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From chen...@apache.org
Subject svn commit: r1405105 - in /incubator/ctakes/trunk: ./ ctakes-clinical-pipeline/ ctakes-constituency-parser/desc/ ctakes-constituency-parser/src/main/java/org/apache/ctakes/constituency/parser/util/ ctakes-dependency-parser/desc/analysis_engine/ ctakes-...
Date Fri, 02 Nov 2012 19:07:55 GMT
Author: chenpei
Date: Fri Nov  2 19:07:54 2012
New Revision: 1405105

URL: http://svn.apache.org/viewvc?rev=1405105&view=rev
Log:
CTAKES-93 - Adding the Apache release audit tool (RAT) plugin.
- Added few missing header to xml, java, txt files.
- Converted the .xls docs into plaintext csv and included the ASF Copyright Header in the
pad term spotter project.

Added:
    incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_anatomical_sites.csv
    incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_disorders_procedures.csv
Removed:
    incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_anatomical_sites.xls
    incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_disorders_procedures.xls
Modified:
    incubator/ctakes/trunk/ctakes-clinical-pipeline/SystemArchitectureOverview.txt
    incubator/ctakes/trunk/ctakes-constituency-parser/desc/ConstituencyParserAnnotator.xml
    incubator/ctakes/trunk/ctakes-constituency-parser/src/main/java/org/apache/ctakes/constituency/parser/util/CommandLineParserUtil.java
    incubator/ctakes/trunk/ctakes-dependency-parser/desc/analysis_engine/ClearParserDependencyParserPlaintextAggregate.xml
    incubator/ctakes/trunk/ctakes-pos-tagger/scripts/perl/trees2opennlppostags.pl
    incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/DegreeOfRelationExtractorAnnotator.xml
    incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/EntityMentionPairRelationExtractorAnnotator.xml
    incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/ModifierExtractorAnnotator.xml
    incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/RelationExtractorAggregate.xml
    incubator/ctakes/trunk/ctakes-relation-extractor/docs/knowtator.txt
    incubator/ctakes/trunk/ctakes-relation-extractor/docs/readme.txt
    incubator/ctakes/trunk/ctakes-relation-extractor/docs/todo.txt
    incubator/ctakes/trunk/ctakes-relation-extractor/src/test/java/org/apache/ctakes/relationextractor/ae/RelationExtractorAnnotatorsTest.java
    incubator/ctakes/trunk/ctakes-smoking-status/metadata/setenv.txt
    incubator/ctakes/trunk/ctakes-temporal/pom.xml
    incubator/ctakes/trunk/pom.xml

Modified: incubator/ctakes/trunk/ctakes-clinical-pipeline/SystemArchitectureOverview.txt
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-clinical-pipeline/SystemArchitectureOverview.txt?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-clinical-pipeline/SystemArchitectureOverview.txt (original)
+++ incubator/ctakes/trunk/ctakes-clinical-pipeline/SystemArchitectureOverview.txt Fri Nov
 2 19:07:54 2012
@@ -1,4 +1,19 @@
-
+# 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.
+  
+  
 Contents
  - Introduction
  - Requirements

Modified: incubator/ctakes/trunk/ctakes-constituency-parser/desc/ConstituencyParserAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-constituency-parser/desc/ConstituencyParserAnnotator.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-constituency-parser/desc/ConstituencyParserAnnotator.xml
(original)
+++ incubator/ctakes/trunk/ctakes-constituency-parser/desc/ConstituencyParserAnnotator.xml
Fri Nov  2 19:07:54 2012
@@ -1,4 +1,24 @@
 <?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.
+
+-->
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
   <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
   <primitive>true</primitive>

Modified: incubator/ctakes/trunk/ctakes-constituency-parser/src/main/java/org/apache/ctakes/constituency/parser/util/CommandLineParserUtil.java
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-constituency-parser/src/main/java/org/apache/ctakes/constituency/parser/util/CommandLineParserUtil.java?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-constituency-parser/src/main/java/org/apache/ctakes/constituency/parser/util/CommandLineParserUtil.java
(original)
+++ incubator/ctakes/trunk/ctakes-constituency-parser/src/main/java/org/apache/ctakes/constituency/parser/util/CommandLineParserUtil.java
Fri Nov  2 19:07:54 2012
@@ -1,3 +1,21 @@
+/**
+ * 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.
+ */
 package org.apache.ctakes.constituency.parser.util;
 
 import java.io.IOException;

Modified: incubator/ctakes/trunk/ctakes-dependency-parser/desc/analysis_engine/ClearParserDependencyParserPlaintextAggregate.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-dependency-parser/desc/analysis_engine/ClearParserDependencyParserPlaintextAggregate.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-dependency-parser/desc/analysis_engine/ClearParserDependencyParserPlaintextAggregate.xml
(original)
+++ incubator/ctakes/trunk/ctakes-dependency-parser/desc/analysis_engine/ClearParserDependencyParserPlaintextAggregate.xml
Fri Nov  2 19:07:54 2012
@@ -579,6 +579,101 @@
                 <resourceManagerConfiguration/>
             </analysisEngineDescription>
         </delegateAnalysisEngine>
+        <delegateAnalysisEngine key="Chunker">
+            <analysisEngineDescription>
+                <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
+                <primitive>true</primitive>
+                <annotatorImplementationName>org.apache.ctakes.chunker.ae.Chunker</annotatorImplementationName>
+                <analysisEngineMetaData>
+                    <name>Chunker</name>
+                    <description/>
+                    <version>1.0</version>
+                    <vendor/>
+                    <configurationParameters>
+                        <configurationParameter>
+                            <name>ChunkerModelFile</name>
+                            <type>String</type>
+                            <multiValued>false</multiValued>
+                            <mandatory>true</mandatory>
+                        </configurationParameter>
+                        <configurationParameter>
+                            <name>ChunkCreatorClass</name>
+                            <type>String</type>
+                            <multiValued>false</multiValued>
+                            <mandatory>true</mandatory>
+                        </configurationParameter>
+                    </configurationParameters>
+                    <configurationParameterSettings>
+                        <nameValuePair>
+                            <name>ChunkerModelFile</name>
+                            <value>
+                                <string>org/apache/ctakes/chunker/models/chunk-model.claims-1.5.zip</string>
+                            </value>
+                        </nameValuePair>
+                        <nameValuePair>
+                            <name>ChunkCreatorClass</name>
+                            <value>
+                                <string>org.apache.ctakes.chunker.ae.DefaultChunkCreator</string>
+                            </value>
+                        </nameValuePair>
+                    </configurationParameterSettings>
+                    <typeSystemDescription>
+                        <imports>
+                            <import name="org.apache.ctakes.typesystem.types.TypeSystem"/>
+                        </imports>
+                    </typeSystemDescription>
+                    <typePriorities>
+                        <name>Ordering</name>
+                        <description>For subiterator</description>
+                        <version>1.0</version>
+                        <priorityList>
+                            <type>org.apache.ctakes.typesystem.type.textspan.Segment</type>
+                            <type>org.apache.ctakes.typesystem.type.textspan.Sentence</type>
+                            <type>org.apache.ctakes.typesystem.type.syntax.BaseToken</type>
+                        </priorityList>
+                    </typePriorities>
+                    <fsIndexCollection/>
+                    <capabilities>
+                        <capability>
+                            <inputs/>
+                            <outputs/>
+                            <languagesSupported/>
+                        </capability>
+                    </capabilities>
+                    <operationalProperties>
+                        <modifiesCas>true</modifiesCas>
+                        <multipleDeploymentAllowed>true</multipleDeploymentAllowed>
+                        <outputsNewCASes>false</outputsNewCASes>
+                    </operationalProperties>
+                </analysisEngineMetaData>
+                <externalResourceDependencies>
+                    <externalResourceDependency>
+                        <key>ChunkerModel</key>
+                        <description>The MaxEnt model used by the chunker</description>
+                        <interfaceName>org.apache.ctakes.core.resource.FileResource</interfaceName>
+                        <optional>false</optional>
+                    </externalResourceDependency>
+                </externalResourceDependencies>
+                <resourceManagerConfiguration>
+                    <externalResources>
+                        <externalResource>
+                            <name>ChunkerModelFile</name>
+                            <description/>
+                            <fileResourceSpecifier>
+                                <fileUrl>file:org/apache/ctakes/chunker/models/chunk-model.claims-1.5.zip</fileUrl>
+                            </fileResourceSpecifier>
+                            <implementationName>org.apache.ctakes.core.resource.FileResourceImpl</implementationName>
+                        </externalResource>
+                    </externalResources>
+                    <externalResourceBindings>
+                        <externalResourceBinding>
+                            <key>ChunkerModel</key>
+                            <resourceName>ChunkerModelFile</resourceName>
+                        </externalResourceBinding>
+                    </externalResourceBindings>
+                </resourceManagerConfiguration>
+            </analysisEngineDescription>
+        </delegateAnalysisEngine>     
     </delegateAnalysisEngineSpecifiers>
     <analysisEngineMetaData>
         <name/>
@@ -591,6 +686,7 @@
                 <node>TokenizerAnnotatorPTB</node>
                 <node>LVG Annotator</node>
                 <node>POSTagger</node>
+                <node>Chunker</node>
                 <node>org.apache.ctakes.dependency.parser.ae.ClearParserDependencyParserAE</node>
             </fixedFlow>
         </flowConstraints>

Added: incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_anatomical_sites.csv
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_anatomical_sites.csv?rev=1405105&view=auto
==============================================================================
--- incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_anatomical_sites.csv (added)
+++ incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_anatomical_sites.csv Fri Nov  2
19:07:54 2012
@@ -0,0 +1,88 @@
+# 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.
+
+//not interested in the vein in the lower extremities. Interested in the arteries in the
lower extremities.,,,,,
+,,cTAKES NE type,CUI,TUI,Notes
+anastomosis,anastomosis,6,C0332853,Acquired Abnormality,Dr. Kullo confirmed this is an anatomical
site.
+anterior,anterior tibial artery,6,C0085816,"Body Part, Organ, or Organ Component",
+anterior,anterior tibial arteries,6,C0085816,"Body Part, Organ, or Organ Component",
+anterior,anterior tibial,6,C0085816,"Body Part, Organ, or Organ Component",
+aorto bifemoral,aorto bifemoral artery,6,null,,
+aorto bifemoral,aorto bifemoral arteries,6,null,,
+aorto bifemoral,aorto bifemoral,6,null,"Body Part, Organ, or Organ Component",
+aorto biiliac,aorto bi-iliac arteries,6,null,,
+aorto biiliac,aorto biiliac arteries,6,null,,
+aorto biiliac,aorto biiliac,6,null,"Body Part, Organ, or Organ Component",
+aorto bi-iliac,aorto bi-iliac,6,null,"Body Part, Organ, or Organ Component",
+aorto femoral,aorto femoral,6,C0545736,"Body Part, Organ, or Organ Component",
+AT,AT,6,C0085818,"Body Part, Organ, or Organ Component",
+axillobifemoral,axillobifemoral arteries,6,null,,
+axillobifemoral,axillobifemoral artery,6,null,,
+axillobifemoral,axillobifemoral,6,null,"Body Part, Organ, or Organ Component",
+calf,calf artery,6,null,,
+calf,calf arteries,6,null,,
+cardiod,cardiod,6,C0741968,"Body Part, Organ, or Organ Component","is this meant to be ""carotid""?"
+CFA,CFA,6,C0447105,"Body Part, Organ, or Organ Component",
+common,common femoral,6,C0447105,"Body Part, Organ, or Organ Component",
+common,common iliac,6,C1261084,"Body Part, Organ, or Organ Component",
+common,common iliac artery,6,C1261084,"Body Part, Organ, or Organ Component",
+extensive,extensive collaterals,6,C1275670,"Body Part, Organ, or Organ Component",Moved from
Disorders to Anatomical sites. cTAKES NE type changed from 2 to 6
+external,external iliac,6,C1269019,"Body Part, Organ, or Organ Component",
+fem-fem,fem-fem,STAND_ALONE,null,,
+femoral,femoral artery,6,C1280173,"Body Part, Organ, or Organ Component",
+femoral,femoral-to-peroneal artery,STAND_ALONE,null,"Body Part, Organ, or Organ Component",
+femoral,femoral,6,C1280173,"Body Part, Organ, or Organ Component",
+femoral-femoral,femoral-femoral arteries,STAND_ALONE,null,,
+femoral-femoral,femoral-femoral,6,null,,
+femoral-popliteal,femoral-popliteal,6,null,,
+femoropopliteal,femoropopliteal artery,6,null,,
+femoropopliteal,femoropopliteal arteries,6,null,,
+femoropopliteal,femoropopliteal,6,null,,
+fem-pop,fem-pop,STAND_ALONE,null,,
+IFA,IFA,6,C0545728,"Body Part, Organ, or Organ Component",
+iliac,iliac artery,6,C1280172,"Body Part, Organ, or Organ Component",
+iliac,iliac systems,6,null,,
+iliac,iliac system,6,null,,
+iliac,iliac origin,6,null,,
+internal,internal iliac arteries,6,C0226364,"Body Part, Organ, or Organ Component",
+left,left femoral,6,C1281581,"Body Part, Organ, or Organ Component",
+left,left leg,6,C1279606,"Body Part, Organ, or Organ Component",
+left,left lower extremity,6,C0230416,"Body Part, Organ, or Organ Component",
+lower,lower extremity,6,C0023216,Body Location or Region,
+origin,origin of iliac,6,null,,asked Dr. Kullo
+peroneal,peroneal artery,6,C1278957,"Body Part, Organ, or Organ Component",
+peroneal,peroneal arteries,6,C1278957,"Body Part, Organ, or Organ Component",
+peroneal,peroneal,6,C1278957,"Body Part, Organ, or Organ Component",
+peroneal,peroneal trunk,6,null,,Asked Dr. Kullo
+peroneal,peroneal artery,6,C1278958,"Body Part, Organ, or Organ Component",
+popliteal,popliteal artery,6,C1278953,"Body Part, Organ, or Organ Component",
+popliteal,popliteal arteries,6,C1278953,"Body Part, Organ, or Organ Component",
+popliteal,popliteal,6,C1278953,"Body Part, Organ, or Organ Component",
+posterior,posterior tibial,6,C1269021,"Body Part, Organ, or Organ Component",
+posterior,posterior tibial artery,6,C1269021,"Body Part, Organ, or Organ Component",
+posterior,posterior tibial arteries,6,C1269021,"Body Part, Organ, or Organ Component",
+PT,PT,6,C1269021,"Body Part, Organ, or Organ Component",
+right,right leg,6,C1279605,"Body Part, Organ, or Organ Component",
+rigth,right femoral,6,C1281566,"Body Part, Organ, or Organ Component",
+rigth,right lower extremity,6,C0230415,"Body Part, Organ, or Organ Component",
+SFA,SFA,6,C0447106,"Body Part, Organ, or Organ Component",Superficial femoral artery
+tibial,tibial arteries,6,C0085427,"Body Part, Organ, or Organ Component",
+tibial,tibial artery,6,C0085427,"Body Part, Organ, or Organ Component",
+tibioperoneal,tibioperoneal trunk,6,C0447111,"Body Part, Organ, or Organ Component",
+vein,vein,6,C1278960,"Body Part, Organ, or Organ Component",
+veins,veins,6,C1278960,"Body Part, Organ, or Organ Component",
+one-vessel,one-vessel run-off,STAND_ALONE,null,,"Dr. Kullo: ""these are anatomic descriptors"""
+single,single vessel runoff,STAND_ALONE,null,,"Dr. Kullo: ""these are anatomic descriptors"""
+single,single vessel run-off,STAND_ALONE,null,,"Dr. Kullo: ""these are anatomic descriptors"""

Added: incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_disorders_procedures.csv
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_disorders_procedures.csv?rev=1405105&view=auto
==============================================================================
--- incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_disorders_procedures.csv (added)
+++ incubator/ctakes/trunk/ctakes-pad-term-spotter/doc/pad_disorders_procedures.csv Fri Nov
 2 19:07:54 2012
@@ -0,0 +1,96 @@
+# 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.
+
+,,cTAKES NE type,CUI,TUI,Notes
+aso,aso,2,C0003851,Disease or Syndrome,(=Arteriosclerosis Obliterans)
+atheromatous,atheromatous stenosis,2,null,Pathologic Function,code for stenosis. Changed
cTAKES NE type from 8 to 2
+atherosclerosis,atherosclerosis,2,C0004153,Disease or Syndrome,
+atherosclerotic,atherosclerotic calcification,2,null,Finding,changed cTAKES NE type from
7 to 2
+complete,complete occlusion,2,null,Pathologic Function,code for occlusion
+diffusely,diffusely diseased,2,null,Disease or Syndrome,
+distal,distal occlusion,2,null,Pathologic Function,
+extensive,extensive atheromatous plaque,2,null,Acquired Abnormality,"code for ""Arterial
Fatty Streak"""
+extensive,extensive collatoral formation,2,null,?,
+focal,focal stenoses,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+focal,focal stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+high,high grade stenoses,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+high,high grade stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+high-grade,high-grade stenoses,2,null,Pathologic Function,changed cTAKES NE type from 8 to
2
+high-grade,high-grade stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8 to
2
+large,large atherosclerotic plaque,2,null,Acquired Abnormality,"code for ""Arterial Fatty
Streak"""
+moderate,moderate arthromatous,2,null,Acquired Abnormality,"code for ""Arterial Fatty Streak"""
+moderate,moderate atheromatous,2,null,Acquired Abnormality,"code for ""Arterial Fatty Streak"""
+moderate,moderate atheromatous changes,2,null,Quantitative Concept,code for change: C0443172
+moderate,moderate atherosclerosis,2,C0004153,Disease or Syndrome,"code for atherosclerosis
""C0004153"""
+moderate,moderate atherosclerotic disease,2,null,Disease or Syndrome,"code for atherosclerosis
""C0004153"""
+moderate,moderate atheromatous plaque,STAND_ALONE,null,Acquired Abnormality,"code for ""Arterial
Fatty Streak"""
+moderate,moderate focal stenoses,2,null,Pathologic Function,
+moderate,moderate focal stenoses,2,null,Pathologic Function,
+moderate,moderate focal stenosis,2,null,Pathologic Function,
+moderate,moderate focal stenosis,2,null,Pathologic Function,
+moderate,moderate iliac stenoses,2,null,Pathologic Function,
+moderate,moderate iliac stenosis,2,null,Pathologic Function,
+moderate,moderate narrowing,2,null,Spatial Concept,UMLS code for narrowing
+moderate,moderate stenoses,2,null,Pathologic Function,
+moderate,moderate stenosis,2,null,Pathologic Function,
+multi,multi-focus stenoses,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+multi-focus,multi-focus stenoses,2,null,Pathologic Function,changed cTAKES NE type from 8
to 2
+multi,multi-focus stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+multi-focus,multi-focus stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8
to 2
+near,near occlusion,2,null,Pathologic Function,
+occluded,occluded,2,C1110552,Pathologic Function,
+occludes,occludes,2,C1110553,Pathologic Function,
+occlusion,occlusion,2,C1110554,Pathologic Function,
+proximal,proximal occlusion,2,null,Pathologic Function,
+severe,severe arthromatous,2,null,Acquired Abnormality,"code for ""Arterial Fatty Streak"""
+severe,severe atheromatous plaque,2,null,Acquired Abnormality,"code for ""Arterial Fatty
Streak"""
+severe,severe atherosclerosis,2,null,Acquired Abnormality,"code for ""Arterial Fatty Streak"""
+severe,severe iliac stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8 to
2
+severe,severe narrowing,2,null,Spatial Concept,UMLS code for narrowing
+severe,severe plaque,2,C0332461,Body Substance,
+severe,severe stenoses,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+severe,severe stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8 to 2
+severe,severe atherosclerotic disease,STAND_ALONE,null,Disease or Syndrome,"code for atherosclerosis
""C0004153"""
+severe,severe atherosclerotic stenosis,STAND_ALONE,null,Disease or Syndrome,"code for atherosclerosis
""C0004153"""
+severe,severe tibial disease,STAND_ALONE,null,Disease or Syndrome,
+significant,significant stenosis,2,null,Pathologic Function,changed cTAKES NE type from 8
to 2
+SFA,SFA occlusion,STAND_ALONE,null,occlusion,
+significant,significant atheromatous plaque,STAND_ALONE,null,Acquired Abnormality,"code for
""Arterial Fatty Streak"""
+significant,significant atheromatous plaque,STAND_ALONE,null,Acquired Abnormality,"code for
""Arterial Fatty Streak"""
+stenosis,stenosis,2,C1261287,Pathologic Function,
+stented,stented arteries,2,C1443258,Finding,changed cTAKES NE type from 7 to 2
+tibial,tibial disease,2,null,Disease or Syndrome,
+ulcerated,ulcerated plaque,2,null,Acquired Abnormality,"code for ""Arterial Fatty Streak"".
Changed cTAKES NE type from 7 to 2"
+angioplasty,angioplasty,5,C0162577,Therapeutic or Preventive Procedure,changed cTAKES NE
type from 2 to 5
+aortobifemoral,aortobifemoral bypass,5,null,Therapeutic or Preventive Procedure,changed cTAKES
NE type from 7 to 5
+aortobifemoral,aortobifemoral graft,5,C0397949,Therapeutic or Preventive Procedure,changed
cTAKES NE type from 7 to 5
+aortobiiliac,aortobiiliac graft,5,null,Therapeutic or Preventive Procedure,changed cTAKES
NE type from 7 to 5
+aortobi-iliac,aortobi-iliac graft,5,null,Therapeutic or Preventive Procedure,changed cTAKES
NE type from 7 to 5
+aortofemoral,aortofemoral bypass graft,5,null,Therapeutic or Preventive Procedure,changed
cTAKES NE type from 7 to 5
+artery,artery bypass,5,null,Therapeutic or Preventive Procedure,changed cTAKES NE type from
7 to 5
+artery,artery bypass graft,5,C0189695,Therapeutic or Preventive Procedure,changed cTAKES
NE type from 7 to 5
+axillobifemoral,axillobifemoral graft,5,null,Therapeutic or Preventive Procedure,changed
cTAKES NE type from 7 to 5
+balloon,balloon angioplasty,STAND_ALONE,C0002996,Therapeutic or Preventive Procedure,
+crossover,crossover graft,5,null,Therapeutic or Preventive Procedure,changed cTAKES NE type
from 7 to 5
+cross-over,cross-over graft,5,null,Therapeutic or Preventive Procedure,changed cTAKES NE
type from 7 to 5
+endarterectomy,endarterectomy,5,C0014098,Therapeutic or Preventive Procedure,changed cTAKES
NE type from 2 to 5
+fem-pop,fem-pop graft,5,null,Therapeutic or Preventive Procedure,changed cTAKES NE type from
7 to 5. femoral-popleteal not in UMLS
+patent,patent graft,STAND_ALONE,null,Therapeutic or Preventive Procedure,
+peroneal,peroneal graft,5,null,Therapeutic or Preventive Procedure,changed cTAKES ne type
from 7 to 5
+popliteal,popliteal graft,5,C1546749,Intellectual Product,changed cTAKES ne type from 7 to
5
+PTA,PTA,5,C0002996,Therapeutic or Preventive Procedure,(=percutaneous transluminal angioplasty).
Changed cTAKES NE type from 2 to 5.
+recanalization,recanalization,5,C0034771,Therapeutic or Preventive Procedure,changed cTAKES
NE type from 2 to 5
+stent,stent,5,C0038257,Medical Device,changed cTAKES NE type from 7 to 5
+no,no flow,8,C0806140,Natural Phenomenon or Process,

Modified: incubator/ctakes/trunk/ctakes-pos-tagger/scripts/perl/trees2opennlppostags.pl
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-pos-tagger/scripts/perl/trees2opennlppostags.pl?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-pos-tagger/scripts/perl/trees2opennlppostags.pl (original)
+++ incubator/ctakes/trunk/ctakes-pos-tagger/scripts/perl/trees2opennlppostags.pl Fri Nov
 2 19:07:54 2012
@@ -1,4 +1,21 @@
 #!/usr/bin/perl
+#
+#  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.
+#
+#===================================================================
 
 use strict;
 my $num_parens=0;

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/DegreeOfRelationExtractorAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/DegreeOfRelationExtractorAnnotator.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/DegreeOfRelationExtractorAnnotator.xml
(original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/DegreeOfRelationExtractorAnnotator.xml
Fri Nov  2 19:07:54 2012
@@ -1,4 +1,24 @@
 <?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.
+
+-->
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
     <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
     <primitive>true</primitive>

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/EntityMentionPairRelationExtractorAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/EntityMentionPairRelationExtractorAnnotator.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/EntityMentionPairRelationExtractorAnnotator.xml
(original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/EntityMentionPairRelationExtractorAnnotator.xml
Fri Nov  2 19:07:54 2012
@@ -1,4 +1,24 @@
 <?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.
+
+-->
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
     <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
     <primitive>true</primitive>

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/ModifierExtractorAnnotator.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/ModifierExtractorAnnotator.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/ModifierExtractorAnnotator.xml
(original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/ModifierExtractorAnnotator.xml
Fri Nov  2 19:07:54 2012
@@ -1,4 +1,24 @@
 <?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.
+
+-->
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
     <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
     <primitive>true</primitive>

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/RelationExtractorAggregate.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/RelationExtractorAggregate.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/RelationExtractorAggregate.xml
(original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/desc/analysis_engine/RelationExtractorAggregate.xml
Fri Nov  2 19:07:54 2012
@@ -1,4 +1,24 @@
 <?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.
+
+-->
 <analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
     <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
     <primitive>false</primitive>

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/docs/knowtator.txt
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/docs/knowtator.txt?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/docs/knowtator.txt (original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/docs/knowtator.txt Fri Nov  2 19:07:54
2012
@@ -1,3 +1,18 @@
+# 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.
+
 Knowtator XML Files
 -------------------
 

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/docs/readme.txt
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/docs/readme.txt?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/docs/readme.txt (original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/docs/readme.txt Fri Nov  2 19:07:54 2012
@@ -1,3 +1,18 @@
+# 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.
+
 Basic Architechture
 -------------------
 

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/docs/todo.txt
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/docs/todo.txt?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/docs/todo.txt (original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/docs/todo.txt Fri Nov  2 19:07:54 2012
@@ -1,3 +1,18 @@
+# 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.
+
 To Do List
 ==========
 

Modified: incubator/ctakes/trunk/ctakes-relation-extractor/src/test/java/org/apache/ctakes/relationextractor/ae/RelationExtractorAnnotatorsTest.java
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/src/test/java/org/apache/ctakes/relationextractor/ae/RelationExtractorAnnotatorsTest.java?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/src/test/java/org/apache/ctakes/relationextractor/ae/RelationExtractorAnnotatorsTest.java
(original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/src/test/java/org/apache/ctakes/relationextractor/ae/RelationExtractorAnnotatorsTest.java
Fri Nov  2 19:07:54 2012
@@ -1,3 +1,21 @@
+/**
+ * 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.
+ */
 package org.apache.ctakes.relationextractor.ae;
 
 import static org.junit.Assert.*;

Modified: incubator/ctakes/trunk/ctakes-smoking-status/metadata/setenv.txt
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-smoking-status/metadata/setenv.txt?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-smoking-status/metadata/setenv.txt (original)
+++ incubator/ctakes/trunk/ctakes-smoking-status/metadata/setenv.txt Fri Nov  2 19:07:54 2012
@@ -1,3 +1,18 @@
+# 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.
+
 ### Add the following environment variables
 ### to appropriate existing environment variables
 ### to run the smoking status component

Modified: incubator/ctakes/trunk/ctakes-temporal/pom.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-temporal/pom.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-temporal/pom.xml (original)
+++ incubator/ctakes/trunk/ctakes-temporal/pom.xml Fri Nov  2 19:07:54 2012
@@ -28,7 +28,7 @@
 	<parent>
 		<groupId>org.apache.ctakes</groupId>
 		<artifactId>ctakes</artifactId>
-		<version>3.0.0-incubating-SNAPSHOT</version>
+		<version>3.1.0-incubating-SNAPSHOT</version>
 	</parent>
 	<dependencies>
 		<dependency>

Modified: incubator/ctakes/trunk/pom.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/pom.xml?rev=1405105&r1=1405104&r2=1405105&view=diff
==============================================================================
--- incubator/ctakes/trunk/pom.xml (original)
+++ incubator/ctakes/trunk/pom.xml Fri Nov  2 19:07:54 2012
@@ -87,6 +87,7 @@
 		<artifactId>apache</artifactId>
 		<version>11</version>
 	</parent>
+
 	<modules>
 		<module>ctakes-utils</module>
 		<module>ctakes-core</module>
@@ -435,7 +436,7 @@
 						</properties>
 						<strictCheck>true</strictCheck>
 					</configuration>
-				</plugin>			
+				</plugin>						
 				<plugin>
 					<artifactId>maven-assembly-plugin</artifactId>
 					<version>2.3</version>
@@ -489,12 +490,12 @@
 				<plugin>
 					<artifactId>maven-release-plugin</artifactId>
 					<version>2.3</version>
-	                                        <configuration>
-	                                                <useReleaseProfile>false</useReleaseProfile>
-	                                                <goals>deploy</goals>
-	                                                <arguments>-Papache-release</arguments>
-	                                                <mavenExecutorId>forked-path</mavenExecutorId>

-	                                        </configuration>
+	                   <configuration>
+	                      <useReleaseProfile>false</useReleaseProfile>
+	                      <goals>deploy</goals>
+	                      <arguments>-Papache-release</arguments>
+	                      <mavenExecutorId>forked-path</mavenExecutorId> 
+	                    </configuration>
 				</plugin>
 				<plugin>
 					<artifactId>maven-resources-plugin</artifactId>
@@ -522,6 +523,48 @@
 						</includes>
 					</configuration>
 				</plugin>
+				<plugin>
+					<groupId>org.apache.rat</groupId>
+					<artifactId>apache-rat-plugin</artifactId>
+					<version>0.8</version>		
+					<executions>
+						<execution>
+ 							<phase>verify</phase> 
+	                        <goals> 
+	                            <goal>check</goal> 
+	                        </goals>						
+							<id>default-cli</id>
+						</execution>
+					</executions>
+					<configuration>	
+							<excludes>
+								<!-- File generated by maven-release-plugin -->
+								<exclude>release.properties</exclude>
+								<!-- Eclipse launch files -->
+        						<exclude>**/*.launch</exclude>
+        						<!-- Exclude target and eclipse files
+        						The default RAT ignoreEclipse doesn't work
+        						if there is a submodule that is commented out
+        						So excluding it explictly here -->
+        						<exclude>**/.classpath</exclude>
+        						<exclude>**/.project</exclude>
+								<exclude>**/.settings/**</exclude>	        							        										
		
+        						<exclude>**/target/**</exclude>
+        						<exclude>**/MANIFEST.MF</exclude>
+								<!-- Exclude bin/model resources -->
+								<exclude>**/resources/models/**</exclude>								
+								<exclude>**/src/main/resources/**</exclude>
+								<exclude>**/src/test/resources/**</exclude>
+								<exclude>**/META-INF/org.uimafit/types.txt</exclude>								
+								<!-- Exclude test data files -->
+								<exclude>**/data/test/**</exclude>
+								<exclude>**/data/**</exclude>
+								<exclude>**/output/**</exclude>	
+								<exclude>**/sample_note.txt</exclude>																							
+							</excludes>
+						<numUnapprovedLicenses>0</numUnapprovedLicenses>								
+					</configuration>
+				</plugin>					
 			</plugins>
 		</pluginManagement>
 	</build>



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