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From chen...@apache.org
Subject svn commit: r1389618 [10/22] - in /incubator/ctakes/trunk: ./ ctakes-chunker/ ctakes-chunker/desc/ ctakes-chunker/resources/launch/ ctakes-chunker/src/main/java/edu/ ctakes-chunker/src/main/java/org/ ctakes-chunker/src/main/java/org/apache/ ctakes-chun...
Date Mon, 24 Sep 2012 22:05:23 GMT
Modified: incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableCreator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableCreator.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableCreator.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableCreator.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
   <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
   <primitive>true</primitive>
-  <annotatorImplementationName>org.chboston.cnlp.ctakes.coref.uima.ae.MipacqMarkableCreator</annotatorImplementationName>
+  <annotatorImplementationName>org.apache.ctakes.coreference.ae.MipacqMarkableCreator</annotatorImplementationName>
   <analysisEngineMetaData>
     <name>MarkableCreator</name>
     <description>Create Markables from NEs and Pronouns</description>
@@ -102,7 +102,7 @@
     <typeSystemDescription>
       <imports>
         <import location="type-system/CorefTypes.xml"/>
-        <import location="../../common-type-system/desc/common_type_system.xml"/>
+        <import location="../../ctakes-type-system/desc/common_type_system.xml"/>
       </imports>
     </typeSystemDescription>
     <typePriorities/>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableExpander.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableExpander.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableExpander.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkableExpander.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
   <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
   <primitive>true</primitive>
-  <annotatorImplementationName>org.chboston.cnlp.ctakes.coref.uima.ae.MipacqMarkableExpander</annotatorImplementationName>
+  <annotatorImplementationName>org.apache.ctakes.coreference.ae.MipacqMarkableExpander</annotatorImplementationName>
   <analysisEngineMetaData>
     <name>MarkableExpander</name>
     <description>Expands the char offsets of an NE markable to its closest LookupWindowAnnotation.</description>
@@ -32,7 +32,7 @@
     <configurationParameterSettings/>
     <typeSystemDescription>
       <imports>
-        <import location="../../common-type-system/desc/common_type_system.xml"/>
+        <import location="../../ctakes-type-system/desc/common_type_system.xml"/>
         <import location="type-system/CorefTypes.xml"/>
       </imports>
     </typeSystemDescription>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkablePairGenerator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkablePairGenerator.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkablePairGenerator.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/MipacqMarkablePairGenerator.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
   <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
   <primitive>true</primitive>
-  <annotatorImplementationName>org.chboston.cnlp.ctakes.coref.uima.ae.MipacqMarkablePairGenerator</annotatorImplementationName>
+  <annotatorImplementationName>org.apache.ctakes.coreference.ae.MipacqMarkablePairGenerator</annotatorImplementationName>
   <analysisEngineMetaData>
     <name>MipacqMarkablePairGenerator</name>
     <description/>
@@ -50,7 +50,7 @@
     <externalResourceDependency>
       <key>stopWords</key>
       <description/>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
   </externalResourceDependencies>
@@ -62,7 +62,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:stop.txt</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
     </externalResources>
     <externalResourceBindings>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmChainCreator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmChainCreator.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmChainCreator.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmChainCreator.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
   <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
   <primitive>true</primitive>
-  <annotatorImplementationName>org.chboston.cnlp.ctakes.coref.uima.ae.MipacqSvmChainCreator</annotatorImplementationName>
+  <annotatorImplementationName>org.apache.ctakes.coreference.ae.MipacqSvmChainCreator</annotatorImplementationName>
   <analysisEngineMetaData>
     <name>SvmChainCreator</name>
     <description/>
@@ -54,37 +54,37 @@
     <externalResourceDependency>
       <key>svmPronModel</key>
       <description>pronoun model file</description>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
     <externalResourceDependency>
       <key>svmDemModel</key>
       <description>demonstrative and relative pronoun model file</description>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
     <externalResourceDependency>
       <key>svmAnaphoricityModel</key>
       <description>anaphoricity classifier model file</description>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
     <externalResourceDependency>
       <key>svmCorefModel</key>
       <description>coreference classifier model file</description>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
     <externalResourceDependency>
       <key>stopWords</key>
       <description>snowball English stop words list</description>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>true</optional>
     </externalResourceDependency>
     <externalResourceDependency>
       <key>frags</key>
       <description>File of tree kernel fragment features</description>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>true</optional>
     </externalResourceDependency>
   </externalResourceDependencies>
@@ -96,7 +96,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:pronoun.mayo.rbf.model</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
       <externalResource>
         <name>svmDemModelFile</name>
@@ -104,7 +104,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:dem.model</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
       <externalResource>
         <name>svmAnaphoricityModelFile</name>
@@ -112,7 +112,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:anaphoricity.mayo.rbf.model</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
       <externalResource>
         <name>svmCorefModelFile</name>
@@ -120,7 +120,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:ne.mayo.rbf.model</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
       <externalResource>
         <name>StopWordsFile</name>
@@ -128,7 +128,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:stop.txt</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
       <externalResource>
         <name>fragsFile</name>
@@ -136,7 +136,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:frags.txt</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
     </externalResources>
     <externalResourceBindings>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmVectorCreator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmVectorCreator.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmVectorCreator.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/MipacqSvmVectorCreator.xml Mon Sep 24 22:04:51 2012
@@ -48,7 +48,7 @@
       <imports>
         <import location="type-system/VecInst.xml"/>
         <import location="type-system/CorefTypes.xml"/>
-        <import location="../../core/src/edu/mayo/bmi/uima/core/type/DocumentID.xml"/>
+        <import location="../../ctakes-core/src/main/java/org/apache/ctakes/ctakes-core/type/DocumentID.xml"/>
       </imports>
     </typeSystemDescription>
     <typePriorities/>
@@ -70,7 +70,7 @@
     <externalResourceDependency>
       <key>stopWords</key>
       <description/>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
   </externalResourceDependencies>
@@ -82,7 +82,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:stop.txt</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
     </externalResources>
     <externalResourceBindings>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefProcessor.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefProcessor.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefProcessor.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefProcessor.xml Mon Sep 24 22:04:51 2012
@@ -27,43 +27,43 @@
       <import location="../../../Constituency Parser/desc/ConstituencyParserAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="TokenizerAnnotator">
-      <import location="../../../core/desc/analysis_engine/TokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/TokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ContextDependentTokenizerAnnotator">
-      <import location="../../../context dependent tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-context-tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="NegationAnnotator">
-      <import location="../../../NE contexts/desc/NegationAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/NegationAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="StatusAnnotator">
-      <import location="../../../NE contexts/desc/StatusAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/StatusAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqSvmCoreferenceResolverAggregate">
       <import location="../MipacqSvmCoreferenceResolverAggregate.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SentenceDetectorAnnotator">
-      <import location="../../../core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SimpleSegmentAnnotator">
-      <import location="../../../core/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="POSTagger">
-      <import location="../../../POS tagger/desc/POSTagger.xml"/>
+      <import location="../../../ctakes-pos-tagger/desc/POSTagger.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="Chunker">
-      <import location="../../../chunker/desc/Chunker.xml"/>
+      <import location="../../../ctakes-chunker/desc/Chunker.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="DictionaryLookupAnnotator">
-      <import location="../../../dictionary lookup/desc/analysis_engine/DictionaryLookupAnnotator.xml"/>
+      <import location="../../../ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ExtractionPrepAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/ExtractionPrepAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/ExtractionPrepAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LookupWindowAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LvgAnnotator">
-      <import location="../../../LVG/desc/analysis_engine/LvgAnnotator.xml"/>
+      <import location="../../../ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml"/>
     </delegateAnalysisEngine>
   </delegateAnalysisEngineSpecifiers>
   <analysisEngineMetaData>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefUMLSProcessor.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefUMLSProcessor.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefUMLSProcessor.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/CorefUMLSProcessor.xml Mon Sep 24 22:04:51 2012
@@ -27,34 +27,34 @@
       <import location="../../../Constituency Parser/desc/ConstituencyParserAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="TokenizerAnnotator">
-      <import location="../../../core/desc/analysis_engine/TokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/TokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ContextDependentTokenizerAnnotator">
-      <import location="../../../context dependent tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-context-tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="NegationAnnotator">
-      <import location="../../../NE contexts/desc/NegationAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/NegationAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="StatusAnnotator">
-      <import location="../../../NE contexts/desc/StatusAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/StatusAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="DictionaryLookupAnnotatorUMLS">
-      <import location="../../../dictionary lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
+      <import location="../../../ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableExpander">
       <import location="../MipacqMarkableExpander.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SentenceDetectorAnnotator">
-      <import location="../../../core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SimpleSegmentAnnotator">
-      <import location="../../../core/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="POSTagger">
-      <import location="../../../POS tagger/desc/POSTagger.xml"/>
+      <import location="../../../ctakes-pos-tagger/desc/POSTagger.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="Chunker">
-      <import location="../../../chunker/desc/Chunker.xml"/>
+      <import location="../../../ctakes-chunker/desc/Chunker.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableCreator">
       <import location="../MipacqMarkableCreator.xml"/>
@@ -66,10 +66,10 @@
       <import location="../MipacqMarkablePairGenerator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LookupWindowAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LvgAnnotator">
-      <import location="../../../LVG/desc/analysis_engine/LvgAnnotator.xml"/>
+      <import location="../../../ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml"/>
     </delegateAnalysisEngine>
   </delegateAnalysisEngineSpecifiers>
   <analysisEngineMetaData>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/MarkablePairPlaintextDBProcessor.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/MarkablePairPlaintextDBProcessor.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/MarkablePairPlaintextDBProcessor.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/MarkablePairPlaintextDBProcessor.xml Mon Sep 24 22:04:51 2012
@@ -27,49 +27,49 @@
       <import location="../../../Constituency Parser/desc/ConstituencyParserAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="TokenizerAnnotator">
-      <import location="../../../core/desc/analysis_engine/TokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/TokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ContextDependentTokenizerAnnotator">
-      <import location="../../../context dependent tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-context-tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="NegationAnnotator">
-      <import location="../../../NE contexts/desc/NegationAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/NegationAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="StatusAnnotator">
-      <import location="../../../NE contexts/desc/StatusAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/StatusAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableExpander">
       <import location="../MipacqMarkableExpander.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SentenceDetectorAnnotator">
-      <import location="../../../core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SimpleSegmentAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="POSTagger">
-      <import location="../../../POS tagger/desc/POSTagger.xml"/>
+      <import location="../../../ctakes-pos-tagger/desc/POSTagger.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="Chunker">
-      <import location="../../../chunker/desc/Chunker.xml"/>
+      <import location="../../../ctakes-chunker/desc/Chunker.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableCreator">
       <import location="../MipacqMarkableCreator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="DictionaryLookupAnnotatorDB">
-      <import location="../../../dictionary lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
+      <import location="../../../ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ExtractionPrepAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/ExtractionPrepAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/ExtractionPrepAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkablePairGenerator">
       <import location="../MipacqMarkablePairGenerator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LookupWindowAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LvgAnnotator">
-      <import location="../../../LVG/desc/analysis_engine/LvgAnnotator.xml"/>
+      <import location="../../../ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml"/>
     </delegateAnalysisEngine>
   </delegateAnalysisEngineSpecifiers>
   <analysisEngineMetaData>
@@ -162,7 +162,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:stop.txt</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
     </externalResources>
   </resourceManagerConfiguration>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator.xml Mon Sep 24 22:04:51 2012
@@ -27,37 +27,37 @@
       <import location="../../../Constituency Parser/desc/ConstituencyParserAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="TokenizerAnnotator">
-      <import location="../../../core/desc/analysis_engine/TokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/TokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ContextDependentTokenizerAnnotator">
-      <import location="../../../context dependent tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-context-tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="NegationAnnotator">
-      <import location="../../../NE contexts/desc/NegationAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/NegationAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="StatusAnnotator">
-      <import location="../../../NE contexts/desc/StatusAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/StatusAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableExpander">
       <import location="../MipacqMarkableExpander.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="DictionaryLookupAnnotatorUMLS">
-      <import location="../../../dictionary lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
+      <import location="../../../ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SentenceDetectorAnnotator">
-      <import location="../../../core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ODIEVectorFileWriterCasConsumer">
       <import location="../cas_consumer/ODIEVectorFileWriterCasConsumer.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SimpleSegmentAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="POSTagger">
-      <import location="../../../POS tagger/desc/POSTagger.xml"/>
+      <import location="../../../ctakes-pos-tagger/desc/POSTagger.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="Chunker">
-      <import location="../../../chunker/desc/Chunker.xml"/>
+      <import location="../../../ctakes-chunker/desc/Chunker.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableCreator">
       <import location="../MipacqMarkableCreator.xml"/>
@@ -66,10 +66,10 @@
       <import location="../MipacqMarkablePairGenerator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LookupWindowAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LvgAnnotator">
-      <import location="../../../LVG/desc/analysis_engine/LvgAnnotator.xml"/>
+      <import location="../../../ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml"/>
     </delegateAnalysisEngine>
   </delegateAnalysisEngineSpecifiers>
   <analysisEngineMetaData>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator_wSection.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator_wSection.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator_wSection.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/analysis_engine/ODIESvmVectorCreator_wSection.xml Mon Sep 24 22:04:51 2012
@@ -27,37 +27,37 @@
       <import location="../../../Constituency Parser/desc/ConstituencyParserAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="TokenizerAnnotator">
-      <import location="../../../core/desc/analysis_engine/TokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/TokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ContextDependentTokenizerAnnotator">
-      <import location="../../../context dependent tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
+      <import location="../../../ctakes-context-tokenizer/desc/analysis_engine/ContextDependentTokenizerAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="NegationAnnotator">
-      <import location="../../../NE contexts/desc/NegationAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/NegationAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="StatusAnnotator">
-      <import location="../../../NE contexts/desc/StatusAnnotator.xml"/>
+      <import location="../../../ctakes-ne-contexts/desc/StatusAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableExpander">
       <import location="../MipacqMarkableExpander.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="DictionaryLookupAnnotatorUMLS">
-      <import location="../../../dictionary lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
+      <import location="../../../ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SentenceDetectorAnnotator">
-      <import location="../../../core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
+      <import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="ODIEVectorFileWriterCasConsumer">
       <import location="../cas_consumer/ODIEVectorFileWriterCasConsumer.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SimpleSegmentAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="POSTagger">
-      <import location="../../../POS tagger/desc/POSTagger.xml"/>
+      <import location="../../../ctakes-pos-tagger/desc/POSTagger.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="Chunker">
-      <import location="../../../chunker/desc/Chunker.xml"/>
+      <import location="../../../ctakes-chunker/desc/Chunker.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="MipacqMarkableCreator">
       <import location="../MipacqMarkableCreator.xml"/>
@@ -66,13 +66,13 @@
       <import location="../MipacqMarkablePairGenerator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LookupWindowAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/LookupWindowAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="SectionSegmentAnnotator">
-      <import location="../../../clinical documents pipeline/desc/analysis_engine/SectionSegmentAnnotator.xml"/>
+      <import location="../../../ctakes-clinical-pipeline/desc/analysis_engine/SectionSegmentAnnotator.xml"/>
     </delegateAnalysisEngine>
     <delegateAnalysisEngine key="LvgAnnotator">
-      <import location="../../../LVG/desc/analysis_engine/LvgAnnotator.xml"/>
+      <import location="../../../ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml"/>
     </delegateAnalysisEngine>
   </delegateAnalysisEngineSpecifiers>
   <analysisEngineMetaData>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/EvaluationConsumer.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/EvaluationConsumer.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/EvaluationConsumer.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/EvaluationConsumer.xml Mon Sep 24 22:04:51 2012
@@ -21,7 +21,7 @@
 -->
 <casConsumerDescription xmlns="http://uima.apache.org/resourceSpecifier">
   <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
-  <implementationName>org.chboston.cnlp.ctakes.coref.uima.cc.EvaluationConsumer</implementationName>
+  <implementationName>org.apache.ctakes.coreference.cc.EvaluationConsumer</implementationName>
   <processingResourceMetaData>
     <name>EvaluationConsumer</name>
     <description>Calculates MUC, B3, and CEAF scores.

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/ODIEVectorFileWriterCasConsumer.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/ODIEVectorFileWriterCasConsumer.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/ODIEVectorFileWriterCasConsumer.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/cas_consumer/ODIEVectorFileWriterCasConsumer.xml Mon Sep 24 22:04:51 2012
@@ -21,7 +21,7 @@
 -->
 <casConsumerDescription xmlns="http://uima.apache.org/resourceSpecifier">
   <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
-  <implementationName>org.chboston.cnlp.ctakes.coref.uima.cc.ODIEVectorFileWriter</implementationName>
+  <implementationName>org.apache.ctakes.coreference.cc.ODIEVectorFileWriter</implementationName>
   <processingResourceMetaData>
     <name>Create libsvm input</name>
     <description>Write the vector values in the CAS to a file plain text, one instance per line</description>
@@ -96,7 +96,7 @@
     </configurationParameterSettings>
     <typeSystemDescription>
       <imports>
-        <import location="../../../common-type-system/desc/common_type_system.xml"/>
+        <import location="../../../ctakes-type-system/desc/common_type_system.xml"/>
       </imports>
     </typeSystemDescription>
     <typePriorities/>
@@ -123,13 +123,13 @@
     <externalResourceDependency>
       <key>stopWords</key>
       <description/>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
     <externalResourceDependency>
       <key>treeFrags</key>
       <description/>
-      <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+      <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
       <optional>false</optional>
     </externalResourceDependency>
   </externalResourceDependencies>
@@ -141,7 +141,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:stop.txt</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
       <externalResource>
         <name>treeFragFile</name>
@@ -149,7 +149,7 @@
         <fileResourceSpecifier>
           <fileUrl>file:frags.txt</fileUrl>
         </fileResourceSpecifier>
-        <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+        <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
       </externalResource>
     </externalResources>
     <externalResourceBindings>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/Coref-resolver_CPE.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/Coref-resolver_CPE.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/Coref-resolver_CPE.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/Coref-resolver_CPE.xml Mon Sep 24 22:04:51 2012
@@ -23,7 +23,7 @@
     <collectionReader>
         <collectionIterator>
             <descriptor>
-                <import location="../../../core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
+                <import location="../../../ctakes-core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
             </descriptor>
             <configurationParameterSettings>
                 <nameValuePair>
@@ -50,7 +50,7 @@
         </casProcessor>
         <casProcessor deployment="integrated" name="Create output">
             <descriptor>
-                <import location="../../../core/desc/cas_consumer/FileWriterCasConsumer.xml"/>
+                <import location="../../../ctakes-core/desc/cas_consumer/FileWriterCasConsumer.xml"/>
             </descriptor>
             <deploymentParameters/>
             <errorHandling>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/ODIESvmModelCPE.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/ODIESvmModelCPE.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/ODIESvmModelCPE.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/ODIESvmModelCPE.xml Mon Sep 24 22:04:51 2012
@@ -23,7 +23,7 @@
     <collectionReader>
         <collectionIterator>
             <descriptor>
-                <import location="../../../core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
+                <import location="../../../ctakes-core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
             </descriptor>
             <configurationParameterSettings>
                 <nameValuePair>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SectionModelCPE.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SectionModelCPE.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SectionModelCPE.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SectionModelCPE.xml Mon Sep 24 22:04:51 2012
@@ -23,7 +23,7 @@
     <collectionReader>
         <collectionIterator>
             <descriptor>
-                <import location="../../../core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
+                <import location="../../../ctakes-core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
             </descriptor>
             <configurationParameterSettings>
                 <nameValuePair>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SystemScoringCPE.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SystemScoringCPE.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SystemScoringCPE.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/collection_processing_engine/SystemScoringCPE.xml Mon Sep 24 22:04:51 2012
@@ -23,7 +23,7 @@
     <collectionReader>
         <collectionIterator>
             <descriptor>
-                <import location="../../../core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
+                <import location="../../../ctakes-core/desc/collection_reader/FilesInDirectoryCollectionReader.xml"/>
             </descriptor>
             <configurationParameterSettings>
                 <nameValuePair>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BinaryRelation.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BinaryRelation.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BinaryRelation.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BinaryRelation.xml Mon Sep 24 22:04:51 2012
@@ -30,19 +30,19 @@
   </imports>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.BinaryRelation</name>
+      <name>org.apache.ctakes.coreference.type.BinaryRelation</name>
       <description/>
-      <supertypeName>org.mipacq.annotation.type.Relation</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.Relation</supertypeName>
       <features>
         <featureDescription>
           <name>arg1</name>
           <description/>
-          <rangeTypeName>org.mipacq.annotation.type.RelationArgument</rangeTypeName>
+          <rangeTypeName>org.apache.ctakes.coreference.type.RelationArgument</rangeTypeName>
         </featureDescription>
         <featureDescription>
           <name>arg2</name>
           <description/>
-          <rangeTypeName>org.mipacq.annotation.type.RelationArgument</rangeTypeName>
+          <rangeTypeName>org.apache.ctakes.coreference.type.RelationArgument</rangeTypeName>
         </featureDescription>
       </features>
     </typeDescription>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BooleanLabeledFS.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BooleanLabeledFS.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BooleanLabeledFS.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/BooleanLabeledFS.xml Mon Sep 24 22:04:51 2012
@@ -26,7 +26,7 @@
   <vendor/>
   <types>
     <typeDescription>
-      <name>org.chboston.cnlp.ctakes.common.type.BooleanLabeledFS</name>
+      <name>org.apache.ctakes.coreference.type.BooleanLabeledFS</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CollectionRelation.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CollectionRelation.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CollectionRelation.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CollectionRelation.xml Mon Sep 24 22:04:51 2012
@@ -30,9 +30,9 @@
   </imports>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.CollectionRelation</name>
+      <name>org.apache.ctakes.coreference.type.CollectionRelation</name>
       <description/>
-      <supertypeName>org.mipacq.annotation.type.Relation</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.Relation</supertypeName>
       <features>
         <featureDescription>
           <name>members</name>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CorefTypes.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CorefTypes.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CorefTypes.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CorefTypes.xml Mon Sep 24 22:04:51 2012
@@ -30,7 +30,7 @@
   </imports>
   <types>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.Markable</name>
+      <name>org.apache.ctakes.coreference.type.Markable</name>
       <description/>
       <supertypeName>uima.tcas.Annotation</supertypeName>
       <features>
@@ -52,34 +52,34 @@
       </features>
     </typeDescription>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.PronounMarkable</name>
+      <name>org.apache.ctakes.coreference.type.PronounMarkable</name>
       <description/>
-      <supertypeName>edu.mayo.bmi.uima.coref.type.Markable</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.Markable</supertypeName>
     </typeDescription>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.NEMarkable</name>
+      <name>org.apache.ctakes.coreference.type.NEMarkable</name>
       <description/>
-      <supertypeName>edu.mayo.bmi.uima.coref.type.Markable</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.Markable</supertypeName>
     </typeDescription>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.DemMarkable</name>
+      <name>org.apache.ctakes.coreference.type.DemMarkable</name>
       <description/>
-      <supertypeName>edu.mayo.bmi.uima.coref.type.Markable</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.Markable</supertypeName>
     </typeDescription>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.MarkablePair</name>
+      <name>org.apache.ctakes.coreference.type.MarkablePair</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>
         <featureDescription>
           <name>antecedent</name>
           <description>Proposed antecedent</description>
-          <rangeTypeName>edu.mayo.bmi.uima.coref.type.Markable</rangeTypeName>
+          <rangeTypeName>org.apache.ctakes.coreference.type.Markable</rangeTypeName>
         </featureDescription>
         <featureDescription>
           <name>anaphor</name>
           <description/>
-          <rangeTypeName>edu.mayo.bmi.uima.coref.type.Markable</rangeTypeName>
+          <rangeTypeName>org.apache.ctakes.coreference.type.Markable</rangeTypeName>
         </featureDescription>
         <featureDescription>
           <name>label</name>
@@ -89,14 +89,14 @@
       </features>
     </typeDescription>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.MarkablePairSet</name>
+      <name>org.apache.ctakes.coreference.type.MarkablePairSet</name>
       <description/>
       <supertypeName>uima.tcas.Annotation</supertypeName>
       <features>
         <featureDescription>
           <name>anaphor</name>
           <description/>
-          <rangeTypeName>edu.mayo.bmi.uima.coref.type.Markable</rangeTypeName>
+          <rangeTypeName>org.apache.ctakes.coreference.type.Markable</rangeTypeName>
         </featureDescription>
         <featureDescription>
           <name>antecedentList</name>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CoreferenceRelation.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CoreferenceRelation.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CoreferenceRelation.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/CoreferenceRelation.xml Mon Sep 24 22:04:51 2012
@@ -29,9 +29,9 @@
   </imports>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.CoreferenceRelation</name>
+      <name>org.apache.ctakes.coreference.type.CoreferenceRelation</name>
       <description/>
-      <supertypeName>org.mipacq.annotation.type.BinaryRelation</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.BinaryRelation</supertypeName>
       <features>
         <featureDescription>
           <name>coref_prob</name>
@@ -41,9 +41,9 @@
       </features>
     </typeDescription>
     <typeDescription>
-      <name>org.mipacq.annotation.type.NonCoreferenceRelation</name>
+      <name>org.apache.ctakes.coreference.type.NonCoreferenceRelation</name>
       <description>Hypothesized but negative example of coreference.  Used for debugging coreference model.</description>
-      <supertypeName>org.mipacq.annotation.type.BinaryRelation</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.BinaryRelation</supertypeName>
       <features>
         <featureDescription>
           <name>coref_prob</name>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/DiscoveryTechnique.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/DiscoveryTechnique.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/DiscoveryTechnique.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/DiscoveryTechnique.xml Mon Sep 24 22:04:51 2012
@@ -26,7 +26,7 @@
   <vendor/>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.DiscoveryTechnique</name>
+      <name>org.apache.ctakes.coreference.type.DiscoveryTechnique</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Pair.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Pair.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Pair.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Pair.xml Mon Sep 24 22:04:51 2012
@@ -26,7 +26,7 @@
   <vendor/>
   <types>
     <typeDescription>
-      <name>org.chboston.cnlp.ctakes.common.type.Pair</name>
+      <name>org.apache.ctakes.coreference.type.Pair</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/PredicateArgRelation.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/PredicateArgRelation.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/PredicateArgRelation.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/PredicateArgRelation.xml Mon Sep 24 22:04:51 2012
@@ -29,9 +29,9 @@
   </imports>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.PredicateArgRelation</name>
+      <name>org.apache.ctakes.coreference.type.PredicateArgRelation</name>
       <description/>
-      <supertypeName>org.mipacq.annotation.type.BinaryRelation</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.BinaryRelation</supertypeName>
     </typeDescription>
   </types>
 </typeSystemDescription>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Properties.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Properties.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Properties.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Properties.xml Mon Sep 24 22:04:51 2012
@@ -26,7 +26,7 @@
   <vendor/>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.Properties</name>
+      <name>org.apache.ctakes.coreference.type.Properties</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Relation.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Relation.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Relation.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/Relation.xml Mon Sep 24 22:04:51 2012
@@ -30,7 +30,7 @@
   </imports>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.Relation</name>
+      <name>org.apache.ctakes.coreference.type.Relation</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>
@@ -47,12 +47,12 @@
         <featureDescription>
           <name>discoveryTechnique</name>
           <description/>
-          <rangeTypeName>org.mipacq.annotation.type.DiscoveryTechnique</rangeTypeName>
+          <rangeTypeName>org.apache.ctakes.coreference.type.DiscoveryTechnique</rangeTypeName>
         </featureDescription>
         <featureDescription>
           <name>properties</name>
           <description/>
-          <rangeTypeName>org.mipacq.annotation.type.Properties</rangeTypeName>
+          <rangeTypeName>org.apache.ctakes.coreference.type.Properties</rangeTypeName>
         </featureDescription>
       </features>
     </typeDescription>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/RelationArgument.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/RelationArgument.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/RelationArgument.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/RelationArgument.xml Mon Sep 24 22:04:51 2012
@@ -26,7 +26,7 @@
   <vendor/>
   <types>
     <typeDescription>
-      <name>org.mipacq.annotation.type.RelationArgument</name>
+      <name>org.apache.ctakes.coreference.type.RelationArgument</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>
@@ -48,9 +48,9 @@
       </features>
     </typeDescription>
     <typeDescription>
-      <name>org.mipacq.annotation.type.UnrelationArgument</name>
+      <name>org.apache.ctakes.coreference.type.UnrelationArgument</name>
       <description>A relation argument for a negative example.  Used mainly for debugging.</description>
-      <supertypeName>org.mipacq.annotation.type.RelationArgument</supertypeName>
+      <supertypeName>org.apache.ctakes.coreference.type.RelationArgument</supertypeName>
     </typeDescription>
   </types>
 </typeSystemDescription>

Modified: incubator/ctakes/trunk/ctakes-coreference/desc/type-system/VecInst.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/desc/type-system/VecInst.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/desc/type-system/VecInst.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/desc/type-system/VecInst.xml Mon Sep 24 22:04:51 2012
@@ -26,7 +26,7 @@
   <vendor/>
   <types>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.VecInstance</name>
+      <name>org.apache.ctakes.coreference.type.VecInstance</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>
@@ -63,7 +63,7 @@
       </features>
     </typeDescription>
     <typeDescription>
-      <name>edu.mayo.bmi.uima.coref.type.AnaphoricityVecInstance</name>
+      <name>org.apache.ctakes.coreference.type.AnaphoricityVecInstance</name>
       <description/>
       <supertypeName>uima.cas.TOP</supertypeName>
       <features>

Modified: incubator/ctakes/trunk/ctakes-coreference/metadata/install.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/metadata/install.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/metadata/install.xml (original)
+++ incubator/ctakes/trunk/ctakes-coreference/metadata/install.xml Mon Sep 24 22:04:51 2012
@@ -39,7 +39,7 @@
 			<ACTION>set_env_variable</ACTION>
 			<PARAMETERS>
 				<COMMENTS></COMMENTS>
-				<VAR_VALUE>$main_root/bin;/Applications/eclipse/plugins/org.junit_4.8.1.v4_8_1_v20100427-1100/junit.jar;/Applications/eclipse/plugins/org.hamcrest.core_1.1.0.v20090501071000.jar;$main_root/bin;$main_root/../core/bin;$main_root/../core/resources;$main_root/../core/lib/opennlp-tools-1.4.3.jar;$main_root/../core/lib/maxent-2.5.0.jar;$main_root/../core/lib/jdom.jar;$main_root/../core/lib/log4j-1.2.8.jar;$main_root/../core/lib/lucene-core-3.0.2.jar;$main_root/../core/lib/trove.jar;$main_root/../core/lib/OpenAI_FSM.jar;/Applications/apache-uima/lib/uimaj-bootstrap.jar;/Applications/apache-uima/lib/uima-tools.jar;/Applications/apache-uima/lib/uima-examples.jar;/Applications/apache-uima/lib/uima-document-annotation.jar;/Applications/apache-uima/lib/uima-cpe.jar;/Applications/apache-uima/lib/uima-core.jar;/Applications/apache-uima/lib/uima-adapter-vinci.jar;/Applications/apache-uima/lib/uima-adapter-soap.jar;/Applications/apache-uima/lib/jVinci.jar;/Applications/eclipse/plugins/o
 rg.junit_4.8.1.v4_8_1_v20100427-1100/junit.jar;/Applications/eclipse/plugins/org.hamcrest.core_1.1.0.v20090501071000.jar;$main_root/../core/lib/MIRUtility.jar;$main_root/../NE contexts/bin;$main_root/../dictionary lookup/bin;$main_root/../dictionary lookup/resources;$main_root/../context dependent tokenizer/bin;$main_root/../chunker/bin;$main_root/../chunker/resources;$main_root/../POS tagger/bin;$main_root/../POS tagger/resources;$main_root/../LVG/bin;$main_root/../LVG/resources;$main_root/../LVG/lib/lvg2008dist.jar;$main_root/resources;$main_root/desc;$main_root/../clinical documents pipeline/bin;$main_root/../clinical documents pipeline/resources;$main_root/../document preprocessor/bin;$main_root/../document preprocessor/lib/log4j-1.2.8.jar;$main_root/../document preprocessor/resources;$main_root/../document preprocessor/lib/xercesImpl.jar;$main_root/../document preprocessor/lib/xml-apis.jar;$main_root/../document preprocessor/lib/xmlParserAPIs.jar;$main_root/lib/libsvm-2
 .91.jar;$main_root/lib/lucene-core-3.0.2.jar;$main_root/resources;$main_root/desc;$main_root/lib/libsvm-2.91.jar;$main_root/lib/lucene-core-3.0.2.jar;</VAR_VALUE>
+				<VAR_VALUE>$main_root/bin;/Applications/eclipse/plugins/org.junit_4.8.1.v4_8_1_v20100427-1100/junit.jar;/Applications/eclipse/plugins/org.hamcrest.core_1.1.0.v20090501071000.jar;$main_root/bin;$main_root/../ctakes-core/bin;$main_root/../ctakes-core/resources;$main_root/../ctakes-core/lib/opennlp-tools-1.4.3.jar;$main_root/../ctakes-core/lib/maxent-2.5.0.jar;$main_root/../ctakes-core/lib/jdom.jar;$main_root/../ctakes-core/lib/log4j-1.2.8.jar;$main_root/../ctakes-core/lib/lucene-core-3.0.2.jar;$main_root/../ctakes-core/lib/trove.jar;$main_root/../ctakes-core/lib/OpenAI_FSM.jar;/Applications/apache-uima/lib/uimaj-bootstrap.jar;/Applications/apache-uima/lib/uima-tools.jar;/Applications/apache-uima/lib/uima-examples.jar;/Applications/apache-uima/lib/uima-document-annotation.jar;/Applications/apache-uima/lib/uima-cpe.jar;/Applications/apache-uima/lib/uima-core.jar;/Applications/apache-uima/lib/uima-adapter-vinci.jar;/Applications/apache-uima/lib/uima-adapter-soap.jar;/Applicat
 ions/apache-uima/lib/jVinci.jar;/Applications/eclipse/plugins/org.junit_4.8.1.v4_8_1_v20100427-1100/junit.jar;/Applications/eclipse/plugins/org.hamcrest.core_1.1.0.v20090501071000.jar;$main_root/../ctakes-core/lib/MIRUtility.jar;$main_root/../ctakes-ne-contexts/bin;$main_root/../ctakes-dictionary-lookup/bin;$main_root/../ctakes-dictionary-lookup/resources;$main_root/../ctakes-context-tokenizer/bin;$main_root/../ctakes-chunker/bin;$main_root/../ctakes-chunker/resources;$main_root/../ctakes-pos-tagger/bin;$main_root/../ctakes-pos-tagger/resources;$main_root/../ctakes-lvg/bin;$main_root/../ctakes-lvg/resources;$main_root/../ctakes-lvg/lib/lvg2008dist.jar;$main_root/resources;$main_root/desc;$main_root/../ctakes-clinical-pipeline/bin;$main_root/../ctakes-clinical-pipeline/resources;$main_root/../ctakes-preprocessor/bin;$main_root/../ctakes-preprocessor/lib/log4j-1.2.8.jar;$main_root/../ctakes-preprocessor/resources;$main_root/../ctakes-preprocessor/lib/xercesImpl.jar;$main_root/
 ../ctakes-preprocessor/lib/xml-apis.jar;$main_root/../ctakes-preprocessor/lib/xmlParserAPIs.jar;$main_root/lib/libsvm-2.91.jar;$main_root/lib/lucene-core-3.0.2.jar;$main_root/resources;$main_root/desc;$main_root/lib/libsvm-2.91.jar;$main_root/lib/lucene-core-3.0.2.jar;</VAR_VALUE>
 				<VAR_NAME>CLASSPATH</VAR_NAME>
 			</PARAMETERS>
 		</PROCESS>

Modified: incubator/ctakes/trunk/ctakes-coreference/resources/launch/UIMA_CPE--coref-resolver.launch
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-coreference/resources/launch/UIMA_CPE--coref-resolver.launch?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-coreference/resources/launch/UIMA_CPE--coref-resolver.launch (original)
+++ incubator/ctakes/trunk/ctakes-coreference/resources/launch/UIMA_CPE--coref-resolver.launch Mon Sep 24 22:04:51 2012
@@ -9,31 +9,31 @@
 <listAttribute key="org.eclipse.jdt.launching.CLASSPATH">
 <listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry containerPath=&quot;org.eclipse.jdt.launching.JRE_CONTAINER&quot; javaProject=&quot;coref-resolver&quot; path=&quot;1&quot; type=&quot;4&quot;/&gt;&#13;&#10;"/>
 <listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry id=&quot;org.eclipse.jdt.launching.classpathentry.defaultClasspath&quot;&gt;&#13;&#10;&lt;memento exportedEntriesOnly=&quot;false&quot; project=&quot;coref-resolver&quot;/&gt;&#13;&#10;&lt;/runtimeClasspathEntry&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry path=&quot;3&quot; projectName=&quot;clinical documents pipeline&quot; type=&quot;1&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry path=&quot;3&quot; projectName=&quot;ctakes-clinical-pipeline&quot; type=&quot;1&quot;/&gt;&#13;&#10;"/>
 <listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry path=&quot;3&quot; projectName=&quot;core&quot; type=&quot;1&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/core/lib/opennlp-tools-1.4.3.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/core/lib/maxent-2.5.0.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/core/lib/log4j-1.2.8.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/core/lib/trove.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-core/lib/opennlp-tools-1.4.3.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-core/lib/maxent-2.5.0.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-core/lib/log4j-1.2.8.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-core/lib/trove.jar&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
 <listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry path=&quot;3&quot; projectName=&quot;dictionary lookup&quot; type=&quot;1&quot;/&gt;&#13;&#10;"/>
 <listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry path=&quot;3&quot; projectName=&quot;Constituency Parser&quot; type=&quot;1&quot;/&gt;&#13;&#10;"/>
 <listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry containerPath=&quot;org.eclipse.jdt.USER_LIBRARY/cTakes&quot; path=&quot;3&quot; type=&quot;4&quot;/&gt;&#13;&#10;"/>
 <listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry containerPath=&quot;org.eclipse.jdt.USER_LIBRARY/UIMA&quot; path=&quot;3&quot; type=&quot;4&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/chunker/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/chunker/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/clinical documents pipeline/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/clinical documents pipeline/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/core/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/core/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/dependency parser/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/dependency parser/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/dictionary lookup/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/dictionary lookup/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/LVG/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/LVG/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/NE contexts/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/POS tagger/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
-<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/POS tagger/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-chunker/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-chunker/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-clinical-pipeline/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-clinical-pipeline/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-core/desc&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
+<listEntry value="&lt;?xml version=&quot;1.0&quot; encoding=&quot;UTF-8&quot; standalone=&quot;no&quot;?&gt;&#13;&#10;&lt;runtimeClasspathEntry internalArchive=&quot;/ctakes-core/resources&quot; path=&quot;3&quot; type=&quot;2&quot;/&gt;&#13;&#10;"/>
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