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From "Miller, Timothy" <Timothy.Mil...@childrens.harvard.edu>
Subject RE: [VOTE] Release Apache cTAKES 3.2.0
Date Fri, 04 Jul 2014 16:01:04 GMT
I get an error when I try to run the CVD following the README instructions for the binary release:

7/4/14 11:56:03 AM - 12: org.apache.uima.tools.cvd.MainFrame.handleException(527): SEVERE:
Initialization of annotator class "org.apache.ctakes.assertion.medfacts.AssertionAnalysisEngine"
failed.  (Descriptor: file:/home/tmill/Projects/sandbox/ctakes-rcs/apache-ctakes-3.2.0/desc/ctakes-assertion/desc/assertionAnalysisEngine.xml)
org.apache.uima.resource.ResourceInitializationException: Initialization of annotator class
"org.apache.ctakes.assertion.medfacts.AssertionAnalysisEngine" failed.  (Descriptor: file:/home/tmill/Projects/sandbox/ctakes-rcs/apache-ctakes-3.2.0/desc/ctakes-assertion/desc/assertionAnalysisEngine.xml)
	at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:252)
	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(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: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:3311)
	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:735)
	at java.awt.EventQueue.access$200(EventQueue.java:103)
	at java.awt.EventQueue$3.run(EventQueue.java:694)
	at java.awt.EventQueue$3.run(EventQueue.java:692)
	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:708)
	at java.awt.EventQueue$4.run(EventQueue.java:706)
	at java.security.AccessController.doPrivileged(Native Method)
	at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:76)
	at java.awt.EventQueue.dispatchEvent(EventQueue.java:705)
	at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:242)
	at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:161)
	at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:150)
	at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:146)
	at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:138)
	at java.awt.EventDispatchThread.run(EventDispatchThread.java:91)
Caused by: java.lang.RuntimeException: problem accessing resource
	at org.apache.ctakes.assertion.medfacts.AssertionAnalysisEngine.initialize(AssertionAnalysisEngine.java:114)
	at org.apache.uima.analysis_engine.impl.PrimitiveAnalysisEngine_impl.initializeAnalysisComponent(PrimitiveAnalysisEngine_impl.java:250)
	... 62 more
Caused by: org.apache.uima.resource.ResourceAccessException
	at org.apache.uima.impl.UimaContext_ImplBase.getResourceFilePath(UimaContext_ImplBase.java:253)
	at org.apache.ctakes.assertion.medfacts.AssertionAnalysisEngine.initialize(AssertionAnalysisEngine.java:93)
	... 63 more


________________________________________
From: Finan, Sean [Sean.Finan@childrens.harvard.edu]
Sent: Wednesday, July 02, 2014 3:49 PM
To: dev@ctakes.apache.org
Subject: RE: [VOTE] Release Apache cTAKES 3.2.0

+1

Pulled fresh candidate, built, and ran Clinical using CPE without problem.  Other than that,
no testing.  SVN gave me a problem initially (checked out as anonymous) asking for a password
then flunking the checkout, but an update completed it.  I blame the heat.
________________________________________
From: Masanz, James J. [Masanz.James@mayo.edu]
Sent: Monday, June 30, 2014 10:24 PM
To: dev@ctakes.apache.org
Subject: RE: [VOTE] Release Apache cTAKES 3.2.0

This is pretty obvious, but since this is a record of what was voted upon,
note that some of the URLs contain an extra

ctakes-3.2.0/

For example
http://people.apache.org/~chenpei/RCs/ctakes-3.2.0/ctakes-3.2.0/apache-ctakes-3.2.0-src.tar.gz

should be just
http://people.apache.org/~chenpei/RCs/ctakes-3.2.0/apache-ctakes-3.2.0-src.tar.gz

-- James

________________________________________
From: Pei Chen [chenpei@apache.org]
Sent: Friday, June 27, 2014 5:15 PM
To: dev@ctakes.apache.org
Subject: [VOTE] Release Apache cTAKES 3.2.0

Hi all,

This is a call for a vote on releasing the following candidate (rc1) as
Apache cTAKES 3.2.0.
The major changes include:
- New optional YTEX component(s) (Yale Extensions to cTAKES)
- New optional improved/faster dictionary lookup (dictionary-lookup-fast)
- New optional Temporal component (Time + Event extraction.  Relations will
be including in a future release.)
- Other bug fixes/enhancements from Jira

[TODO: Online documentation still needs to be updated on wiki for the abo]

For more detailed information on the changes/release notes, please visit:
https://issues.apache.org/jira/secure/ReleaseNote.jspa?projectId=12313621&version=12324066

The release was made using the cTAKES release process documented here:
http://ctakes.apache.org/ctakes-release-guide.html

The candidate is available at:
http://people.apache.org/~chenpei/RCs/ctakes-3.2.0/ctakes-3.2.0/apache-ctakes-3.2.0-src.tar.gz
/.zip

The tag to be voted on:
http://svn.apache.org/repos/asf/ctakes/tags/ctakes-3.2.0-rc1/

The MD5 checksum of the tarball can be found at:
http://people.apache.org/~chenpei/RCs/ctakes-3.2.0/ctakes-3.2.0/apache-ctakes-3.2.0-src.tar.gz.md5
/.zip.md5

The signature of the tarball can be found at:
http://people.apache.org/~chenpei/RCs/ctakes-3.2.0/ctakes-3.2.0/apache-ctakes-3.2.0-src.tar.gz.asc
/.zip.asc

Apache cTAKES' KEYS file, containing the PGP keys used to sign the release:
https://dist.apache.org/repos/dist/release/ctakes/KEYS

Please vote on releasing these packages as Apache cTAKES 3.2.0. The vote is
open for at least the next 72 hours.
Only votes from the cTAKES PMC are binding, but folks are welcome to check
the release candidate and voice their approval or disapproval.
The vote passes if at least three binding +1 votes are cast.

[ ] +1 Release the packages as Apache cTAKES 3.2.0
[ ] -1 Do not release the packages because...

Also, the convenience binary can be found at:
http://people.apache.org/~chenpei/RCs/ctakes-3.2.0/ctakes-3.2.0/apache-ctakes-3.2.0-bin.tar.gz
/.zip
Note: It's tempoarily on people.a.o because the artifacts were too large
for https://dist.apache.org/repos/dist/dev/ctakes (Working with infra on
increasing the limit).


Thanks!

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