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Posted to commits@ctakes.apache.org by ch...@apache.org on 2012/09/25 00:05:23 UTC
svn commit: r1389618 [13/22] - 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...
Copied: incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyRegex.java (from r1388196, incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/DependencyRegex.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyRegex.java?p2=incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyRegex.java&p1=incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/DependencyRegex.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/DependencyRegex.java (original)
+++ incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyRegex.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.nlp.parser.util;
+package org.apache.ctakes.dependency.parser.util;
import java.util.Iterator;
import java.util.Set;
Copied: incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyUtility.java (from r1388196, incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/DependencyUtility.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyUtility.java?p2=incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyUtility.java&p1=incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/DependencyUtility.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/DependencyUtility.java (original)
+++ incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/DependencyUtility.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.nlp.parser.util;
+package org.apache.ctakes.dependency.parser.util;
import java.util.ArrayList;
import java.util.List;
Copied: incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/SRLUtility.java (from r1388196, incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/SRLUtility.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/SRLUtility.java?p2=incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/SRLUtility.java&p1=incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/SRLUtility.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/edu/mayo/bmi/nlp/parser/util/SRLUtility.java (original)
+++ incubator/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/SRLUtility.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.nlp.parser.util;
+package org.apache.ctakes.dependency.parser.util;
import org.apache.uima.jcas.tcas.Annotation;
import org.uimafit.util.JCasUtil;
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/README
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/README?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/README (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/README Mon Sep 24 22:04:51 2012
@@ -59,7 +59,7 @@ An example adding only some of the looku
terms with their RxNorm codes, and a dictionary of terms from the OrangeBook, and want to create
annotations for those terms that are in the OrangeBook that also have an RxNorm code.
-This can be done using class edu.mayo.bmi.uima.lookup.ae.FirstTokenPermLookupInitializerImpl
+This can be done using class org.apache.ctakes.dictionary.lookup.ae.FirstTokenPermLookupInitializerImpl
as the lookupInitializer, and using class OrangeBookFilterConsumerImpl as the lookupConsumer,
provided you have the RxNorm dictionary, and you configure the LookupDescriptorFile resource
to use your RxNorm dictionary.
@@ -89,7 +89,7 @@ A LookupDescriptorFile such as lookup/Lo
defines the dictionary(s) used, and the classes that interact with the
dictionary(s). The implementation tag identifies the type of dictionary:
lucene index (luceneImpl), database (jdbcImpl), or delimited flatfile (csvImpl).
-See class edu.mayo.bmi.uima.lookup.ae.LookupParseUtilities.java for implementation details.
+See class org.apache.ctakes.dictionary.lookup.ae.LookupParseUtilities.java for implementation details.
To better understand the dictionary lookup annotator code you could start by reading the javadocs
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AggregateAE.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AggregateAE.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AggregateAE.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AggregateAE.xml Mon Sep 24 22:04:51 2012
@@ -24,16 +24,16 @@
<primitive>false</primitive>
<delegateAnalysisEngineSpecifiers>
<delegateAnalysisEngine key="SimpleSegmentAnnotator">
-<import location="../../../core/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
+<import location="../../../ctakes-core/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
</delegateAnalysisEngine>
<delegateAnalysisEngine key="DictionaryLookupAnnotator">
<import location="DictionaryLookupAnnotatorCSV.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="SentenceDetectorAnnotator">
-<import location="../../../core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
+<import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
</delegateAnalysisEngine>
</delegateAnalysisEngineSpecifiers>
<analysisEngineMetaData>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotator.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotator.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotator.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
<taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
- <annotatorImplementationName>edu.mayo.bmi.uima.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
+ <annotatorImplementationName>org.apache.ctakes.dictionary.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
<analysisEngineMetaData>
<name>DictionaryLookupAnnotator</name>
<description/>
@@ -73,31 +73,31 @@
<externalResourceDependency>
<key>UmlsIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>LookupDescriptor</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>CodesListIndexDirectory</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.FileResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
<optional>true</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>RxnormIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>OrangeBookIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
</externalResourceDependencies>
@@ -140,7 +140,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>OrangeBookIndex</name>
@@ -179,7 +179,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>UmlsIndex</name>
@@ -218,7 +218,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>LookupDescriptorFile</name>
@@ -226,7 +226,7 @@
<fileResourceSpecifier>
<fileUrl>file:lookup/LookupDesc.xml</fileUrl>
</fileResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>CodesListIndexDirectory</name>
@@ -234,7 +234,7 @@
<fileResourceSpecifier>
<fileUrl>file:lookup/snomed-like_codes_sample</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-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorCSV.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorCSV.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorCSV.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorCSV.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
<taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
- <annotatorImplementationName>edu.mayo.bmi.uima.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
+ <annotatorImplementationName>org.apache.ctakes.dictionary.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
<analysisEngineMetaData>
<name>DictionaryLookupAnnotatorCSV</name>
<description>Dictionaries - some in lucene indexes and some in CSV files</description>
@@ -73,25 +73,25 @@
<externalResourceDependency>
<key>LookupDescriptor</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>DictionaryFile</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>RxnormIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>OrangeBookIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
</externalResourceDependencies>
@@ -103,7 +103,7 @@
<fileResourceSpecifier>
<fileUrl>file:lookup/LookupDesc_csv_sample.xml</fileUrl>
</fileResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>DictionaryFileResource</name>
@@ -111,7 +111,7 @@
<fileResourceSpecifier>
<fileUrl>file:lookup/dictionary1.csv</fileUrl>
</fileResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>RxnormIndex</name>
@@ -150,7 +150,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>OrangeBookIndex</name>
@@ -189,7 +189,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
</externalResources>
<externalResourceBindings>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorDB.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorDB.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorDB.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorDB.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
<taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
- <annotatorImplementationName>edu.mayo.bmi.uima.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
+ <annotatorImplementationName>org.apache.ctakes.dictionary.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
<analysisEngineMetaData>
<name>DictionaryLookupAnnotator</name>
<description/>
@@ -73,25 +73,25 @@
<externalResourceDependency>
<key>LookupDescriptor</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>DbConnection</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.JdbcConnectionResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.JdbcConnectionResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>RxnormIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>OrangeBookIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
</externalResourceDependencies>
@@ -103,7 +103,7 @@
<fileResourceSpecifier>
<fileUrl>file:lookup/LookupDesc_Db.xml</fileUrl>
</fileResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>DbConnectionResrc</name>
@@ -166,7 +166,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.JdbcConnectionResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.JdbcConnectionResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>RxnormIndex</name>
@@ -205,7 +205,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>OrangeBookIndex</name>
@@ -244,7 +244,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
</externalResources>
<externalResourceBindings>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/DictionaryLookupAnnotatorUMLS.xml Mon Sep 24 22:04:51 2012
@@ -22,7 +22,7 @@
<taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
- <annotatorImplementationName>edu.mayo.bmi.uima.lookup.ae.UmlsDictionaryLookupAnnotator</annotatorImplementationName>
+ <annotatorImplementationName>org.apache.ctakes.dictionary.lookup.ae.UmlsDictionaryLookupAnnotator</annotatorImplementationName>
<analysisEngineMetaData>
<name>UmlsDictionaryLookupAnnotator</name>
<description/>
@@ -130,25 +130,25 @@
<externalResourceDependency>
<key>LookupDescriptor</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>DbConnection</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.JdbcConnectionResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.JdbcConnectionResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>RxnormIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
<externalResourceDependency>
<key>OrangeBookIndexReader</key>
<description/>
- <interfaceName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource</interfaceName>
+ <interfaceName>org.apache.ctakes.core.resource.LuceneIndexReaderResource</interfaceName>
<optional>false</optional>
</externalResourceDependency>
</externalResourceDependencies>
@@ -160,7 +160,7 @@
<fileResourceSpecifier>
<fileUrl>file:lookup/LookupDesc_Db.xml</fileUrl>
</fileResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.FileResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>DbConnectionResrc</name>
@@ -205,7 +205,7 @@
<nameValuePair>
<name>URL</name>
<value>
- <string>jdbc:hsqldb:file:../dictionary lookup/resources/lookup/umls2011ab/umls</string>
+ <string>jdbc:hsqldb:file:../ctakes-dictionary-lookup/resources/lookup/umls2011ab/umls</string>
</value>
</nameValuePair>
<nameValuePair>
@@ -223,7 +223,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.JdbcConnectionResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.JdbcConnectionResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>RxnormIndex</name>
@@ -262,7 +262,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
<externalResource>
<name>OrangeBookIndex</name>
@@ -301,7 +301,7 @@
</configurationParameterSettings>
</resourceMetaData>
</configurableDataResourceSpecifier>
- <implementationName>edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResourceImpl</implementationName>
+ <implementationName>org.apache.ctakes.core.resource.LuceneIndexReaderResourceImpl</implementationName>
</externalResource>
</externalResources>
<externalResourceBindings>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/TestAggregateTAE.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/TestAggregateTAE.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/TestAggregateTAE.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/TestAggregateTAE.xml Mon Sep 24 22:04:51 2012
@@ -24,13 +24,13 @@
<primitive>false</primitive>
<delegateAnalysisEngineSpecifiers>
<delegateAnalysisEngine key="SimpleSegmentAnnotator">
-<import location="../../../core/desc/analysis_engine/SimpleSegmentAnnotator.xml"/>
+<import location="../../../ctakes-core/desc/analysis_engine/SimpleSegmentAnnotator.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="SentenceDetectorAnnotator">
-<import location="../../../core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
+<import location="../../../ctakes-core/desc/analysis_engine/SentenceDetectorAnnotator.xml"/>
</delegateAnalysisEngine>
<delegateAnalysisEngine key="DictionaryLookupAnnotator">
<import location="DictionaryLookupAnnotator.xml"/>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/LookupDesc_example_using_CSV.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/LookupDesc_example_using_CSV.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/LookupDesc_example_using_CSV.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/LookupDesc_example_using_CSV.xml Mon Sep 24 22:04:51 2012
@@ -39,11 +39,11 @@
<!-- NOTE: Only use if windowAnnotations have small # of tokens, sentences are not a good idea! -->
- <lookupInitializer className="edu.mayo.bmi.uima.lookup.ae.DirectLookupInitializerImpl">
+ <lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.DirectLookupInitializerImpl">
<properties>
</properties>
</lookupInitializer>
- <lookupConsumer className="edu.mayo.bmi.uima.lookup.ae.DebugConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.DebugConsumerImpl">
<properties>
</properties>
</lookupConsumer>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc.xml Mon Sep 24 22:04:51 2012
@@ -53,7 +53,7 @@
<lookupBinding>
<dictionaryRef idRef="DICT_UMLS_MS"/>
- <lookupInitializer className="edu.mayo.bmi.uima.lookup.ae.FirstTokenPermLookupInitializerImpl">
+ <lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.FirstTokenPermLookupInitializerImpl">
<properties>
<property key="textMetaFields" value="text"/>
<property key="maxPermutationLevel" value="5"/>
@@ -62,7 +62,7 @@
<property key="exclusionTags" value="VB,VBD,VBG,VBN,VBP,VBZ,CC,CD,DT,EX,LS,MD,PDT,POS,PP,PP$,PRP,PRP$,RP,TO,WDT,WP,WPS,WRB"/>
</properties>
</lookupInitializer>
- <lookupConsumer className="edu.mayo.bmi.uima.lookup.ae.UmlsToSnomedLuceneConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.UmlsToSnomedLuceneConsumerImpl">
<properties>
<property key="codingScheme" value="SNOMED"/>
<property key="cuiMetaField" value="cui"/>
@@ -81,7 +81,7 @@
<lookupBinding>
<dictionaryRef idRef="DICT_RXNORM"/>
- <lookupInitializer className="edu.mayo.bmi.uima.lookup.ae.FirstTokenPermLookupInitializerImpl">
+ <lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.FirstTokenPermLookupInitializerImpl">
<properties>
<property key="textMetaFields" value="preferred_designation|other_designation"/>
<property key="maxPermutationLevel" value="7"/>
@@ -90,7 +90,7 @@
<property key="exclusionTags" value="VB,VBD,VBG,VBN,VBP,VBZ,CC,CD,DT,EX,LS,MD,PDT,POS,PP,PP$,RP,TO,WDT,WP,WPS,WRB"/>
</properties>
</lookupInitializer>
- <lookupConsumer className="edu.mayo.bmi.uima.lookup.ae.OrangeBookFilterConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.OrangeBookFilterConsumerImpl">
<properties>
<property key="codingScheme" value="RXNORM"/>
<property key="codeMetaField" value="code"/>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_Db.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_Db.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_Db.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_Db.xml Mon Sep 24 22:04:51 2012
@@ -54,7 +54,7 @@
<lookupBinding>
<dictionaryRef idRef="DICT_UMLS_MS"/>
- <lookupInitializer className="edu.mayo.bmi.uima.lookup.ae.FirstTokenPermLookupInitializerImpl">
+ <lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.FirstTokenPermLookupInitializerImpl">
<properties>
<property key="textMetaFields" value="text"/>
<property key="maxPermutationLevel" value="7"/>
@@ -63,7 +63,7 @@
<property key="exclusionTags" value="VB,VBD,VBG,VBN,VBP,VBZ,CC,CD,DT,EX,LS,MD,PDT,POS,PP,PP$,PRP,PRP$,RP,TO,WDT,WP,WPS,WRB"/>
</properties>
</lookupInitializer>
- <lookupConsumer className="edu.mayo.bmi.uima.lookup.ae.UmlsToSnomedDbConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.UmlsToSnomedDbConsumerImpl">
<properties>
<property key="codingScheme" value="SNOMED"/>
<property key="cuiMetaField" value="cui"/>
@@ -80,7 +80,7 @@
<lookupBinding>
<dictionaryRef idRef="DICT_RXNORM"/>
- <lookupInitializer className="edu.mayo.bmi.uima.lookup.ae.FirstTokenPermLookupInitializerImpl">
+ <lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.FirstTokenPermLookupInitializerImpl">
<properties>
<property key="textMetaFields" value="preferred_designation|other_designation"/>
<property key="maxPermutationLevel" value="7"/>
@@ -89,7 +89,7 @@
<property key="exclusionTags" value="VB,VBD,VBG,VBN,VBP,VBZ,CC,CD,DT,EX,LS,MD,PDT,POS,PP,PP$,RP,TO,WDT,WP,WPS,WRB"/>
</properties>
</lookupInitializer>
- <lookupConsumer className="edu.mayo.bmi.uima.lookup.ae.OrangeBookFilterConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.OrangeBookFilterConsumerImpl">
<properties>
<property key="codingScheme" value="RXNORM"/>
<property key="codeMetaField" value="codeRxNorm"/> <!-- Use value="code" for UMLS CUIs -->
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_csv_sample.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_csv_sample.xml?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_csv_sample.xml (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/resources/lookup/LookupDesc_csv_sample.xml Mon Sep 24 22:04:51 2012
@@ -50,18 +50,18 @@
<!-- NOTE: Only use if windowAnnotations have small # of tokens, sentences are not a good idea! -->
- <lookupInitializer className="edu.mayo.bmi.uima.lookup.ae.DirectLookupInitializerImpl">
+ <lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.DirectLookupInitializerImpl">
<properties>
</properties>
</lookupInitializer>
- <lookupConsumer className="edu.mayo.bmi.uima.lookup.ae.NamedEntityLookupConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.NamedEntityLookupConsumerImpl">
<properties>
</properties>
</lookupConsumer>
</lookupBinding>
<lookupBinding>
<dictionaryRef idRef="DICT_RXNORM"/>
- <lookupInitializer className="edu.mayo.bmi.uima.lookup.ae.FirstTokenPermLookupInitializerImpl">
+ <lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.FirstTokenPermLookupInitializerImpl">
<properties>
<property key="textMetaFields" value="preferred_designation|other_designation"/>
<property key="maxPermutationLevel" value="7"/>
@@ -69,7 +69,7 @@
<property key="exclusionTags" value="VB,VBD,VBG,VBN,VBP,VBZ,CC,CD,DT,EX,LS,MD,PDT,POS,PP,PP$,RP,TO,WDT,WP,WPS,WRB"/>
</properties>
</lookupInitializer>
- <lookupConsumer className="edu.mayo.bmi.uima.lookup.ae.OrangeBookFilterConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.OrangeBookFilterConsumerImpl">
<properties>
<property key="codingScheme" value="RXNORM"/>
<property key="codeMetaField" value="code"/>
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexForExampleDrugs.java
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexForExampleDrugs.java?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexForExampleDrugs.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexForExampleDrugs.java Mon Sep 24 22:04:51 2012
@@ -50,7 +50,7 @@ public class CreateLuceneIndexForExample
public static void main(String args[]) throws Exception {
// Name of the lucene index directory to be created
- File indexDir = new File("C:/general_workspace/dictionary lookup/resources/lookup/drug_index");//C:/temp/lucene/" + "drug-index";
+ File indexDir = new File("C:/general_workspace/ctakes-dictionary-lookup/resources/lookup/drug_index");//C:/temp/lucene/" + "drug-index";
Analyzer analyzer = new StandardAnalyzer(Version.LUCENE_30);
boolean createFlag = true;
Modified: incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexFromDelimitedFile.java
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexFromDelimitedFile.java?rev=1389618&r1=1389617&r2=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexFromDelimitedFile.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/scripts/java/edu/mayo/bmi/dictionarytools/CreateLuceneIndexFromDelimitedFile.java Mon Sep 24 22:04:51 2012
@@ -40,9 +40,9 @@ import org.apache.lucene.analysis.standa
import org.apache.lucene.document.Document;
import org.apache.lucene.document.Field;
-import edu.mayo.bmi.nlp.tokenizer.OffsetComparator;
-import edu.mayo.bmi.nlp.tokenizer.Token;
-import edu.mayo.bmi.nlp.tokenizer.TokenizerPTB;
+import org.apache.ctakes.core.nlp.tokenizer.OffsetComparator;
+import org.apache.ctakes.core.nlp.tokenizer.Token;
+import org.apache.ctakes.core.nlp.tokenizer.TokenizerPTB;
/**
* Driver for populating a Lucene Index with RxNorm data, using the Tokenizer to
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseDictionaryImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/BaseDictionaryImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseDictionaryImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseDictionaryImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/BaseDictionaryImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/BaseDictionaryImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseDictionaryImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
import java.util.Collection;
import java.util.HashSet;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseMetaDataHitImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/BaseMetaDataHitImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseMetaDataHitImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseMetaDataHitImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/BaseMetaDataHitImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/BaseMetaDataHitImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/BaseMetaDataHitImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
/**
* Base impl for a MetaDataHit implementation.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/Dictionary.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/Dictionary.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/Dictionary.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/Dictionary.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/Dictionary.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/Dictionary.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/Dictionary.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
import java.util.Collection;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryEngine.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/DictionaryEngine.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryEngine.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryEngine.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/DictionaryEngine.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/DictionaryEngine.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryEngine.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
import java.util.ArrayList;
import java.util.Collection;
@@ -27,10 +27,11 @@ import java.util.List;
import java.util.Map;
import java.util.Set;
-import edu.mayo.bmi.dictionary.filter.CollectionFilter;
-import edu.mayo.bmi.dictionary.filter.FilterException;
-import edu.mayo.bmi.dictionary.filter.PostLookupFilter;
-import edu.mayo.bmi.dictionary.filter.PreLookupFilter;
+import org.apache.ctakes.dictionary.lookup.filter.CollectionFilter;
+import org.apache.ctakes.dictionary.lookup.filter.FilterException;
+import org.apache.ctakes.dictionary.lookup.filter.PostLookupFilter;
+import org.apache.ctakes.dictionary.lookup.filter.PreLookupFilter;
+
/**
* The engine adds additional functionality to executing a dictionary.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryException.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/DictionaryException.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryException.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryException.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/DictionaryException.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/DictionaryException.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/DictionaryException.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
/**
*
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/GenericMetaDataHitImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/GenericMetaDataHitImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/GenericMetaDataHitImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/GenericMetaDataHitImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/GenericMetaDataHitImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/GenericMetaDataHitImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/GenericMetaDataHitImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
import java.util.Collection;
import java.util.Map;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHit.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHit.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHit.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHit.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHit.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHit.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHit.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
import java.util.Collection;
import java.util.Set;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitComparator.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHitComparator.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitComparator.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitComparator.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHitComparator.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHitComparator.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitComparator.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
import java.util.Comparator;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitConst.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHitConst.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitConst.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitConst.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHitConst.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/dictionary/MetaDataHitConst.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/MetaDataHitConst.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.dictionary;
+package org.apache.ctakes.dictionary.lookup;
/**
* @author Mayo Clinic
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/BaseLookupConsumerImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/BaseLookupConsumerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/BaseLookupConsumerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/BaseLookupConsumerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/BaseLookupConsumerImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/BaseLookupConsumerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/BaseLookupConsumerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.HashMap;
import java.util.HashSet;
@@ -24,10 +24,10 @@ import java.util.Iterator;
import java.util.Map;
import java.util.Set;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
import org.apache.uima.analysis_engine.AnalysisEngineProcessException;
import org.apache.uima.jcas.JCas;
-import edu.mayo.bmi.lookup.vo.LookupHit;
/**
* Provides some base functionality for subclasses.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DebugConsumerImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DebugConsumerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DebugConsumerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DebugConsumerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DebugConsumerImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DebugConsumerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DebugConsumerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,19 +16,19 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.Iterator;
import java.util.Properties;
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
import org.apache.log4j.Logger;
import org.apache.uima.UimaContext;
import org.apache.uima.analysis_engine.AnalysisEngineProcessException;
import org.apache.uima.jcas.JCas;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.lookup.vo.LookupHit;
/**
* LookupConsumer implementation that outputs debug info to the log about each LookupHit.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DictionaryLookupAnnotator.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DictionaryLookupAnnotator.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DictionaryLookupAnnotator.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DictionaryLookupAnnotator.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DictionaryLookupAnnotator.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DictionaryLookupAnnotator.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DictionaryLookupAnnotator.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.io.File;
import java.util.ArrayList;
@@ -30,6 +30,12 @@ import java.util.List;
import java.util.Map;
import java.util.Set;
+import org.apache.ctakes.core.resource.FileResource;
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.algorithms.LookupAlgorithm;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
+import org.apache.ctakes.dictionary.lookup.vo.LookupToken;
+import org.apache.ctakes.dictionary.lookup.vo.LookupTokenComparator;
import org.apache.log4j.Logger;
import org.apache.uima.UimaContext;
import org.apache.uima.analysis_component.JCasAnnotator_ImplBase;
@@ -38,12 +44,6 @@ import org.apache.uima.jcas.JCas;
import org.apache.uima.jcas.tcas.Annotation;
import org.apache.uima.resource.ResourceInitializationException;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.lookup.algorithms.LookupAlgorithm;
-import edu.mayo.bmi.lookup.vo.LookupHit;
-import edu.mayo.bmi.lookup.vo.LookupToken;
-import edu.mayo.bmi.lookup.vo.LookupTokenComparator;
-import edu.mayo.bmi.uima.core.resource.FileResource;
/**
* UIMA annotator that identified entities based on lookup.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DirectLookupInitializerImpl.java (from r1388196, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DirectLookupInitializerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DirectLookupInitializerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DirectLookupInitializerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DirectLookupInitializerImpl.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/DirectLookupInitializerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/DirectLookupInitializerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.ArrayList;
import java.util.HashMap;
@@ -30,12 +30,13 @@ import org.apache.uima.analysis_engine.a
import org.apache.uima.jcas.JFSIndexRepository;
import org.apache.uima.jcas.JCas;
-import edu.mayo.bmi.dictionary.DictionaryEngine;
-import edu.mayo.bmi.lookup.algorithms.DirectPassThroughImpl;
-import edu.mayo.bmi.lookup.algorithms.LookupAlgorithm;
-import edu.mayo.bmi.lookup.phrasebuilder.PhraseBuilder;
-import edu.mayo.bmi.lookup.phrasebuilder.VariantPhraseBuilderImpl;
-import edu.mayo.bmi.lookup.vo.LookupToken;
+
+import org.apache.ctakes.dictionary.lookup.DictionaryEngine;
+import org.apache.ctakes.dictionary.lookup.algorithms.DirectPassThroughImpl;
+import org.apache.ctakes.dictionary.lookup.algorithms.LookupAlgorithm;
+import org.apache.ctakes.dictionary.lookup.phrasebuilder.PhraseBuilder;
+import org.apache.ctakes.dictionary.lookup.phrasebuilder.VariantPhraseBuilderImpl;
+import org.apache.ctakes.dictionary.lookup.vo.LookupToken;
import org.apache.ctakes.typesystem.type.syntax.BaseToken;
import org.apache.ctakes.typesystem.type.syntax.ContractionToken;
import org.apache.ctakes.typesystem.type.syntax.NewlineToken;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/FirstTokenPermLookupInitializerImpl.java (from r1388196, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/FirstTokenPermLookupInitializerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/FirstTokenPermLookupInitializerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/FirstTokenPermLookupInitializerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/FirstTokenPermLookupInitializerImpl.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/FirstTokenPermLookupInitializerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/FirstTokenPermLookupInitializerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.ArrayList;
import java.util.HashMap;
@@ -35,19 +35,20 @@ import org.apache.uima.jcas.JFSIndexRepo
import org.apache.uima.jcas.JCas;
import org.apache.uima.jcas.tcas.Annotation;
-import edu.mayo.bmi.dictionary.DictionaryEngine;
-import edu.mayo.bmi.lookup.algorithms.FirstTokenPermutationImpl;
-import edu.mayo.bmi.lookup.algorithms.LookupAlgorithm;
-import edu.mayo.bmi.lookup.phrasebuilder.PhraseBuilder;
-import edu.mayo.bmi.lookup.phrasebuilder.VariantPhraseBuilderImpl;
-import edu.mayo.bmi.lookup.vo.LookupToken;
+
+import org.apache.ctakes.core.util.JCasUtil;
+import org.apache.ctakes.dictionary.lookup.DictionaryEngine;
+import org.apache.ctakes.dictionary.lookup.algorithms.FirstTokenPermutationImpl;
+import org.apache.ctakes.dictionary.lookup.algorithms.LookupAlgorithm;
+import org.apache.ctakes.dictionary.lookup.phrasebuilder.PhraseBuilder;
+import org.apache.ctakes.dictionary.lookup.phrasebuilder.VariantPhraseBuilderImpl;
+import org.apache.ctakes.dictionary.lookup.vo.LookupToken;
import org.apache.ctakes.typesystem.type.syntax.BaseToken;
import org.apache.ctakes.typesystem.type.syntax.ContractionToken;
import org.apache.ctakes.typesystem.type.syntax.NewlineToken;
import org.apache.ctakes.typesystem.type.syntax.PunctuationToken;
import org.apache.ctakes.typesystem.type.syntax.SymbolToken;
import org.apache.ctakes.typesystem.type.syntax.WordToken;
-import edu.mayo.bmi.uima.core.util.JCasUtil;
/**
* @author Mayo Clinic
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupAnnotationToJCasAdapter.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupAnnotationToJCasAdapter.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupAnnotationToJCasAdapter.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupAnnotationToJCasAdapter.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupAnnotationToJCasAdapter.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupAnnotationToJCasAdapter.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupAnnotationToJCasAdapter.java Mon Sep 24 22:04:51 2012
@@ -16,15 +16,15 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.HashMap;
import java.util.Map;
+import org.apache.ctakes.dictionary.lookup.vo.LookupAnnotation;
+import org.apache.ctakes.dictionary.lookup.vo.LookupToken;
import org.apache.uima.jcas.tcas.Annotation;
-import edu.mayo.bmi.lookup.vo.LookupAnnotation;
-import edu.mayo.bmi.lookup.vo.LookupToken;
/**
* @author Mayo Clinic
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupConsumer.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupConsumer.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupConsumer.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupConsumer.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupConsumer.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupConsumer.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupConsumer.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.Iterator;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupInitializer.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupInitializer.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupInitializer.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupInitializer.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupInitializer.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupInitializer.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupInitializer.java Mon Sep 24 22:04:51 2012
@@ -16,16 +16,16 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.Iterator;
import java.util.Map;
+import org.apache.ctakes.dictionary.lookup.DictionaryEngine;
+import org.apache.ctakes.dictionary.lookup.algorithms.LookupAlgorithm;
import org.apache.uima.analysis_engine.annotator.AnnotatorInitializationException;
import org.apache.uima.jcas.JCas;
-import edu.mayo.bmi.dictionary.DictionaryEngine;
-import edu.mayo.bmi.lookup.algorithms.LookupAlgorithm;
/**
* Defines how to initialize the LookupAnnotator.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupParseUtilities.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupParseUtilities.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupParseUtilities.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupParseUtilities.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupParseUtilities.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupParseUtilities.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupParseUtilities.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.io.File;
import java.io.FileReader;
@@ -32,6 +32,18 @@ import java.util.Properties;
import java.util.Set;
import java.util.StringTokenizer;
+import org.apache.ctakes.core.resource.FileResource;
+import org.apache.ctakes.core.resource.JdbcConnectionResource;
+import org.apache.ctakes.core.resource.LuceneIndexReaderResource;
+import org.apache.ctakes.dictionary.lookup.Dictionary;
+import org.apache.ctakes.dictionary.lookup.DictionaryEngine;
+import org.apache.ctakes.dictionary.lookup.algorithms.LookupAlgorithm;
+import org.apache.ctakes.dictionary.lookup.filter.StringPreLookupFilterImpl;
+import org.apache.ctakes.dictionary.lookup.jdbc.JdbcDictionaryImpl;
+import org.apache.ctakes.dictionary.lookup.lucene.LuceneDictionaryImpl;
+import org.apache.ctakes.dictionary.lookup.strtable.StringTable;
+import org.apache.ctakes.dictionary.lookup.strtable.StringTableDictionaryImpl;
+import org.apache.ctakes.dictionary.lookup.strtable.StringTableFactory;
import org.apache.lucene.index.IndexReader;
import org.apache.lucene.search.IndexSearcher;
import org.apache.uima.UimaContext;
@@ -41,18 +53,6 @@ import org.jdom.Element;
import org.jdom.JDOMException;
import org.jdom.input.SAXBuilder;
-import edu.mayo.bmi.dictionary.Dictionary;
-import edu.mayo.bmi.dictionary.DictionaryEngine;
-import edu.mayo.bmi.dictionary.filter.StringPreLookupFilterImpl;
-import edu.mayo.bmi.dictionary.jdbc.JdbcDictionaryImpl;
-import edu.mayo.bmi.dictionary.lucene.LuceneDictionaryImpl;
-import edu.mayo.bmi.dictionary.strtable.StringTable;
-import edu.mayo.bmi.dictionary.strtable.StringTableDictionaryImpl;
-import edu.mayo.bmi.dictionary.strtable.StringTableFactory;
-import edu.mayo.bmi.lookup.algorithms.LookupAlgorithm;
-import edu.mayo.bmi.uima.core.resource.FileResource;
-import edu.mayo.bmi.uima.core.resource.JdbcConnectionResource;
-import edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource;
/**
* @author Mayo Clinic
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupSpec.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupSpec.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupSpec.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupSpec.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupSpec.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/LookupSpec.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/LookupSpec.java Mon Sep 24 22:04:51 2012
@@ -16,9 +16,9 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
-import edu.mayo.bmi.lookup.algorithms.LookupAlgorithm;
+import org.apache.ctakes.dictionary.lookup.algorithms.LookupAlgorithm;
/**
* A container for three related classes used to lookup terms in a dictionary and process hits found.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/NamedEntityLookupConsumerImpl.java (from r1388196, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/NamedEntityLookupConsumerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/NamedEntityLookupConsumerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/NamedEntityLookupConsumerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/NamedEntityLookupConsumerImpl.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/NamedEntityLookupConsumerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/NamedEntityLookupConsumerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.Collection;
import java.util.HashSet;
@@ -29,8 +29,9 @@ import org.apache.uima.analysis_engine.A
import org.apache.uima.jcas.JCas;
import org.apache.uima.jcas.cas.FSArray;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.lookup.vo.LookupHit;
+
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
import org.apache.ctakes.typesystem.type.refsem.OntologyConcept;
import org.apache.ctakes.typesystem.type.textsem.EntityMention;
import org.apache.ctakes.typesystem.type.textsem.EventMention;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/OrangeBookFilterConsumerImpl.java (from r1388196, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/OrangeBookFilterConsumerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/OrangeBookFilterConsumerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/OrangeBookFilterConsumerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/OrangeBookFilterConsumerImpl.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/OrangeBookFilterConsumerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/OrangeBookFilterConsumerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.util.Collection;
import java.util.HashSet;
@@ -36,9 +36,10 @@ import org.apache.uima.analysis_engine.A
import org.apache.uima.jcas.JCas;
import org.apache.uima.jcas.cas.FSArray;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.lookup.vo.LookupHit;
-import edu.mayo.bmi.uima.core.resource.LuceneIndexReaderResource;
+
+import org.apache.ctakes.core.resource.LuceneIndexReaderResource;
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
import org.apache.ctakes.typesystem.type.refsem.OntologyConcept;
import org.apache.ctakes.typesystem.type.textsem.EventMention;
import org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsDictionaryLookupAnnotator.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsDictionaryLookupAnnotator.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsDictionaryLookupAnnotator.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsDictionaryLookupAnnotator.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsDictionaryLookupAnnotator.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsDictionaryLookupAnnotator.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsDictionaryLookupAnnotator.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.io.BufferedReader;
import java.io.InputStreamReader;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedConsumerImpl.java (from r1388196, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedConsumerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedConsumerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedConsumerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedConsumerImpl.java&r1=1388196&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedConsumerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedConsumerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.sql.SQLException;
import java.util.ArrayList;
@@ -34,9 +34,10 @@ import org.apache.uima.analysis_engine.A
import org.apache.uima.jcas.JCas;
import org.apache.uima.jcas.cas.FSArray;
-import edu.mayo.bmi.dictionary.DictionaryException;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.lookup.vo.LookupHit;
+
+import org.apache.ctakes.dictionary.lookup.DictionaryException;
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
import org.apache.ctakes.typesystem.type.refsem.UmlsConcept;
import org.apache.ctakes.typesystem.type.textsem.EntityMention;
import org.apache.ctakes.typesystem.type.textsem.MedicationEventMention;
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedDbConsumerImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedDbConsumerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedDbConsumerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedDbConsumerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedDbConsumerImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedDbConsumerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedDbConsumerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.sql.Connection;
import java.sql.PreparedStatement;
@@ -26,9 +26,9 @@ import java.util.HashSet;
import java.util.Properties;
import java.util.Set;
+import org.apache.ctakes.core.resource.JdbcConnectionResource;
import org.apache.uima.UimaContext;
-import edu.mayo.bmi.uima.core.resource.JdbcConnectionResource;
/**
* Implementation that takes UMLS dictionary lookup hits and stores as NamedEntity
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedLuceneConsumerImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedLuceneConsumerImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedLuceneConsumerImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedLuceneConsumerImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedLuceneConsumerImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/uima/lookup/ae/UmlsToSnomedLuceneConsumerImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/ae/UmlsToSnomedLuceneConsumerImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.uima.lookup.ae;
+package org.apache.ctakes.dictionary.lookup.ae;
import java.io.File;
@@ -26,6 +26,10 @@ import java.util.HashSet;
import java.util.Properties;
import java.util.Set;
+import org.apache.ctakes.core.resource.FileResource;
+import org.apache.ctakes.dictionary.lookup.DictionaryException;
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.lucene.LuceneDictionaryImpl;
import org.apache.log4j.Logger;
import org.apache.lucene.index.IndexReader;
import org.apache.lucene.search.IndexSearcher;
@@ -33,10 +37,6 @@ import org.apache.lucene.store.FSDirecto
import org.apache.uima.UimaContext;
import org.apache.uima.analysis_engine.annotator.AnnotatorConfigurationException;
-import edu.mayo.bmi.dictionary.DictionaryException;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.dictionary.lucene.LuceneDictionaryImpl;
-import edu.mayo.bmi.uima.core.resource.FileResource;
/**
* Implementation that takes UMLS dictionary lookup hits and stores as NamedEntity
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/DirectPassThroughImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/DirectPassThroughImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/DirectPassThroughImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/DirectPassThroughImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/DirectPassThroughImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/DirectPassThroughImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/DirectPassThroughImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.lookup.algorithms;
+package org.apache.ctakes.dictionary.lookup.algorithms;
import java.util.ArrayList;
import java.util.Collection;
@@ -24,11 +24,12 @@ import java.util.Iterator;
import java.util.List;
import java.util.Map;
-import edu.mayo.bmi.dictionary.DictionaryEngine;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.lookup.phrasebuilder.PhraseBuilder;
-import edu.mayo.bmi.lookup.vo.LookupHit;
-import edu.mayo.bmi.lookup.vo.LookupToken;
+import org.apache.ctakes.dictionary.lookup.DictionaryEngine;
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.phrasebuilder.PhraseBuilder;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
+import org.apache.ctakes.dictionary.lookup.vo.LookupToken;
+
/**
* Each individual LookupToken is referenced against a Dictionary.
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/FirstTokenPermutationImpl.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/FirstTokenPermutationImpl.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/FirstTokenPermutationImpl.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/FirstTokenPermutationImpl.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/FirstTokenPermutationImpl.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/FirstTokenPermutationImpl.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/FirstTokenPermutationImpl.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.lookup.algorithms;
+package org.apache.ctakes.dictionary.lookup.algorithms;
import java.util.ArrayList;
import java.util.Collection;
@@ -28,14 +28,14 @@ import java.util.List;
import java.util.Map;
import java.util.Set;
+import org.apache.ctakes.dictionary.lookup.DictionaryEngine;
+import org.apache.ctakes.dictionary.lookup.MetaDataHit;
+import org.apache.ctakes.dictionary.lookup.phrasebuilder.PhraseBuilder;
+import org.apache.ctakes.dictionary.lookup.vo.LookupAnnotation;
+import org.apache.ctakes.dictionary.lookup.vo.LookupHit;
+import org.apache.ctakes.dictionary.lookup.vo.LookupToken;
import org.apache.log4j.Logger;
-import edu.mayo.bmi.dictionary.DictionaryEngine;
-import edu.mayo.bmi.dictionary.MetaDataHit;
-import edu.mayo.bmi.lookup.phrasebuilder.PhraseBuilder;
-import edu.mayo.bmi.lookup.vo.LookupAnnotation;
-import edu.mayo.bmi.lookup.vo.LookupHit;
-import edu.mayo.bmi.lookup.vo.LookupToken;
/**
* <b>OVERVIEW: </b> Each LookupToken is fed into a "first token" Dictionary. A
Copied: incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/LookupAlgorithm.java (from r1388092, incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/LookupAlgorithm.java)
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/LookupAlgorithm.java?p2=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/LookupAlgorithm.java&p1=incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/LookupAlgorithm.java&r1=1388092&r2=1389618&rev=1389618&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/edu/mayo/bmi/lookup/algorithms/LookupAlgorithm.java (original)
+++ incubator/ctakes/trunk/ctakes-dictionary-lookup/src/main/java/org/apache/ctakes/dictionary/lookup/algorithms/LookupAlgorithm.java Mon Sep 24 22:04:51 2012
@@ -16,7 +16,7 @@
* specific language governing permissions and limitations
* under the License.
*/
-package edu.mayo.bmi.lookup.algorithms;
+package org.apache.ctakes.dictionary.lookup.algorithms;
import java.util.Collection;
import java.util.List;