.resource.FileLocator.
> locateFile(FileLocator.java:68)
> at org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl.
> load(LuceneIndexReaderResourceImpl.java:58)
> ... 58 more
>
>
>
>
>
> On 2014-03-13 11:22, Measure, Alex - BLS wrote:
>
>> Thanks Pei. I did that previously, but I redid it again per your
>> instructions and everything works perfectly now. I must have made an
>> error. Thanks!
>>
>> Alex
>>
>> -----Original Message-----
>> From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
>> Sent: Thursday, March 13, 2014 11:59 AM
>> To: user@ctakes.apache.org
>> Subject: RE: Resource Initialization Exception cTAKES 3.1.1
>>
>> From the downloads page, have you tried:
>> Resources
>> Resources are required to run most of cTAKES. They are available for
>> download from SourceForge: ctakes-resources-3.1.0.zip [1].
>> Please download, unzip and add/merge the contents to the existing
>> resources directory. Follow the User or Developer Install Guide to
>> direct you through the installation process.
>> [1]
>> http://sourceforge.net/projects/ctakesresources/
>> files/ctakes-resources-3.1.0.zip/download
>>
>> From: Measure, Alex - BLS [mailto:Measure.Alex@bls.gov]
>> Sent: Thursday, March 13, 2014 11:53 AM
>> To: 'user@ctakes.apache.org'
>> Subject: Resource Initialization Exception cTAKES 3.1.1
>>
>> I am trying to resolve a Resource Initialization Exception I am
>> receiving while loading the AggregatePlaintextUMLSProcessor, can
>> anyone assist me? Details are below:
>>
>> I am using ctakes-3.1.1 along with ctakes-resources-3.1.0, installed
>> per the User Guide on a Windows 7 machine. I have entered my UMLS
>> license information in the CVD.bat file and increased the max heap
>> size to 4096M (my machine has 8GB of memory).
>>
>> When I attempt to load the AggregatePlaintextUMLSProcessor in the CVD
>> I receive a Resource Initialization Exception. I have no trouble
>> loading and running the AggregatePlaintextProcessor. I also have no
>> trouble using the AggregatePlaintextUMLSProcessor with an earlier
>> version of ctakes, ctakes-3.0-incubating.
>>
>> If I look at the command prompt as the CVD is attempting to load the
>> Processor, it appears to be getting stuck at:
>>
>> Loading model:
>> .............................
>> 13 Mar 2014 11:38:36 INFO Chunker - Chunker model file:
>> C:\Users\measure_a\Desktop\apache
>> -ctakes-3.1.1\apache-ctakes-3.1.1\resources\org\apache\
>> ctakes\chunker\models\chunker-model
>> .zip
>>
>>
>> The full log file is below:
>> 3/13/14 11:38:36 AM - 14:
>> org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE:
>> Exception occurred
>> org.apache.uima.resource.ResourceInitializationException
>> at
>> org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(
>> JdbcConnectionResourceImpl.java:130)
>> at
>> org.apache.uima.resource.impl.ResourceManager_impl.registerResource(
>> ResourceManager_impl.java:603)
>> at
>> org.apache.uima.resource.impl.ResourceManager_impl.
>> initializeExternalResources(ResourceManager_impl.java:442)
>> at
>> org.apache.uima.resource.Resource_ImplBase.initialize(
>> Resource_ImplBase.java:153)
>> at
>> org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(
>> AnalysisEngineImplBase.java:157)
>> at
>> org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.
>> initialize(PrimitiveAnalysisEngine_impl.java:123)
>> at
>> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(
>> AnalysisEngineFactory_impl.java:94)
>> at
>> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(
>> CompositeResourceFactory_impl.java:62)
>> at
>> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
>> at
>> org.apache.uima.UIMAFramework.produceAnalysisEngine(
>> UIMAFramework.java:387)
>> at
>> org.apache.uima.analysis_engine.asb.impl.ASB_impl.
>> setup(ASB_impl.java:254)
>> at
>> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.
>> initASB(AggregateAnalysisEngine_impl.java:431)
>> at
>> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.
>> initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
>> at
>> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.
>> initialize(AggregateAnalysisEngine_impl.java:185)
>> at
>> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(
>> AnalysisEngineFactory_impl.java:94)
>> at
>> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(
>> CompositeResourceFactory_impl.java:62)
>> at
>> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
>> at
>> org.apache.uima.UIMAFramework.produceAnalysisEngine(
>> UIMAFramework.java:354)
>> at
>> org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
>> at
>> org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
>> at
>> org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.
>> actionPerformed(AnnotatorOpenEventHandler.java:52)
>> at
>> javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
>> at
>> javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
>> at
>> javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
>> at javax.swing.DefaultButtonModel.setPressed(Unknown
>> Source)
>> at javax.swing.AbstractButton.doClick(Unknown Source)
>> at
>> javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
>> at
>> javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown
>> Source)
>> at java.awt.Component.processMouseEvent(Unknown Source)
>> at javax.swing.JComponent.processMouseEvent(Unknown
>> Source)
>> at java.awt.Component.processEvent(Unknown Source)
>> at java.awt.Container.processEvent(Unknown Source)
>> at java.awt.Component.dispatchEventImpl(Unknown Source)
>> at java.awt.Container.dispatchEventImpl(Unknown Source)
>> at java.awt.Component.dispatchEvent(Unknown Source)
>> at
>> java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
>> at
>> java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
>> at java.awt.LightweightDispatcher.dispatchEvent(Unknown
>> Source)
>> at java.awt.Container.dispatchEventImpl(Unknown Source)
>> at java.awt.Window.dispatchEventImpl(Unknown Source)
>> at java.awt.Component.dispatchEvent(Unknown Source)
>> at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
>> at java.awt.EventQueue.access$200(Unknown Source)
>> at java.awt.EventQueue$3.run(Unknown Source)
>> at java.awt.EventQueue$3.run(Unknown Source)
>> at java.security.AccessController.doPrivileged(Native
>> Method)
>> at
>> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
>> Source)
>> at
>> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
>> Source)
>> at java.awt.EventQueue$4.run(Unknown Source)
>> at java.awt.EventQueue$4.run(Unknown Source)
>> at java.security.AccessController.doPrivileged(Native
>> Method)
>> at
>> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
>> Source)
>> at java.awt.EventQueue.dispatchEvent(Unknown Source)
>> at
>> java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
>> at
>> java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
>> at
>> java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
>> at java.awt.EventDispatchThread.pumpEvents(Unknown
>> Source)
>> at java.awt.EventDispatchThread.pumpEvents(Unknown
>> Source)
>> at java.awt.EventDispatchThread.run(Unknown Source)
>> Caused by: java.sql.SQLException: File input/output error:
>> java.io.IOException: Stream closed
>> at org.hsqldb.jdbc.Util.sqlException(Unknown Source)
>> at org.hsqldb.jdbc.jdbcConnection.<init>(Unknown Source)
>> at org.hsqldb.jdbcDriver.getConnection(Unknown Source)
>> at org.hsqldb.jdbcDriver.connect(Unknown Source)
>> at java.sql.DriverManager.getConnection(Unknown Source)
>> at java.sql.DriverManager.getConnection(Unknown Source)
>> at
>> org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(
>> JdbcConnectionResourceImpl.java:109)
>> ... 58 more
>>
>> I would greatly appreciate any assistance you might provide.
>>
>> Alex
>>
>
RE: Resource Initialization Exception cTAKES 3.1.1
Posted by Xiayuan Huang <hu...@cs.wisc.edu>.
Hello Pei,
I met the similar exception, I tried to solve it for long but still cnt
figure it out. Could you please have a look?
3/17/14 4:10:14 PM - 15:
org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE:
Exception occurred
org.apache.uima.resource.ResourceInitializationException
at
org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl.load(LuceneIndexReaderResourceImpl.java:80)
at
org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
at
org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
at
org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
at
org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
at
org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
at
org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at
org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at
org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at
org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387)
at
org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254)
at
org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
at
org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
at
org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
at
org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at
org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at
org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at
org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354)
at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
at
org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
at
org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.actionPerformed(AnnotatorOpenEventHandler.java:52)
at
javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2018)
at
javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2341)
at
javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:402)
at
javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
at javax.swing.AbstractButton.doClick(AbstractButton.java:376)
at
javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:833)
at
javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:877)
at java.awt.Component.processMouseEvent(Component.java:6505)
at javax.swing.JComponent.processMouseEvent(JComponent.java:3321)
at java.awt.Component.processEvent(Component.java:6270)
at java.awt.Container.processEvent(Container.java:2229)
at java.awt.Component.dispatchEventImpl(Component.java:4861)
at java.awt.Container.dispatchEventImpl(Container.java:2287)
at java.awt.Component.dispatchEvent(Component.java:4687)
at
java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4832)
at
java.awt.LightweightDispatcher.processMouseEvent(Container.java:4492)
at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4422)
at java.awt.Container.dispatchEventImpl(Container.java:2273)
at java.awt.Window.dispatchEventImpl(Window.java:2719)
at java.awt.Component.dispatchEvent(Component.java:4687)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:723)
at java.awt.EventQueue.access$200(EventQueue.java:103)
at java.awt.EventQueue$3.run(EventQueue.java:682)
at java.awt.EventQueue$3.run(EventQueue.java:680)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:76)
at
java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:87)
at java.awt.EventQueue$4.run(EventQueue.java:696)
at java.awt.EventQueue$4.run(EventQueue.java:694)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:693)
at
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:244)
at
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:163)
at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:151)
at
java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:147)
at
java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:139)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:97)
Caused by: java.io.FileNotFoundException:
org/apache/ctakes/dictionary/lookup/rxnorm_index
at
org.apache.ctakes.core.resource.FileLocator.locateExplicitly(FileLocator.java:93)
at
org.apache.ctakes.core.resource.FileLocator.locateFile(FileLocator.java:68)
at
org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl.load(LuceneIndexReaderResourceImpl.java:58)
... 58 more
On 2014-03-13 11:22, Measure, Alex - BLS wrote:
> Thanks Pei. I did that previously, but I redid it again per your
> instructions and everything works perfectly now. I must have made an
> error. Thanks!
>
> Alex
>
> -----Original Message-----
> From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
> Sent: Thursday, March 13, 2014 11:59 AM
> To: user@ctakes.apache.org
> Subject: RE: Resource Initialization Exception cTAKES 3.1.1
>
> From the downloads page, have you tried:
> Resources
> Resources are required to run most of cTAKES. They are available for
> download from SourceForge: ctakes-resources-3.1.0.zip [1].
> Please download, unzip and add/merge the contents to the existing
> resources directory. Follow the User or Developer Install Guide to
> direct you through the installation process.
> [1]
> http://sourceforge.net/projects/ctakesresources/files/ctakes-resources-3.1.0.zip/download
>
> From: Measure, Alex - BLS [mailto:Measure.Alex@bls.gov]
> Sent: Thursday, March 13, 2014 11:53 AM
> To: 'user@ctakes.apache.org'
> Subject: Resource Initialization Exception cTAKES 3.1.1
>
> I am trying to resolve a Resource Initialization Exception I am
> receiving while loading the AggregatePlaintextUMLSProcessor, can
> anyone assist me? Details are below:
>
> I am using ctakes-3.1.1 along with ctakes-resources-3.1.0, installed
> per the User Guide on a Windows 7 machine. I have entered my UMLS
> license information in the CVD.bat file and increased the max heap
> size to 4096M (my machine has 8GB of memory).
>
> When I attempt to load the AggregatePlaintextUMLSProcessor in the CVD
> I receive a Resource Initialization Exception. I have no trouble
> loading and running the AggregatePlaintextProcessor. I also have no
> trouble using the AggregatePlaintextUMLSProcessor with an earlier
> version of ctakes, ctakes-3.0-incubating.
>
> If I look at the command prompt as the CVD is attempting to load the
> Processor, it appears to be getting stuck at:
>
> Loading model:
> .............................
> 13 Mar 2014 11:38:36 INFO Chunker - Chunker model file:
> C:\Users\measure_a\Desktop\apache
> -ctakes-3.1.1\apache-ctakes-3.1.1\resources\org\apache\ctakes\chunker\models\chunker-model
> .zip
>
>
> The full log file is below:
> 3/13/14 11:38:36 AM - 14:
> org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE:
> Exception occurred
> org.apache.uima.resource.ResourceInitializationException
> at
> org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:130)
> at
> org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
> at
> org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
> at
> org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
> at
> org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
> at
> org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
> at
> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
> at
> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
> at
> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
> at
> org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387)
> at
> org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254)
> at
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
> at
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
> at
> org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
> at
> org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
> at
> org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
> at
> org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
> at
> org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354)
> at
> org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
> at
> org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
> at
> org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.actionPerformed(AnnotatorOpenEventHandler.java:52)
> at
> javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
> at
> javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
> at
> javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
> at javax.swing.DefaultButtonModel.setPressed(Unknown
> Source)
> at javax.swing.AbstractButton.doClick(Unknown Source)
> at
> javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
> at
> javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown
> Source)
> at java.awt.Component.processMouseEvent(Unknown Source)
> at javax.swing.JComponent.processMouseEvent(Unknown
> Source)
> at java.awt.Component.processEvent(Unknown Source)
> at java.awt.Container.processEvent(Unknown Source)
> at java.awt.Component.dispatchEventImpl(Unknown Source)
> at java.awt.Container.dispatchEventImpl(Unknown Source)
> at java.awt.Component.dispatchEvent(Unknown Source)
> at
> java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
> at
> java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
> at java.awt.LightweightDispatcher.dispatchEvent(Unknown
> Source)
> at java.awt.Container.dispatchEventImpl(Unknown Source)
> at java.awt.Window.dispatchEventImpl(Unknown Source)
> at java.awt.Component.dispatchEvent(Unknown Source)
> at java.awt.EventQueue.dispatchEventImpl(Unknown
> Source)
> at java.awt.EventQueue.access$200(Unknown Source)
> at java.awt.EventQueue$3.run(Unknown Source)
> at java.awt.EventQueue$3.run(Unknown Source)
> at java.security.AccessController.doPrivileged(Native
> Method)
> at
> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
> Source)
> at
> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
> Source)
> at java.awt.EventQueue$4.run(Unknown Source)
> at java.awt.EventQueue$4.run(Unknown Source)
> at java.security.AccessController.doPrivileged(Native
> Method)
> at
> java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown
> Source)
> at java.awt.EventQueue.dispatchEvent(Unknown Source)
> at
> java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
> at
> java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
> at
> java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
> at java.awt.EventDispatchThread.pumpEvents(Unknown
> Source)
> at java.awt.EventDispatchThread.pumpEvents(Unknown
> Source)
> at java.awt.EventDispatchThread.run(Unknown Source)
> Caused by: java.sql.SQLException: File input/output error:
> java.io.IOException: Stream closed
> at org.hsqldb.jdbc.Util.sqlException(Unknown Source)
> at org.hsqldb.jdbc.jdbcConnection.<init>(Unknown
> Source)
> at org.hsqldb.jdbcDriver.getConnection(Unknown Source)
> at org.hsqldb.jdbcDriver.connect(Unknown Source)
> at java.sql.DriverManager.getConnection(Unknown Source)
> at java.sql.DriverManager.getConnection(Unknown Source)
> at
> org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:109)
> ... 58 more
>
> I would greatly appreciate any assistance you might provide.
>
> Alex
RE: Resource Initialization Exception cTAKES 3.1.1
Posted by "Measure, Alex - BLS" <Me...@bls.gov>.
Thanks Pei. I did that previously, but I redid it again per your instructions and everything works perfectly now. I must have made an error. Thanks!
Alex
-----Original Message-----
From: Chen, Pei [mailto:Pei.Chen@childrens.harvard.edu]
Sent: Thursday, March 13, 2014 11:59 AM
To: user@ctakes.apache.org
Subject: RE: Resource Initialization Exception cTAKES 3.1.1
>From the downloads page, have you tried:
Resources
Resources are required to run most of cTAKES. They are available for download from SourceForge: ctakes-resources-3.1.0.zip [1].
Please download, unzip and add/merge the contents to the existing resources directory. Follow the User or Developer Install Guide to direct you through the installation process.
[1] http://sourceforge.net/projects/ctakesresources/files/ctakes-resources-3.1.0.zip/download
From: Measure, Alex - BLS [mailto:Measure.Alex@bls.gov]
Sent: Thursday, March 13, 2014 11:53 AM
To: 'user@ctakes.apache.org'
Subject: Resource Initialization Exception cTAKES 3.1.1
I am trying to resolve a Resource Initialization Exception I am receiving while loading the AggregatePlaintextUMLSProcessor, can anyone assist me? Details are below:
I am using ctakes-3.1.1 along with ctakes-resources-3.1.0, installed per the User Guide on a Windows 7 machine. I have entered my UMLS license information in the CVD.bat file and increased the max heap size to 4096M (my machine has 8GB of memory).
When I attempt to load the AggregatePlaintextUMLSProcessor in the CVD I receive a Resource Initialization Exception. I have no trouble loading and running the AggregatePlaintextProcessor. I also have no trouble using the AggregatePlaintextUMLSProcessor with an earlier version of ctakes, ctakes-3.0-incubating.
If I look at the command prompt as the CVD is attempting to load the Processor, it appears to be getting stuck at:
Loading model:
.............................
13 Mar 2014 11:38:36 INFO Chunker - Chunker model file: C:\Users\measure_a\Desktop\apache -ctakes-3.1.1\apache-ctakes-3.1.1\resources\org\apache\ctakes\chunker\models\chunker-model
.zip
The full log file is below:
3/13/14 11:38:36 AM - 14: org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE: Exception occurred org.apache.uima.resource.ResourceInitializationException
at org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:130)
at org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
at org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
at org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
at org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387)
at org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354)
at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
at org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
at org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.actionPerformed(AnnotatorOpenEventHandler.java:52)
at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
at javax.swing.AbstractButton.doClick(Unknown Source)
at javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown Source)
at java.awt.Component.processMouseEvent(Unknown Source)
at javax.swing.JComponent.processMouseEvent(Unknown Source)
at java.awt.Component.processEvent(Unknown Source)
at java.awt.Container.processEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Window.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$200(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source) Caused by: java.sql.SQLException: File input/output error: java.io.IOException: Stream closed
at org.hsqldb.jdbc.Util.sqlException(Unknown Source)
at org.hsqldb.jdbc.jdbcConnection.<init>(Unknown Source)
at org.hsqldb.jdbcDriver.getConnection(Unknown Source)
at org.hsqldb.jdbcDriver.connect(Unknown Source)
at java.sql.DriverManager.getConnection(Unknown Source)
at java.sql.DriverManager.getConnection(Unknown Source)
at org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:109)
... 58 more
I would greatly appreciate any assistance you might provide.
Alex
RE: Resource Initialization Exception cTAKES 3.1.1
Posted by "Chen, Pei" <Pe...@childrens.harvard.edu>.
>From the downloads page, have you tried:
Resources
Resources are required to run most of cTAKES. They are available for download from SourceForge: ctakes-resources-3.1.0.zip [1].
Please download, unzip and add/merge the contents to the existing resources directory. Follow the User or Developer Install Guide to direct you through the installation process.
[1] http://sourceforge.net/projects/ctakesresources/files/ctakes-resources-3.1.0.zip/download
From: Measure, Alex - BLS [mailto:Measure.Alex@bls.gov]
Sent: Thursday, March 13, 2014 11:53 AM
To: 'user@ctakes.apache.org'
Subject: Resource Initialization Exception cTAKES 3.1.1
I am trying to resolve a Resource Initialization Exception I am receiving while loading the AggregatePlaintextUMLSProcessor, can anyone assist me? Details are below:
I am using ctakes-3.1.1 along with ctakes-resources-3.1.0, installed per the User Guide on a Windows 7 machine. I have entered my UMLS license information in the CVD.bat file and increased the max heap size to 4096M (my machine has 8GB of memory).
When I attempt to load the AggregatePlaintextUMLSProcessor in the CVD I receive a Resource Initialization Exception. I have no trouble loading and running the AggregatePlaintextProcessor. I also have no trouble using the AggregatePlaintextUMLSProcessor with an earlier version of ctakes, ctakes-3.0-incubating.
If I look at the command prompt as the CVD is attempting to load the Processor, it appears to be getting stuck at:
Loading model:
.............................
13 Mar 2014 11:38:36 INFO Chunker - Chunker model file: C:\Users\measure_a\Desktop\apache
-ctakes-3.1.1\apache-ctakes-3.1.1\resources\org\apache\ctakes\chunker\models\chunker-model
.zip
The full log file is below:
3/13/14 11:38:36 AM - 14: org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE: Exception occurred
org.apache.uima.resource.ResourceInitializationException
at org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:130)
at org.apache.uima.resource.impl.ResourceManager_impl.registerResource(ResourceManager_impl.java:603)
at org.apache.uima.resource.impl.ResourceManager_impl.initializeExternalResources(ResourceManager_impl.java:442)
at org.apache.uima.resource.Resource_ImplBase.initialize(Resource_ImplBase.java:153)
at org.apache.uima.analysis_engine.impl.AnalysisEngineImplBase.initialize(AnalysisEngineImplBase.java:157)
at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initialize(PrimitiveAnalysisEngine_impl.java:123)
at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:387)
at org.apache.uima.analysis_engine.asb.impl.ASB_impl.setup(ASB_impl.java:254)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initASB(AggregateAnalysisEngine_impl.java:431)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initializeAggregateAnalysisEngine(AggregateAnalysisEngine_impl.java:375)
at org.apache.uima.analysis_engine.impl.AggregateAnalysisEngine_impl.initialize(AggregateAnalysisEngine_impl.java:185)
at org.apache.uima.impl.AnalysisEngineFactory_impl.produceResource(AnalysisEngineFactory_impl.java:94)
at org.apache.uima.impl.CompositeResourceFactory_impl.produceResource(CompositeResourceFactory_impl.java:62)
at org.apache.uima.UIMAFramework.produceResource(UIMAFramework.java:269)
at org.apache.uima.UIMAFramework.produceAnalysisEngine(UIMAFramework.java:354)
at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
at org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFrame.java:477)
at org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.actionPerformed(AnnotatorOpenEventHandler.java:52)
at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
at javax.swing.AbstractButton.doClick(Unknown Source)
at javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown Source)
at java.awt.Component.processMouseEvent(Unknown Source)
at javax.swing.JComponent.processMouseEvent(Unknown Source)
at java.awt.Component.processEvent(Unknown Source)
at java.awt.Container.processEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Window.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$200(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source)
Caused by: java.sql.SQLException: File input/output error: java.io.IOException: Stream closed
at org.hsqldb.jdbc.Util.sqlException(Unknown Source)
at org.hsqldb.jdbc.jdbcConnection.<init>(Unknown Source)
at org.hsqldb.jdbcDriver.getConnection(Unknown Source)
at org.hsqldb.jdbcDriver.connect(Unknown Source)
at java.sql.DriverManager.getConnection(Unknown Source)
at java.sql.DriverManager.getConnection(Unknown Source)
at org.apache.ctakes.core.resource.JdbcConnectionResourceImpl.load(JdbcConnectionResourceImpl.java:109)
... 58 more
I would greatly appreciate any assistance you might provide.
Alex