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Subject: svn commit: r1463641 [35/42] - in /ctakes/trunk:
 ctakes-assertion-res/
 ctakes-assertion-res/.settings/ ctakes-assertion-res/src/
 ctakes-assertion-res/src/main/ ctakes-assertion-res/src/main/resources/
 ctakes-assertion-res/src/main/resources/org/ ctakes...
Date: Tue, 02 Apr 2013 17:44:41 -0000
To: commits@ctakes.apache.org
From: chenpei@apache.org
Message-Id: <20130402174505.A075F2388CA3@eris.apache.org>

Added: ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.jdt.core.prefs
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.jdt.core.prefs?rev=1463641&view=auto
==============================================================================
--- ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.jdt.core.prefs (added)
+++ ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.jdt.core.prefs Tue Apr  2 17:41:30 2013
@@ -0,0 +1,88 @@
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+org.eclipse.jdt.core.compiler.annotation.nonnull=org.eclipse.jdt.annotation.NonNull
+org.eclipse.jdt.core.compiler.annotation.nonnullbydefault=org.eclipse.jdt.annotation.NonNullByDefault
+org.eclipse.jdt.core.compiler.annotation.nullable=org.eclipse.jdt.annotation.Nullable
+org.eclipse.jdt.core.compiler.annotation.nullanalysis=disabled
+org.eclipse.jdt.core.compiler.codegen.targetPlatform=1.6
+org.eclipse.jdt.core.compiler.compliance=1.6
+org.eclipse.jdt.core.compiler.problem.annotationSuperInterface=warning
+org.eclipse.jdt.core.compiler.problem.autoboxing=ignore
+org.eclipse.jdt.core.compiler.problem.comparingIdentical=warning
+org.eclipse.jdt.core.compiler.problem.deadCode=warning
+org.eclipse.jdt.core.compiler.problem.deprecation=warning
+org.eclipse.jdt.core.compiler.problem.deprecationInDeprecatedCode=disabled
+org.eclipse.jdt.core.compiler.problem.deprecationWhenOverridingDeprecatedMethod=disabled
+org.eclipse.jdt.core.compiler.problem.discouragedReference=warning
+org.eclipse.jdt.core.compiler.problem.emptyStatement=warning
+org.eclipse.jdt.core.compiler.problem.explicitlyClosedAutoCloseable=warning
+org.eclipse.jdt.core.compiler.problem.fallthroughCase=ignore
+org.eclipse.jdt.core.compiler.problem.fatalOptionalError=disabled
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+org.eclipse.jdt.core.compiler.problem.varargsArgumentNeedCast=warning
+org.eclipse.jdt.core.compiler.source=1.6

Added: ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.ltk.core.refactoring.prefs
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.ltk.core.refactoring.prefs?rev=1463641&view=auto
==============================================================================
--- ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.ltk.core.refactoring.prefs (added)
+++ ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.ltk.core.refactoring.prefs Tue Apr  2 17:41:30 2013
@@ -0,0 +1,2 @@
+eclipse.preferences.version=1
+org.eclipse.ltk.core.refactoring.enable.project.refactoring.history=false

Added: ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.m2e.core.prefs
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.m2e.core.prefs?rev=1463641&view=auto
==============================================================================
--- ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.m2e.core.prefs (added)
+++ ctakes/trunk/ctakes-pos-tagger-res/.settings/org.eclipse.m2e.core.prefs Tue Apr  2 17:41:30 2013
@@ -0,0 +1,4 @@
+activeProfiles=
+eclipse.preferences.version=1
+resolveWorkspaceProjects=true
+version=1

Added: ctakes/trunk/ctakes-pos-tagger-res/LICENSE
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/LICENSE?rev=1463641&view=auto
==============================================================================
--- ctakes/trunk/ctakes-pos-tagger-res/LICENSE (added)
+++ ctakes/trunk/ctakes-pos-tagger-res/LICENSE Tue Apr  2 17:41:30 2013
@@ -0,0 +1,202 @@
+
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+
+   TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
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+   7. Disclaimer of Warranty. Unless required by applicable law or
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Added: ctakes/trunk/ctakes-pos-tagger-res/pom.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/pom.xml?rev=1463641&view=auto
==============================================================================
--- ctakes/trunk/ctakes-pos-tagger-res/pom.xml (added)
+++ ctakes/trunk/ctakes-pos-tagger-res/pom.xml Tue Apr  2 17:41:30 2013
@@ -0,0 +1,32 @@
+<?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.
+
+-->
+<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
+  <modelVersion>4.0.0</modelVersion>
+  <parent>
+    <groupId>org.apache.ctakes</groupId>
+    <artifactId>ctakes</artifactId>
+    <version>3.1.0-SNAPSHOT</version>
+  </parent>
+  <artifactId>ctakes-pos-tagger-res</artifactId>
+  <name>Apache cTAKES Resources pos-tagger</name>
+  <description>Resources Project for ctakes-pos-tagger</description>
+</project>
\ No newline at end of file

Added: ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/README
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/README?rev=1463641&view=auto
==============================================================================
--- ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/README (added)
+++ ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/README Tue Apr  2 17:41:30 2013
@@ -0,0 +1,27 @@
+
+A part-of-speech tagging model and tag dictionary are included with this project.
+
+The model derives from a combination of GENIA, Penn Treebank (Wall Street Journal) and anonymized
+clinical data per Safe Harbor HIPAA guidelines. Prior to model building, the clinical data was 
+deidentified for patient names to preserve patient confidentiality. Any person name in the model 
+will originate from non-patient data sources.
+
+
+To build a model of your own, you need to
+
+1) obtain training data - see data/pos/training/README
+2) build a model using the training data. 
+
+After you have obtained training data, you can build a model by running the following:
+
+java opennlp.tools.postag.POSTaggerME <training-data> <model-name> <iterations> <cutoff>
+where <training-data> is an OpenNLP training data file as described in data/pos/training/README
+      <model-name> The file name of the resulting model.  The name should end with either '.txt'
+                   (for a plain text model) or '.bin.gz' (for a compressed binary model).  
+      <iterations> The iterations argument determines how many training iterations will be 
+                   performed.  The default is 100.  
+      <cutoff>     The cutoff argument determines the minimum number of times a feature has to be
+                   seen to be considered for inclusion in the model.  The default cutoff is 5.  
+
+The arguments <iterations> and <cutoff> are, taken together, optional - i.e. you should provide 
+both or provide neither.  

Added: ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/mayo-pos.zip
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/mayo-pos.zip?rev=1463641&view=auto
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Added: ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/postagger.model.bin.gz
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/postagger.model.bin.gz?rev=1463641&view=auto
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Added: ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/small/postagger.model.bin.gz
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/small/postagger.model.bin.gz?rev=1463641&view=auto
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Added: ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/small/tag.dictionary.txt
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/small/tag.dictionary.txt?rev=1463641&view=auto
==============================================================================
--- ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/small/tag.dictionary.txt (added)
+++ ctakes/trunk/ctakes-pos-tagger-res/src/main/resources/org/apache/ctakes/postagger/models/small/tag.dictionary.txt Tue Apr  2 17:41:30 2013
@@ -0,0 +1,10 @@
+Use IN
+of IN
+new IN
+biologic IN
+markers IN
+in IN
+the IN
+ovulation IN
+induction IN
+. IN