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From Andrey Kurdumov <kant2...@googlemail.com>
Subject Re: Update LVG to 2016 version
Date Mon, 13 Feb 2017 09:28:15 GMT
Cool,
.properties file looks ok. You could make database readonly by adding
readonly=true to it if you needed that.

Did you able to test how LVG 2016/17 working in multithreaded environment?
I did not test like that, because I need LVG for different purposes, so
that's interesting to know how it works.

2017-02-13 15:22 GMT+06:00 shahid ashraf <shahid@trialx.com>:

>
> Thanks Andrey
>
>
> I was able to successfully update the database... and use in dev through
> cvd.
>
> i was using sqltool (which was wrong), i switched to DatabaseManager
>
> *java -cp ~/Downloads/hsqldb_1_8_0_10.jar org.hsqldb.util.DatabaseManager*
>
> *java -cp ~/Downloads/hsqldb-2.3.4/hsqldb/lib/hsqldb.jar
> org.hsqldb.util.DatabaseManager*
>
> After above steps the properties file looks like:
>
> #HSQL Database Engine 2.3.4
>
> #Mon Feb 13 11:34:05 IST 2017
>
> version=2.3.4
>
> modified=no
>
> tx_timestamp=0
>
>
>
>
> On Mon, Feb 13, 2017 at 1:38 AM, shahid ashraf <shahid@trialx.com> wrote:
>
>>
>>
>> Hi
>>
>> How can i check the above steps are successfully being executed...
>> Currently getting Error..  Have done these steps in dev ctakes... from svn
>> not from your github stuff
>>
>> This is what i did:
>> java -cp ~/Downloads/hsqldb_1_8_0_10.jar org.hsqldb.util.SqlTool
>> --rcfile custom_umls.rc custom_umls
>>
>> SET SCRIPTFORMAT TEXT
>> SHUTDOWN
>>
>> java -jar ~/Downloads/hsqldb-2.3.4/hsqldb/lib/sqltool.jar --rcfile
>> custom_umls.rc  custom_umls
>>
>> SHUTDOWN
>>
>> Also sean can't we create a new fast dictionary via dictioanry_gui as
>> 2.3.4 compatible version (any steps to do that)
>>
>> Error Log
>>
>> 12 Feb 2017 22:28:12  INFO JdbcConnectionFactory - Connecting to
>> jdbc:hsqldb:file:resources/org/apache/ctakes/dictionary/look
>> up/fast/custom_umls/custom_umls:
>>
>> 12 Feb 2017 22:28:12 FATAL ENGINE - could not reopen database
>>
>> org.hsqldb.HsqlException: wrong database file version
>>
>> at org.hsqldb.error.Error.error(Unknown Source)
>>
>> at org.hsqldb.error.Error.error(Unknown Source)
>>
>> at org.hsqldb.persist.HsqlDatabaseProperties.load(Unknown Source)
>>
>> at org.hsqldb.persist.Logger.open(Unknown Source)
>>
>> at org.hsqldb.Database.reopen(Unknown Source)
>>
>> at org.hsqldb.Database.open(Unknown Source)
>>
>> at org.hsqldb.DatabaseManager.getDatabase(Unknown Source)
>>
>> at org.hsqldb.DatabaseManager.newSession(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCConnection.<init>(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCDriver.getConnection(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCDriver.connect(Unknown Source)
>>
>> at java.sql.DriverManager.getConnection(DriverManager.java:664)
>>
>> at java.sql.DriverManager.getConnection(DriverManager.java:247)
>>
>> at org.apache.ctakes.dictionary.lookup2.util.JdbcConnectionFact
>> ory.getConnection(JdbcConnectionFactory.java:84)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWord
>> Dictionary.<init>(JdbcRareWordDictionary.java:91)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWord
>> Dictionary.<init>(JdbcRareWordDictionary.java:75)
>>
>> at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
>>
>> at sun.reflect.NativeConstructorAccessorImpl.newInstance(Native
>> ConstructorAccessorImpl.java:62)
>>
>> at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(De
>> legatingConstructorAccessorImpl.java:45)
>>
>> at java.lang.reflect.Constructor.newInstance(Constructor.java:422)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDictionary(DictionaryDescriptorParser.java:205)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDictionaries(DictionaryDescriptorParser.java:165)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDescriptor(DictionaryDescriptorParser.java:133)
>>
>> at org.apache.ctakes.dictionary.lookup2.ae.AbstractJCasTermAnno
>> tator.initialize(AbstractJCasTermAnnotator.java:115)
>>
>> at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine
>> _impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:250)
>>
>> at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine
>> _impl.initialize(PrimitiveAnalysisEngine_impl.java:156)
>>
>> 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(UIMAFram
>> ework.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(AggregateAnalysisEng
>> ine_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(UIMAFram
>> ework.java:354)
>>
>> at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
>>
>> at org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFra
>> me.java:476)
>>
>> at org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.
>> actionPerformed(AnnotatorOpenEventHandler.java:52)
>>
>> at javax.swing.AbstractButton.fireActionPerformed(AbstractButto
>> n.java:2022)
>>
>> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractB
>> utton.java:2346)
>>
>> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultBu
>> ttonModel.java:402)
>>
>> at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
>>
>> at javax.swing.AbstractButton.doClick(AbstractButton.java:376)
>>
>> at javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItem
>> UI.java:833)
>>
>> at com.apple.laf.AquaMenuItemUI.doClick(AquaMenuItemUI.java:157)
>>
>> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(
>> BasicMenuItemUI.java:877)
>>
>> at java.awt.Component.processMouseEvent(Component.java:6525)
>>
>> at javax.swing.JComponent.processMouseEvent(JComponent.java:3324)
>>
>> at java.awt.Component.processEvent(Component.java:6290)
>>
>> at java.awt.Container.processEvent(Container.java:2234)
>>
>> at java.awt.Component.dispatchEventImpl(Component.java:4881)
>>
>> at java.awt.Container.dispatchEventImpl(Container.java:2292)
>>
>> at java.awt.Component.dispatchEvent(Component.java:4703)
>>
>> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4898)
>>
>> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4533)
>>
>> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4462)
>>
>> at java.awt.Container.dispatchEventImpl(Container.java:2278)
>>
>> at java.awt.Window.dispatchEventImpl(Window.java:2750)
>>
>> at java.awt.Component.dispatchEvent(Component.java:4703)
>>
>> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
>>
>> at java.awt.EventQueue.access$500(EventQueue.java:97)
>>
>> at java.awt.EventQueue$3.run(EventQueue.java:709)
>>
>> at java.awt.EventQueue$3.run(EventQueue.java:703)
>>
>> at java.security.AccessController.doPrivileged(Native Method)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:75)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:86)
>>
>> at java.awt.EventQueue$4.run(EventQueue.java:731)
>>
>> at java.awt.EventQueue$4.run(EventQueue.java:729)
>>
>> at java.security.AccessController.doPrivileged(Native Method)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:75)
>>
>> at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
>>
>> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDis
>> patchThread.java:201)
>>
>> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispat
>> chThread.java:116)
>>
>> at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDis
>> patchThread.java:105)
>>
>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
>>
>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
>>
>> at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
>>
>> 12 Feb 2017 22:28:12 FATAL ENGINE - could not reopen database
>>
>> org.hsqldb.HsqlException: wrong database file version
>>
>> at org.hsqldb.error.Error.error(Unknown Source)
>>
>> at org.hsqldb.error.Error.error(Unknown Source)
>>
>> at org.hsqldb.persist.HsqlDatabaseProperties.load(Unknown Source)
>>
>> at org.hsqldb.persist.Logger.open(Unknown Source)
>>
>> at org.hsqldb.Database.reopen(Unknown Source)
>>
>> at org.hsqldb.Database.open(Unknown Source)
>>
>> at org.hsqldb.DatabaseManager.getDatabase(Unknown Source)
>>
>> at org.hsqldb.DatabaseManager.newSession(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCConnection.<init>(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCDriver.getConnection(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCDriver.connect(Unknown Source)
>>
>> at java.sql.DriverManager.getConnection(DriverManager.java:664)
>>
>> at java.sql.DriverManager.getConnection(DriverManager.java:247)
>>
>> at org.apache.ctakes.dictionary.lookup2.util.JdbcConnectionFact
>> ory.getConnection(JdbcConnectionFactory.java:84)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWord
>> Dictionary.<init>(JdbcRareWordDictionary.java:91)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWord
>> Dictionary.<init>(JdbcRareWordDictionary.java:75)
>>
>> at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
>>
>> at sun.reflect.NativeConstructorAccessorImpl.newInstance(Native
>> ConstructorAccessorImpl.java:62)
>>
>> at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(De
>> legatingConstructorAccessorImpl.java:45)
>>
>> at java.lang.reflect.Constructor.newInstance(Constructor.java:422)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDictionary(DictionaryDescriptorParser.java:205)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDictionaries(DictionaryDescriptorParser.java:165)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDescriptor(DictionaryDescriptorParser.java:133)
>>
>> at org.apache.ctakes.dictionary.lookup2.ae.AbstractJCasTermAnno
>> tator.initialize(AbstractJCasTermAnnotator.java:115)
>>
>> at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine
>> _impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:250)
>>
>> at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine
>> _impl.initialize(PrimitiveAnalysisEngine_impl.java:156)
>>
>> 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(UIMAFram
>> ework.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(AggregateAnalysisEng
>> ine_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(UIMAFram
>> ework.java:354)
>>
>> at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
>>
>> at org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFra
>> me.java:476)
>>
>> at org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.
>> actionPerformed(AnnotatorOpenEventHandler.java:52)
>>
>> at javax.swing.AbstractButton.fireActionPerformed(AbstractButto
>> n.java:2022)
>>
>> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractB
>> utton.java:2346)
>>
>> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultBu
>> ttonModel.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(BasicMenuItem
>> UI.java:833)
>>
>> at com.apple.laf.AquaMenuItemUI.doClick(AquaMenuItemUI.java:157)
>>
>> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(
>> BasicMenuItemUI.java:877)
>>
>> at java.awt.Component.processMouseEvent(Component.java:6525)
>>
>> at javax.swing.JComponent.processMouseEvent(JComponent.java:3324)
>>
>> at java.awt.Component.processEvent(Component.java:6290)
>>
>> at java.awt.Container.processEvent(Container.java:2234)
>>
>> at java.awt.Component.dispatchEventImpl(Component.java:4881)
>>
>> at java.awt.Container.dispatchEventImpl(Container.java:2292)
>>
>> at java.awt.Component.dispatchEvent(Component.java:4703)
>>
>> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4898)
>>
>> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4533)
>>
>> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4462)
>>
>> at java.awt.Container.dispatchEventImpl(Container.java:2278)
>>
>> at java.awt.Window.dispatchEventImpl(Window.java:2750)
>>
>> at java.awt.Component.dispatchEvent(Component.java:4703)
>>
>> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
>>
>> at java.awt.EventQueue.access$500(EventQueue.java:97)
>>
>> at java.awt.EventQueue$3.run(EventQueue.java:709)
>>
>> at java.awt.EventQueue$3.run(EventQueue.java:703)
>>
>> at java.security.AccessController.doPrivileged(Native Method)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:75)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:86)
>>
>> at java.awt.EventQueue$4.run(EventQueue.java:731)
>>
>> at java.awt.EventQueue$4.run(EventQueue.java:729)
>>
>> at java.security.AccessController.doPrivileged(Native Method)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:75)
>>
>> at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
>>
>> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDis
>> patchThread.java:201)
>>
>> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispat
>> chThread.java:116)
>>
>> at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDis
>> patchThread.java:105)
>>
>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
>>
>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
>>
>> at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
>>
>>
>> 12 Feb 2017 22:28:12 ERROR JdbcConnectionFactory -   Could not create
>> Connection with jdbc:hsqldb:file:/Users/shahid
>> /projects/workspace/ctakes/resources/org/apache/ctakes/dicti
>> onary/lookup/fast/custom_umls/custom_umls as sa
>>
>> java.sql.SQLException: wrong database file version
>>
>> at org.hsqldb.jdbc.JDBCUtil.sqlException(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCUtil.sqlException(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCConnection.<init>(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCDriver.getConnection(Unknown Source)
>>
>> at org.hsqldb.jdbc.JDBCDriver.connect(Unknown Source)
>>
>> at java.sql.DriverManager.getConnection(DriverManager.java:664)
>>
>> at java.sql.DriverManager.getConnection(DriverManager.java:247)
>>
>> at org.apache.ctakes.dictionary.lookup2.util.JdbcConnectionFact
>> ory.getConnection(JdbcConnectionFactory.java:84)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWord
>> Dictionary.<init>(JdbcRareWordDictionary.java:91)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWord
>> Dictionary.<init>(JdbcRareWordDictionary.java:75)
>>
>> at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
>>
>> at sun.reflect.NativeConstructorAccessorImpl.newInstance(Native
>> ConstructorAccessorImpl.java:62)
>>
>> at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(De
>> legatingConstructorAccessorImpl.java:45)
>>
>> at java.lang.reflect.Constructor.newInstance(Constructor.java:422)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDictionary(DictionaryDescriptorParser.java:205)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDictionaries(DictionaryDescriptorParser.java:165)
>>
>> at org.apache.ctakes.dictionary.lookup2.dictionary.DictionaryDe
>> scriptorParser.parseDescriptor(DictionaryDescriptorParser.java:133)
>>
>> at org.apache.ctakes.dictionary.lookup2.ae.AbstractJCasTermAnno
>> tator.initialize(AbstractJCasTermAnnotator.java:115)
>>
>> at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine
>> _impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:250)
>>
>> at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine
>> _impl.initialize(PrimitiveAnalysisEngine_impl.java:156)
>>
>> 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(UIMAFram
>> ework.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(AggregateAnalysisEng
>> ine_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(UIMAFram
>> ework.java:354)
>>
>> at org.apache.uima.tools.cvd.MainFrame.setupAE(MainFrame.java:1484)
>>
>> at org.apache.uima.tools.cvd.MainFrame.loadAEDescriptor(MainFra
>> me.java:476)
>>
>> at org.apache.uima.tools.cvd.control.AnnotatorOpenEventHandler.
>> actionPerformed(AnnotatorOpenEventHandler.java:52)
>>
>> at javax.swing.AbstractButton.fireActionPerformed(AbstractButto
>> n.java:2022)
>>
>> at javax.swing.AbstractButton$Handler.actionPerformed(AbstractB
>> utton.java:2346)
>>
>> at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultBu
>> ttonModel.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(BasicMenuItem
>> UI.java:833)
>>
>> at com.apple.laf.AquaMenuItemUI.doClick(AquaMenuItemUI.java:157)
>>
>> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(
>> BasicMenuItemUI.java:877)
>>
>> at java.awt.Component.processMouseEvent(Component.java:6525)
>>
>> at javax.swing.JComponent.processMouseEvent(JComponent.java:3324)
>>
>> at java.awt.Component.processEvent(Component.java:6290)
>>
>> at java.awt.Container.processEvent(Container.java:2234)
>>
>> at java.awt.Component.dispatchEventImpl(Component.java:4881)
>>
>> at java.awt.Container.dispatchEventImpl(Container.java:2292)
>>
>> at java.awt.Component.dispatchEvent(Component.java:4703)
>>
>> at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4898)
>>
>> at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4533)
>>
>> at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4462)
>>
>> at java.awt.Container.dispatchEventImpl(Container.java:2278)
>>
>> at java.awt.Window.dispatchEventImpl(Window.java:2750)
>>
>> at java.awt.Component.dispatchEvent(Component.java:4703)
>>
>> at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:758)
>>
>> at java.awt.EventQueue.access$500(EventQueue.java:97)
>>
>> at java.awt.EventQueue$3.run(EventQueue.java:709)
>>
>> at java.awt.EventQueue$3.run(EventQueue.java:703)
>>
>> at java.security.AccessController.doPrivileged(Native Method)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:75)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:86)
>>
>> at java.awt.EventQueue$4.run(EventQueue.java:731)
>>
>> at java.awt.EventQueue$4.run(EventQueue.java:729)
>>
>> at java.security.AccessController.doPrivileged(Native Method)
>>
>> at java.security.ProtectionDomain$1.doIntersectionPrivilege(Pro
>> tectionDomain.java:75)
>>
>> at java.awt.EventQueue.dispatchEvent(EventQueue.java:728)
>>
>> at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDis
>> patchThread.java:201)
>>
>> at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispat
>> chThread.java:116)
>>
>> at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDis
>> patchThread.java:105)
>>
>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
>>
>> at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
>>
>> at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
>>
>> Caused by: org.hsqldb.HsqlException: wrong database file version
>>
>> at org.hsqldb.error.Error.error(Unknown Source)
>>
>> at org.hsqldb.error.Error.error(Unknown Source)
>>
>> at org.hsqldb.persist.HsqlDatabaseProperties.load(Unknown Source)
>>
>> at org.hsqldb.persist.Logger.open(Unknown Source)
>>
>> at org.hsqldb.Database.reopen(Unknown Source)
>>
>> at org.hsqldb.Database.open(Unknown Source)
>>
>> at org.hsqldb.DatabaseManager.getDatabase(Unknown Source)
>>
>> at org.hsqldb.DatabaseManager.newSession(Unknown Source)
>>
>> ... 72 more
>>
>>
>>
>> On Tue, Jan 31, 2017 at 5:52 PM, Andrey Kurdumov <kant2002@googlemail.com
>> > wrote:
>>
>>> Basically after LVG2016 update you have to store all databases in HSQLDB
>>> 2.3.4 format. Thus you should upgrade data to that format. Other things
>>> exactly the same. I intentionally don't introduce other changes in the
>>> setup so it will be easier to incorporate to existing code.
>>>
>>> Steps to upgrade from HSQLDB 1.8 to 2.3.4
>>> 1. Open HSQLDB in the HSQLDb manager for version 1.8 (not 2.3.4)
>>> 2. Run following commands:
>>> SET SCRIPTFORMAT TEXT
>>> SHUTDOWN
>>> 3. Close HSQLDB manager
>>> 4. Open database in the HSQLDB Manager for version 2.3.4
>>> 5. Execute
>>> SHUTDOWN
>>> 6. Now you have database updated.
>>>
>>> LVG 2016 already comes in HSQLDB 2.3.4 format. IIRC you need update only
>>> ctakesnormx database to make pipeline works.
>>>
>>>
>>> I definitely want to have my code support LVG data outside of cTakes
>>> installation and now with latest LVG this is easily possible. Let me know
>>> if you interested in this setup.
>>>
>>> 2017-01-29 22:35 GMT+06:00 shahid ashraf <shahid@trialx.com>:
>>>
>>>> Hi Andrey
>>>>
>>>> It would be good , if you update some steps how to setup new LVG. (Have
>>>> also cloned  your repo.)
>>>>
>>>>
>>>>
>>>>
>>>> On Sun, Jan 29, 2017 at 5:59 PM, Andrey Kurdumov <
>>>> kant2002@googlemail.com> wrote:
>>>>
>>>>> I update code in GitHub to include LVG 2017
>>>>>
>>>>> 2017-01-29 15:29 GMT+06:00 Andrey Kurdumov <kant2002@googlemail.com>:
>>>>>
>>>>> > I ask guy who publish LVG to Maven update to version 2017, so I
have
>>>>> to
>>>>> > update my repository with LVG 2017 version. If you interested, I
>>>>> could
>>>>> > update LVG to that version too. Now that's just simple change in
>>>>> pom.xml
>>>>> >
>>>>> > 2017-01-29 14:39 GMT+06:00 Finan, Sean <
>>>>> Sean.Finan@childrens.harvard.edu>:
>>>>> >
>>>>> >> Hi Andrey,
>>>>> >>
>>>>> >> You have recently been a great contributor to ctakes , and I
really
>>>>> >> appreciate that.  You have answered devlist questions and your
LVG
>>>>> update
>>>>> >> is a seriously big deal.  Because of this, you are probably
very
>>>>> interested
>>>>> >> in the upcoming release.  You may have read emails that were
on the
>>>>> devlist
>>>>> >> these past two days.  I would like to assure you that no matter
>>>>> what could
>>>>> >> be read into these emails (ok, I can be a little grouchy before
the
>>>>> coffee
>>>>> >> sets in) there are at least a couple of us who really want to
get
>>>>> LVG
>>>>> >> updated and will try our best to make certain that the next
release
>>>>> >> includes the improvement.  We are happy and impressed with your
>>>>> initiative
>>>>> >> and furnishing a fully implemented update, and the 3.2.3 branch
>>>>> made a few
>>>>> >> weeks ago will just not pass muster in our opinion.  Ergh, now
I
>>>>> sound like
>>>>> >> a politician.  That is not intended.  I just want you to know
that
>>>>> even
>>>>> >> though recent emails may imply that there is an immature power
>>>>> struggle,
>>>>> >> that is not the case.  I think that everybody in the ctakes
>>>>> community wants
>>>>> >> to get a release out asap, and everybody wants it to be a quality
>>>>> release.
>>>>> >> Postponing the release a few weeks to get your updates into
the
>>>>> codebase
>>>>> >> is, in my opinion, really important.  I just want to let you
know
>>>>> that in
>>>>> >> case you were aware of the 3.2.3 RC cut made a few weeks ago
and
>>>>> worry that
>>>>> >> the update will not get into the official cut.  I will do what
I
>>>>> can to
>>>>> >> move ctakes into 2017.
>>>>> >>
>>>>> >> Regards,
>>>>> >> Sean
>>>>> >>
>>>>> >> -----Original Message-----
>>>>> >> From: Andrey Kurdumov [mailto:kant2002@googlemail.com]
>>>>> >> Sent: Thursday, January 19, 2017 6:49 AM
>>>>> >> To: cTakes developers list
>>>>> >> Subject: Update LVG to 2016 version
>>>>> >>
>>>>> >> As I promise, I udpate cTakes to support LVG version 2016 year.
>>>>> >>
>>>>> >> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.
>>>>> >> com_kant2002_cTakes&d=DwIBaQ&c=qS4goWBT7poplM69zy_3xhKwEW14J
>>>>> >> ZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao
>>>>> >> &m=RdfyvGDEhgrlIGv4Ue0X6DViLFyykHEokJgGzgoG5Vs&s=IJWxluJDIVh
>>>>> >> ugnzWsfRl0TzL0LWzW6_kunc_GRJVew4&e=
>>>>> >>
>>>>> >> Please take a look.
>>>>> >> In the github following modifications to current version of
cTakes
>>>>> >> - Removed two large files to make project fit GitHub restrictions.
>>>>> >> - Some very small cleanup which placed in separate commit.
>>>>> >> - Some fixes to ytex related tests, that's was required for
me to
>>>>> pass
>>>>> >> mvn install command.
>>>>> >>
>>>>> >> Assumptions:
>>>>> >> - User should update ctakesnormx and other databases from HSQLdb
>>>>> 1.8 to
>>>>> >> HSQLDB 2.3.4
>>>>> >>
>>>>> >> I already sign Apache ICLA as user akurdyumov for another project
>>>>> (Apache
>>>>> >> Cordova) so if you want update cTakes to LVG2016 please use
my
>>>>> code. If I
>>>>> >> need something else to submit code to cTakes project, let me
know.
>>>>> >>
>>>>> >
>>>>> >
>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> with Regards
>>>> Shahid Ashraf
>>>>
>>>
>>>
>>
>>
>> --
>> with Regards
>> Shahid Ashraf
>>
>>
>>
>> --
>> with Regards
>> Shahid Ashraf
>>
>
>
>
> --
> with Regards
> Shahid Ashraf
>

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