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Posted to commits@ctakes.apache.org by ch...@apache.org on 2014/11/05 21:09:05 UTC
svn commit: r1636948 - in
/ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine:
AggregatePlaintextProcessor.xml AggregatePlaintextUMLSProcessor.xml
Author: chenpei
Date: Wed Nov 5 20:09:04 2014
New Revision: 1636948
URL: http://svn.apache.org/r1636948
Log:
CTAKES-326 - Defaulting to the new clearTK based Assertion annotators.
Modified:
ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextProcessor.xml
ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextUMLSProcessor.xml
Modified: ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextProcessor.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextProcessor.xml?rev=1636948&r1=1636947&r2=1636948&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextProcessor.xml (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextProcessor.xml Wed Nov 5 20:09:04 2014
@@ -35,9 +35,11 @@
<delegateAnalysisEngine key="ExtractionPrepAnnotator">
<import location="ExtractionPrepAnnotator.xml"/>
</delegateAnalysisEngine>
+<!--
<delegateAnalysisEngine key="NegationAnnotator">
<import location="../../../ctakes-ne-contexts/desc/NegationAnnotator.xml"/>
</delegateAnalysisEngine>
+ -->
<delegateAnalysisEngine key="SentenceDetectorAnnotator">
<import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
</delegateAnalysisEngine>
@@ -52,9 +54,11 @@
<import location="../../../ctakes-pos-tagger/desc/ClearNLPPOSTagger.xml"/>
</delegateAnalysisEngine>
-->
+ <!--
<delegateAnalysisEngine key="StatusAnnotator">
<import location="../../../ctakes-ne-contexts/desc/StatusAnnotator.xml"/>
</delegateAnalysisEngine>
+ -->
<delegateAnalysisEngine key="AdjustNounPhraseToIncludeFollowingNP">
<import location="../../../ctakes-chunker/desc/AdjustNounPhraseToIncludeFollowingNP.xml"/>
</delegateAnalysisEngine>
@@ -69,10 +73,28 @@
</delegateAnalysisEngine>
<delegateAnalysisEngine key="DictionaryLookupAnnotator">
<import location="../../../ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotator.xml"/>
-</delegateAnalysisEngine>
-<delegateAnalysisEngine key="AssertionAnnotator">
-<import location="../../../ctakes-assertion/desc/AssertionMiniPipelineAnalysisEngine.xml"/>
-</delegateAnalysisEngine>
+<!--
+ <delegateAnalysisEngine key="AssertionAnnotator">
+ <import location="../../../ctakes-assertion/desc/AssertionMiniPipelineAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+ -->
+ <delegateAnalysisEngine key="GenericCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/GenericCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+
+ <delegateAnalysisEngine key="HistoryCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/HistoryCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+ <delegateAnalysisEngine key="PolarityCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/PolarityCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+ <delegateAnalysisEngine key="SubjectCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/SubjectCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+ <delegateAnalysisEngine key="UncertaintyCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/UncertaintyCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+
<delegateAnalysisEngine key="DependencyParser">
<import location="../../../ctakes-dependency-parser/desc/analysis_engine/ClearNLPDependencyParserAE.xml"/>
</delegateAnalysisEngine>
@@ -132,11 +154,16 @@ Includes adjusting NP chunks to include
<node>DependencyParser</node>
<node>SemanticRoleLabeler</node>
-<node>AssertionAnnotator</node>
-<!--
- <node>StatusAnnotator</node>
- <node>NegationAnnotator</node>
- -->
+ <node>SemanticRoleLabeler</node>
+ <!-- <node>AssertionAnnotator</node> -->
+ <!-- <node>StatusAnnotator</node> -->
+ <!-- <node>NegationAnnotator</node> -->
+ <node>GenericCleartkAnalysisEngine"></node>
+ <node>HistoryCleartkAnalysisEngine"></node>
+ <node>PolarityCleartkAnalysisEngine</node>
+ <node>SubjectCleartkAnalysisEngine</node>
+ <node>UncertaintyCleartkAnalysisEngine</node>
+
<node>ExtractionPrepAnnotator</node>
</fixedFlow>
</flowConstraints>
Modified: ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextUMLSProcessor.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextUMLSProcessor.xml?rev=1636948&r1=1636947&r2=1636948&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextUMLSProcessor.xml (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/AggregatePlaintextUMLSProcessor.xml Wed Nov 5 20:09:04 2014
@@ -85,9 +85,28 @@
<delegateAnalysisEngine key="LvgAnnotator">
<import location="../../../ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml"/>
</delegateAnalysisEngine>
+<!--
<delegateAnalysisEngine key="AssertionAnnotator">
<import location="../../../ctakes-assertion/desc/AssertionMiniPipelineAnalysisEngine.xml"/>
</delegateAnalysisEngine>
+ -->
+ <delegateAnalysisEngine key="GenericCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/GenericCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+
+ <delegateAnalysisEngine key="HistoryCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/HistoryCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+ <delegateAnalysisEngine key="PolarityCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/PolarityCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+ <delegateAnalysisEngine key="SubjectCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/SubjectCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+ <delegateAnalysisEngine key="UncertaintyCleartkAnalysisEngine">
+ <import location="../../../ctakes-assertion/desc/analysis_engine/UncertaintyCleartkAnalysisEngine.xml"/>
+ </delegateAnalysisEngine>
+
<delegateAnalysisEngine key="DependencyParser">
<import location="../../../ctakes-dependency-parser/desc/analysis_engine/ClearNLPDependencyParserAE.xml"/>
</delegateAnalysisEngine>
@@ -147,11 +166,15 @@ and requires an UMLS license. Please up
<node>DictionaryLookupAnnotatorDB</node>
<node>DependencyParser</node>
<node>SemanticRoleLabeler</node>
- <node>AssertionAnnotator</node>
- <!--
- <node>StatusAnnotator</node>
- <node>NegationAnnotator</node>
- -->
+ <!-- <node>AssertionAnnotator</node> -->
+ <!-- <node>StatusAnnotator</node> -->
+ <!-- <node>NegationAnnotator</node> -->
+ <node>GenericCleartkAnalysisEngine"></node>
+ <node>HistoryCleartkAnalysisEngine"></node>
+ <node>PolarityCleartkAnalysisEngine</node>
+ <node>SubjectCleartkAnalysisEngine</node>
+ <node>UncertaintyCleartkAnalysisEngine</node>
+
<node>ExtractionPrepAnnotator</node>
</fixedFlow>
</flowConstraints>