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Posted to commits@ctakes.apache.org by sp...@apache.org on 2012/12/18 16:49:43 UTC
svn commit: r1423486 [2/2] - in
/incubator/ctakes/branches/ctakes-3.0.0-incubating:
ctakes-core/src/main/resources/org/apache/ctakes/core/analysis_engine/
ctakes-drug-ner/ ctakes-drug-ner/desc/analysis_engine/
ctakes-drug-ner/desc/cas_consumer/ ctakes-...
Modified: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-pad-term-spotter/pom.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-pad-term-spotter/pom.xml?rev=1423486&r1=1423485&r2=1423486&view=diff
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-pad-term-spotter/pom.xml (original)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-pad-term-spotter/pom.xml Tue Dec 18 15:49:41 2012
@@ -58,6 +58,14 @@
<groupId>junit</groupId>
<artifactId>junit</artifactId>
</dependency>
+ <dependency>
+ <groupId>org.apache.ctakes</groupId>
+ <artifactId>ctakes-chunker</artifactId>
+ </dependency>
+ <dependency>
+ <groupId>org.apache.ctakes</groupId>
+ <artifactId>ctakes-context-tokenizer</artifactId>
+ </dependency>
</dependencies>
<build>
Modified: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/ClassifiableEntriesAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/ClassifiableEntriesAnnotator.xml?rev=1423486&r1=1423485&r2=1423486&view=diff
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/ClassifiableEntriesAnnotator.xml (original)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/ClassifiableEntriesAnnotator.xml Tue Dec 18 15:49:41 2012
@@ -86,7 +86,7 @@ This param is optional. If not specifie
</configurationParameterSettings>
<typeSystemDescription>
<imports>
- <import location="../type_system/SmokingProductionTypeSystem.xml"/>
+ <import name="org.apache.ctakes.smokingstatus.types.Typesystem"/>
</imports>
</typeSystemDescription>
<capabilities>
@@ -128,7 +128,7 @@ This param is optional. If not specifie
<name>UimaDescriptorStep1</name>
<description/>
<fileResourceSpecifier>
- <fileUrl>file:analysis_engine/ProductionPostSentenceAggregate_step1.xml</fileUrl>
+ <fileUrl>file:org/apache/ctakes/smokingstatus/analysis_engine/ProductionPostSentenceAggregate_step1.xml</fileUrl>
</fileResourceSpecifier>
<implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
</externalResource>
@@ -136,7 +136,7 @@ This param is optional. If not specifie
<name>UimaDescriptorStep2</name>
<description/>
<fileResourceSpecifier>
- <fileUrl>file:analysis_engine/ProductionPostSentenceAggregate_step2_libsvm.xml</fileUrl>
+ <fileUrl>file:org/apache/ctakes/smokingstatus/analysis_engine/ProductionPostSentenceAggregate_step2_libsvm.xml</fileUrl>
</fileResourceSpecifier>
<implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
</externalResource>
Modified: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/KuRuleBasedClassifierAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/KuRuleBasedClassifierAnnotator.xml?rev=1423486&r1=1423485&r2=1423486&view=diff
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/KuRuleBasedClassifierAnnotator.xml (original)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/KuRuleBasedClassifierAnnotator.xml Tue Dec 18 15:49:41 2012
@@ -1,106 +1,86 @@
<?xml version="1.0" encoding="UTF-8"?>
-<!--
-
- Licensed to the Apache Software Foundation (ASF) under one
- or more contributor license agreements. See the NOTICE file
- distributed with this work for additional information
- regarding copyright ownership. The ASF licenses this file
- to you under the Apache License, Version 2.0 (the
- "License"); you may not use this file except in compliance
- with the License. You may obtain a copy of the License at
-
- http://www.apache.org/licenses/LICENSE-2.0
-
- Unless required by applicable law or agreed to in writing,
- software distributed under the License is distributed on an
- "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- KIND, either express or implied. See the License for the
- specific language governing permissions and limitations
- under the License.
-
--->
<taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
-<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
-<primitive>true</primitive>
-<annotatorImplementationName>org.apache.ctakes.smokingstatus.ae.KuRuleBasedClassifierAnnotator</annotatorImplementationName>
-<analysisEngineMetaData>
-<name>KuRuleBasedClassifierAnnotator</name>
-<description>Known vs Unknow classifier using smoking related keywords</description>
-<version></version>
-<vendor></vendor>
-<configurationParameters>
-<configurationParameter>
-<name>CaseSensitive</name>
-<type>Boolean</type>
-<multiValued>false</multiValued>
-<mandatory>true</mandatory>
-</configurationParameter>
-<configurationParameter>
-<name>classAttribute</name>
-<type>String</type>
-<multiValued>false</multiValued>
-<mandatory>true</mandatory>
-</configurationParameter>
-<configurationParameter>
-<name>SmokingWordsFile</name>
-<description>smoking related keywords to identify "known" class</description>
-<type>String</type>
-<multiValued>false</multiValued>
-<mandatory>true</mandatory>
-</configurationParameter>
-<configurationParameter>
-<name>UnknownWordsFile</name>
-<description>If this word/phrase appears, treat the sentence as UNKNOWN</description>
-<type>String</type>
-<multiValued>false</multiValued>
-<mandatory>true</mandatory>
-</configurationParameter>
-</configurationParameters>
-<configurationParameterSettings>
-<nameValuePair>
-<name>SmokingWordsFile</name>
-<value>
-<string>ss/data/KU/keywords.txt</string>
-</value>
-</nameValuePair>
-<nameValuePair>
-<name>classAttribute</name>
-<value>
-<string>smoking_status</string>
-</value>
-</nameValuePair>
-<nameValuePair>
-<name>CaseSensitive</name>
-<value>
-<boolean>false</boolean>
-</value>
-</nameValuePair>
-<nameValuePair>
-<name>UnknownWordsFile</name>
-<value>
-<string>ss/data/KU/unknown_words.txt</string>
-</value>
-</nameValuePair>
-</configurationParameterSettings>
-<typeSystemDescription>
-<imports>
-<import location="../type_system/SmokingProductionTypeSystem.xml"/>
-</imports>
-</typeSystemDescription>
-<typePriorities/>
-<fsIndexCollection/>
-<capabilities>
-<capability>
-<inputs/>
-<outputs/>
-<languagesSupported/>
-</capability>
-</capabilities>
-<operationalProperties>
-<modifiesCas>true</modifiesCas>
-<multipleDeploymentAllowed>true</multipleDeploymentAllowed>
-<outputsNewCASes>false</outputsNewCASes>
-</operationalProperties>
-</analysisEngineMetaData>
-<resourceManagerConfiguration/>
+ <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
+ <primitive>true</primitive>
+ <annotatorImplementationName>org.apache.ctakes.smokingstatus.ae.KuRuleBasedClassifierAnnotator</annotatorImplementationName>
+ <analysisEngineMetaData>
+ <name>KuRuleBasedClassifierAnnotator</name>
+ <description>Known vs Unknow classifier using smoking related keywords</description>
+ <version/>
+ <vendor/>
+ <configurationParameters>
+ <configurationParameter>
+ <name>CaseSensitive</name>
+ <type>Boolean</type>
+ <multiValued>false</multiValued>
+ <mandatory>true</mandatory>
+ </configurationParameter>
+ <configurationParameter>
+ <name>classAttribute</name>
+ <type>String</type>
+ <multiValued>false</multiValued>
+ <mandatory>true</mandatory>
+ </configurationParameter>
+ <configurationParameter>
+ <name>SmokingWordsFile</name>
+ <description>smoking related keywords to identify "known" class</description>
+ <type>String</type>
+ <multiValued>false</multiValued>
+ <mandatory>true</mandatory>
+ </configurationParameter>
+ <configurationParameter>
+ <name>UnknownWordsFile</name>
+ <description>If this word/phrase appears, treat the sentence as UNKNOWN</description>
+ <type>String</type>
+ <multiValued>false</multiValued>
+ <mandatory>true</mandatory>
+ </configurationParameter>
+ </configurationParameters>
+ <configurationParameterSettings>
+ <nameValuePair>
+ <name>SmokingWordsFile</name>
+ <value>
+ <string>org/apache/ctakes/smokingstatus/data/KU/keywords.txt</string>
+ </value>
+ </nameValuePair>
+ <nameValuePair>
+ <name>classAttribute</name>
+ <value>
+ <string>smoking_status</string>
+ </value>
+ </nameValuePair>
+ <nameValuePair>
+ <name>CaseSensitive</name>
+ <value>
+ <boolean>false</boolean>
+ </value>
+ </nameValuePair>
+ <nameValuePair>
+ <name>UnknownWordsFile</name>
+ <value>
+ <string>org/apache/ctakes/smokingstatus/data/KU/unknown_words.txt</string>
+ </value>
+ </nameValuePair>
+ </configurationParameterSettings>
+ <typeSystemDescription>
+ <imports>
+ <import name="org.apache.ctakes.smokingstatus.types.Typesystem"/>
+ </imports>
+ </typeSystemDescription>
+ <typePriorities/>
+ <fsIndexCollection/>
+ <capabilities>
+ <capability>
+ <inputs/>
+ <outputs/>
+ <languagesSupported/>
+ </capability>
+ </capabilities>
+ <operationalProperties>
+ <modifiesCas>true</modifiesCas>
+ <multipleDeploymentAllowed>true</multipleDeploymentAllowed>
+ <outputsNewCASes>false</outputsNewCASes>
+ </operationalProperties>
+ </analysisEngineMetaData>
+ <resourceManagerConfiguration/>
</taeDescription>
Modified: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/NonsmokerDictionaryLookupAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/NonsmokerDictionaryLookupAnnotator.xml?rev=1423486&r1=1423485&r2=1423486&view=diff
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/NonsmokerDictionaryLookupAnnotator.xml (original)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/NonsmokerDictionaryLookupAnnotator.xml Tue Dec 18 15:49:41 2012
@@ -32,7 +32,7 @@
<configurationParameterSettings/>
<typeSystemDescription>
<imports>
-<import location="../type_system/SmokingProductionTypeSystem.xml"/>
+ <import name="org.apache.ctakes.smokingstatus.types.Typesystem"/>
</imports>
</typeSystemDescription>
<typePriorities/>
Modified: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/PcsClassifierAnnotator_libsvm.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/PcsClassifierAnnotator_libsvm.xml?rev=1423486&r1=1423485&r2=1423486&view=diff
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/PcsClassifierAnnotator_libsvm.xml (original)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/PcsClassifierAnnotator_libsvm.xml Tue Dec 18 15:49:41 2012
@@ -46,7 +46,7 @@
</configurationParameterSettings>
<typeSystemDescription>
<imports>
-<import location="../type_system/SmokingProductionTypeSystem.xml"/>
+ <import name="org.apache.ctakes.smokingstatus.types.Typesystem"/>
</imports>
</typeSystemDescription>
<typePriorities/>
Modified: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/SmokingStatusDictionaryLookupAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/SmokingStatusDictionaryLookupAnnotator.xml?rev=1423486&r1=1423485&r2=1423486&view=diff
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/SmokingStatusDictionaryLookupAnnotator.xml (original)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/desc/analysis_engine/SmokingStatusDictionaryLookupAnnotator.xml Tue Dec 18 15:49:41 2012
@@ -32,7 +32,7 @@
<configurationParameterSettings/>
<typeSystemDescription>
<imports>
-<import location="../type_system/SmokingProductionTypeSystem.xml"/>
+ <import name="org.apache.ctakes.smokingstatus.types.Typesystem"/>
</imports>
</typeSystemDescription>
<capabilities>
Added: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA CAS Visual Debugger (Smoking Status).launch
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA%20CAS%20Visual%20Debugger%20%28Smoking%20Status%29.launch?rev=1423486&view=auto
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA CAS Visual Debugger (Smoking Status).launch (added)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA CAS Visual Debugger (Smoking Status).launch Tue Dec 18 15:49:41 2012
@@ -0,0 +1,13 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<launchConfiguration type="org.eclipse.jdt.launching.localJavaApplication">
+<listAttribute key="org.eclipse.debug.core.MAPPED_RESOURCE_PATHS">
+<listEntry value="/ctakes-smoking-status"/>
+</listAttribute>
+<listAttribute key="org.eclipse.debug.core.MAPPED_RESOURCE_TYPES">
+<listEntry value="4"/>
+</listAttribute>
+<stringAttribute key="org.eclipse.jdt.launching.CLASSPATH_PROVIDER" value="org.eclipse.m2e.launchconfig.classpathProvider"/>
+<stringAttribute key="org.eclipse.jdt.launching.MAIN_TYPE" value="org.apache.uima.tools.cvd.CVD"/>
+<stringAttribute key="org.eclipse.jdt.launching.PROJECT_ATTR" value="ctakes-smoking-status"/>
+<stringAttribute key="org.eclipse.jdt.launching.SOURCE_PATH_PROVIDER" value="org.eclipse.m2e.launchconfig.sourcepathProvider"/>
+</launchConfiguration>
Propchange: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA CAS Visual Debugger (Smoking Status).launch
------------------------------------------------------------------------------
svn:mime-type = text/plain
Added: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA_CPE_GUI--Smokin_Status.launch
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA_CPE_GUI--Smokin_Status.launch?rev=1423486&view=auto
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA_CPE_GUI--Smokin_Status.launch (added)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA_CPE_GUI--Smokin_Status.launch Tue Dec 18 15:49:41 2012
@@ -0,0 +1,15 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<launchConfiguration type="org.eclipse.jdt.launching.localJavaApplication">
+<listAttribute key="org.eclipse.debug.core.MAPPED_RESOURCE_PATHS">
+<listEntry value="/ctakes-smoking-status"/>
+</listAttribute>
+<listAttribute key="org.eclipse.debug.core.MAPPED_RESOURCE_TYPES">
+<listEntry value="4"/>
+</listAttribute>
+<booleanAttribute key="org.eclipse.debug.core.appendEnvironmentVariables" value="true"/>
+<stringAttribute key="org.eclipse.jdt.launching.CLASSPATH_PROVIDER" value="org.eclipse.m2e.launchconfig.classpathProvider"/>
+<stringAttribute key="org.eclipse.jdt.launching.MAIN_TYPE" value="org.apache.uima.tools.cpm.CpmFrame"/>
+<stringAttribute key="org.eclipse.jdt.launching.PROJECT_ATTR" value="ctakes-smoking-status"/>
+<stringAttribute key="org.eclipse.jdt.launching.SOURCE_PATH_PROVIDER" value="org.eclipse.m2e.launchconfig.sourcepathProvider"/>
+<stringAttribute key="org.eclipse.jdt.launching.VM_ARGUMENTS" value="-Xms500M -Xmx500M"/>
+</launchConfiguration>
Propchange: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/launch/UIMA_CPE_GUI--Smokin_Status.launch
------------------------------------------------------------------------------
svn:mime-type = text/plain
Modified: incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/src/main/resources/org/apache/ctakes/smokingstatus/data/SmokingStatusLookupConfig.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/src/main/resources/org/apache/ctakes/smokingstatus/data/SmokingStatusLookupConfig.xml?rev=1423486&r1=1423485&r2=1423486&view=diff
==============================================================================
--- incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/src/main/resources/org/apache/ctakes/smokingstatus/data/SmokingStatusLookupConfig.xml (original)
+++ incubator/ctakes/branches/ctakes-3.0.0-incubating/ctakes-smoking-status/src/main/resources/org/apache/ctakes/smokingstatus/data/SmokingStatusLookupConfig.xml Tue Dec 18 15:49:41 2012
@@ -44,7 +44,7 @@
<lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.DirectLookupInitializerImpl">
<properties/>
</lookupInitializer>
- <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.SmokerNamedEntityLookupConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.smokingstatus.lookup.ae.SmokerNamedEntityLookupConsumerImpl">
<properties>
<property key="codingScheme" value="NONE"/>
<property key="codeMetaField" value="0"/>
@@ -56,7 +56,7 @@
<lookupInitializer className="org.apache.ctakes.dictionary.lookup.ae.DirectLookupInitializerImpl">
<properties/>
</lookupInitializer>
- <lookupConsumer className="org.apache.ctakes.dictionary.lookup.ae.NonSmokerNamedEntityLookupConsumerImpl">
+ <lookupConsumer className="org.apache.ctakes.smokingstatus.lookup.ae.NonSmokerNamedEntityLookupConsumerImpl">
<properties>
<property key="codingScheme" value="NONE"/>
<property key="codeMetaField" value="0"/>