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From chen...@apache.org
Subject svn commit: r1646497 - in /ctakes/trunk: ctakes-clinical-pipeline/ ctakes-clinical-pipeline/desc/analysis_engine/ ctakes-drug-ner/desc/analysis_engine/
Date Thu, 18 Dec 2014 17:42:56 GMT
Author: chenpei
Date: Thu Dec 18 17:42:56 2014
New Revision: 1646497

URL: http://svn.apache.org/r1646497
Log:
CTAKES-344 - Add DrugNER to clinical-pipeline
Add to default fast pipeline.
Remove redundant Aggregate and Dictionary descriptors inside drug ner.  
It should just depend on Dictionary Lookup and not create it's own lookup dictionaries.

Removed:
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DictionaryLookupAnnotator.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregateCDAProcessor.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregateCDAUMLSProcessor.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextProcessor.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextUMLSProcessor.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugCNP2LookupWindow.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugLookupWindowAnnotator.xml
    ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/NegationDxAnnotator.xml
Modified:
    ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextFastUMLSProcessor.xml
    ctakes/trunk/ctakes-clinical-pipeline/pom.xml

Modified: ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextFastUMLSProcessor.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextFastUMLSProcessor.xml?rev=1646497&r1=1646496&r2=1646497&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextFastUMLSProcessor.xml
(original)
+++ ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextFastUMLSProcessor.xml
Thu Dec 18 17:42:56 2014
@@ -85,6 +85,10 @@
     <delegateAnalysisEngine key="LvgAnnotator">
       <import location="../../../ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml"/>
     </delegateAnalysisEngine>
+    
+    <delegateAnalysisEngine key="DrugNER">
+      <import location="../../../ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml"/>
+    </delegateAnalysisEngine>    
 <!--     
     <delegateAnalysisEngine key="AssertionAnnotator">
       <import location="../../../ctakes-assertion/desc/AssertionMiniPipelineAnalysisEngine.xml"/>
@@ -171,6 +175,7 @@
         <node>AdjustNounPhraseToIncludeFollowingPPNP</node>
         <!--<node>LookupWindowAnnotator</node>-->
         <node>DictionaryLookupAnnotatorDB</node>
+        <node>DrugNER</node>
         <node>DependencyParser</node>
 		<node>SemanticRoleLabeler</node>        
 		<node>ConstituencyParser</node>

Modified: ctakes/trunk/ctakes-clinical-pipeline/pom.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/pom.xml?rev=1646497&r1=1646496&r2=1646497&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/pom.xml (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/pom.xml Thu Dec 18 17:42:56 2014
@@ -67,6 +67,10 @@
 		</dependency>
 		<dependency>
 			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-drug-ner</artifactId>
+		</dependency>		
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
 			<artifactId>ctakes-assertion</artifactId>
 		</dependency>
 		<dependency>



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