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Posted to commits@ctakes.apache.org by ch...@apache.org on 2014/06/16 20:10:33 UTC
svn commit: r1602946 - in /ctakes/trunk: ctakes-chunker/desc/
ctakes-clinical-pipeline/desc/analysis_engine/auto/
ctakes-clinical-pipeline/desc/collection_processing_engine/assertion_training_steps/
ctakes-clinical-pipeline/src/main/java/org/apache/cta...
Author: chenpei
Date: Mon Jun 16 18:10:32 2014
New Revision: 1602946
URL: http://svn.apache.org/r1602946
Log:
CTAKES-301 - Create a cTAKES 3.2.0 Release
Applying ASF License Headers onto misc projects
Modified:
ctakes/trunk/ctakes-chunker/desc/Chunker.xml
ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/auto/defaultPipeline.xml
ctakes/trunk/ctakes-clinical-pipeline/desc/collection_processing_engine/assertion_training_steps/process_gold_assertion_data.xml
ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java
ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfAnnotationsGenerator.java
ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfCUIsGenerator.java
ctakes/trunk/ctakes-constituency-parser/scripts/groovy/parser.groovy
ctakes/trunk/ctakes-core-res/src/main/resources/log4j.xml
ctakes/trunk/ctakes-core/desc/analysis_engine/SHARPKnowtatorXMLReader.xml
ctakes/trunk/ctakes-core/desc/cas_consumer/__XmiWriterCasConsumer.xml
ctakes/trunk/ctakes-core/desc/collection_reader/XmiCollectionReaderCtakes.xml
ctakes/trunk/ctakes-core/scripts/groovy/cTAKES_clinical_pipeline.groovy
ctakes/trunk/ctakes-core/scripts/groovy/run_cTAKES.groovy
ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/ae/DocumentIdPrinterAnalysisEngine.java
ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cc/XmiWriterCasConsumerCtakes.java
ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cpe/CmdLineCpeRunner.java
ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java
ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/util/SHARPKnowtatorXMLDefaults.java
ctakes/trunk/ctakes-core/src/test/java/org/apache/ctakes/core/ae/SentenceDetectorAnnotatorTest.java
ctakes/trunk/ctakes-coreference/src/main/java/org/apache/ctakes/coreference/cc/PreprocessAndWriteXmi.java
ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/AnnotationDepUtils.java
ctakes/trunk/ctakes-dictionary-lookup-res/pom.xml
ctakes/trunk/ctakes-dictionary-lookup-res/src/main/resources/org/apache/ctakes/dictionary/lookup/AssertionCuePhraseDictionaryLookupAnnotator.xml
ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AssertionCuePhraseDictionaryLookupAnnotator.xml
ctakes/trunk/ctakes-drug-ner-res/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml
ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DictionaryLookupAnnotator.xml
ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextProcessor.xml
ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugCNP2LookupWindow.xml
ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_CPE.xml
ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_PlainText_CPE.xml
ctakes/trunk/ctakes-drug-ner/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml
ctakes/trunk/ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml
ctakes/trunk/ctakes-lvg/src/main/test/org/apache/ctakes/lvg/test/TestLvgAnnotator.java
ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml
ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystemDescription.xsl
ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterMap.java
ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterTreeMap.java
ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateMath.java
ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateSimilarity.java
ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/SearchResult.java
ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/TestCosineSimilarity.java
ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/WikiIndex.java
Modified: ctakes/trunk/ctakes-chunker/desc/Chunker.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-chunker/desc/Chunker.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-chunker/desc/Chunker.xml (original)
+++ ctakes/trunk/ctakes-chunker/desc/Chunker.xml Mon Jun 16 18:10:32 2014
@@ -1,14 +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. -->
+<!--
+
+ 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: ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/auto/defaultPipeline.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/auto/defaultPipeline.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/auto/defaultPipeline.xml (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/desc/analysis_engine/auto/defaultPipeline.xml Mon Jun 16 18:10:32 2014
@@ -1,4 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?><analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
+<!--
+
+ 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.
+
+-->
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>false</primitive>
<delegateAnalysisEngineSpecifiers>
Modified: ctakes/trunk/ctakes-clinical-pipeline/desc/collection_processing_engine/assertion_training_steps/process_gold_assertion_data.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/desc/collection_processing_engine/assertion_training_steps/process_gold_assertion_data.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/desc/collection_processing_engine/assertion_training_steps/process_gold_assertion_data.xml (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/desc/collection_processing_engine/assertion_training_steps/process_gold_assertion_data.xml Mon Jun 16 18:10:32 2014
@@ -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.
+
+-->
<cpeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<collectionReader>
<collectionIterator>
Modified: ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/ClinicalPipelineFactory.java Mon Jun 16 18:10:32 2014
@@ -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.clinicalpipeline;
import java.io.FileNotFoundException;
Modified: ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfAnnotationsGenerator.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfAnnotationsGenerator.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfAnnotationsGenerator.java (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfAnnotationsGenerator.java Mon Jun 16 18:10:32 2014
@@ -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.clinicalpipeline.runtime;
import java.io.File;
Modified: ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfCUIsGenerator.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfCUIsGenerator.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfCUIsGenerator.java (original)
+++ ctakes/trunk/ctakes-clinical-pipeline/src/main/java/org/apache/ctakes/clinicalpipeline/runtime/BagOfCUIsGenerator.java Mon Jun 16 18:10:32 2014
@@ -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.clinicalpipeline.runtime;
import java.io.IOException;
Modified: ctakes/trunk/ctakes-constituency-parser/scripts/groovy/parser.groovy
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-constituency-parser/scripts/groovy/parser.groovy?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-constituency-parser/scripts/groovy/parser.groovy (original)
+++ ctakes/trunk/ctakes-constituency-parser/scripts/groovy/parser.groovy Mon Jun 16 18:10:32 2014
@@ -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.
+ */
#!/usr/bin/env groovy
/**
** This assumes that you have installed Groovy and
Modified: ctakes/trunk/ctakes-core-res/src/main/resources/log4j.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core-res/src/main/resources/log4j.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core-res/src/main/resources/log4j.xml (original)
+++ ctakes/trunk/ctakes-core-res/src/main/resources/log4j.xml Mon Jun 16 18:10:32 2014
@@ -1,4 +1,24 @@
<?xml version="1.0" encoding="UTF-8" ?> <!DOCTYPE log4j:configuration SYSTEM "log4j.dtd">
+<!--
+
+ 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.
+
+-->
<log4j:configuration debug="true"
xmlns:log4j='http://jakarta.apache.org/log4j/'>
<appender name="consoleAppender" class="org.apache.log4j.ConsoleAppender">
Modified: ctakes/trunk/ctakes-core/desc/analysis_engine/SHARPKnowtatorXMLReader.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/desc/analysis_engine/SHARPKnowtatorXMLReader.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/desc/analysis_engine/SHARPKnowtatorXMLReader.xml (original)
+++ ctakes/trunk/ctakes-core/desc/analysis_engine/SHARPKnowtatorXMLReader.xml Mon Jun 16 18:10:32 2014
@@ -1,4 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?><taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
+<!--
+
+ 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.
+
+-->
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
<annotatorImplementationName>org.apache.ctakes.core.ae.SHARPKnowtatorXMLReader</annotatorImplementationName>
Modified: ctakes/trunk/ctakes-core/desc/cas_consumer/__XmiWriterCasConsumer.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/desc/cas_consumer/__XmiWriterCasConsumer.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/desc/cas_consumer/__XmiWriterCasConsumer.xml (original)
+++ ctakes/trunk/ctakes-core/desc/cas_consumer/__XmiWriterCasConsumer.xml Mon Jun 16 18:10:32 2014
@@ -1,4 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?><casConsumerDescription xmlns="http://uima.apache.org/resourceSpecifier">
+<!--
+
+ 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.
+
+-->
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<implementationName>org.apache.ctakes.core.cc.XmiWriterCasConsumerCtakes</implementationName>
<processingResourceMetaData>
Modified: ctakes/trunk/ctakes-core/desc/collection_reader/XmiCollectionReaderCtakes.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/desc/collection_reader/XmiCollectionReaderCtakes.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/desc/collection_reader/XmiCollectionReaderCtakes.xml (original)
+++ ctakes/trunk/ctakes-core/desc/collection_reader/XmiCollectionReaderCtakes.xml Mon Jun 16 18:10:32 2014
@@ -1,26 +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.
- ***************************************************************
- -->
-
+ 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.
+
+-->
<collectionReaderDescription xmlns="http://uima.apache.org/resourceSpecifier">
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<implementationName>org.apache.ctakes.core.cr.XmiCollectionReaderCtakes</implementationName>
Modified: ctakes/trunk/ctakes-core/scripts/groovy/cTAKES_clinical_pipeline.groovy
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/scripts/groovy/cTAKES_clinical_pipeline.groovy?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/scripts/groovy/cTAKES_clinical_pipeline.groovy (original)
+++ ctakes/trunk/ctakes-core/scripts/groovy/cTAKES_clinical_pipeline.groovy Mon Jun 16 18:10:32 2014
@@ -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.
+ */
#!/usr/bin/env groovy
/**
Modified: ctakes/trunk/ctakes-core/scripts/groovy/run_cTAKES.groovy
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/scripts/groovy/run_cTAKES.groovy?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/scripts/groovy/run_cTAKES.groovy (original)
+++ ctakes/trunk/ctakes-core/scripts/groovy/run_cTAKES.groovy Mon Jun 16 18:10:32 2014
@@ -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.
+ */
#!/usr/bin/env groovy
/**
Modified: ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/ae/DocumentIdPrinterAnalysisEngine.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/ae/DocumentIdPrinterAnalysisEngine.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/ae/DocumentIdPrinterAnalysisEngine.java (original)
+++ ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/ae/DocumentIdPrinterAnalysisEngine.java Mon Jun 16 18:10:32 2014
@@ -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.core.ae;
Modified: ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cc/XmiWriterCasConsumerCtakes.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cc/XmiWriterCasConsumerCtakes.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cc/XmiWriterCasConsumerCtakes.java (original)
+++ ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cc/XmiWriterCasConsumerCtakes.java Mon Jun 16 18:10:32 2014
@@ -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.core.cc;
/*
Modified: ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cpe/CmdLineCpeRunner.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cpe/CmdLineCpeRunner.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cpe/CmdLineCpeRunner.java (original)
+++ ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cpe/CmdLineCpeRunner.java Mon Jun 16 18:10:32 2014
@@ -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.core.cpe;
import org.apache.uima.UIMAFramework;
Modified: ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java (original)
+++ ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/cr/XmiCollectionReaderCtakes.java Mon Jun 16 18:10:32 2014
@@ -1,4 +1,4 @@
-/*
+/**
* 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
@@ -6,9 +6,9 @@
* 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
@@ -16,7 +16,6 @@
* specific language governing permissions and limitations
* under the License.
*/
-
package org.apache.ctakes.core.cr;
import java.io.File;
Modified: ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/util/SHARPKnowtatorXMLDefaults.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/util/SHARPKnowtatorXMLDefaults.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/util/SHARPKnowtatorXMLDefaults.java (original)
+++ ctakes/trunk/ctakes-core/src/main/java/org/apache/ctakes/core/util/SHARPKnowtatorXMLDefaults.java Mon Jun 16 18:10:32 2014
@@ -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.core.util;
import org.apache.ctakes.typesystem.type.constants.CONST;
Modified: ctakes/trunk/ctakes-core/src/test/java/org/apache/ctakes/core/ae/SentenceDetectorAnnotatorTest.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-core/src/test/java/org/apache/ctakes/core/ae/SentenceDetectorAnnotatorTest.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-core/src/test/java/org/apache/ctakes/core/ae/SentenceDetectorAnnotatorTest.java (original)
+++ ctakes/trunk/ctakes-core/src/test/java/org/apache/ctakes/core/ae/SentenceDetectorAnnotatorTest.java Mon Jun 16 18:10:32 2014
@@ -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.core.ae;
import static org.junit.Assert.assertEquals;
Modified: ctakes/trunk/ctakes-coreference/src/main/java/org/apache/ctakes/coreference/cc/PreprocessAndWriteXmi.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-coreference/src/main/java/org/apache/ctakes/coreference/cc/PreprocessAndWriteXmi.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-coreference/src/main/java/org/apache/ctakes/coreference/cc/PreprocessAndWriteXmi.java (original)
+++ ctakes/trunk/ctakes-coreference/src/main/java/org/apache/ctakes/coreference/cc/PreprocessAndWriteXmi.java Mon Jun 16 18:10:32 2014
@@ -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.coreference.cc;
import java.io.File;
Modified: ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/AnnotationDepUtils.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/AnnotationDepUtils.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/AnnotationDepUtils.java (original)
+++ ctakes/trunk/ctakes-dependency-parser/src/main/java/org/apache/ctakes/dependency/parser/util/AnnotationDepUtils.java Mon Jun 16 18:10:32 2014
@@ -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.dependency.parser.util;
import java.util.ArrayList;
Modified: ctakes/trunk/ctakes-dictionary-lookup-res/pom.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-dictionary-lookup-res/pom.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-dictionary-lookup-res/pom.xml (original)
+++ ctakes/trunk/ctakes-dictionary-lookup-res/pom.xml Mon Jun 16 18:10:32 2014
@@ -70,6 +70,23 @@
</execution>
</executions>
</plugin>
+ <plugin>
+ <artifactId>maven-jar-plugin</artifactId>
+ <version>2.4</version>
+ <configuration>
+ <includes>
+ <!-- Dictionary lookup Resources that are unpacked
+ automatically by maven
+ are not jar'd and included in the bin distro
+ by default please download them from SF if needed.
+ -->
+ <include>**/*.class</include>
+ <include>**/types/*.xml</include>
+ <include>**/META-INF/**</include>
+
+ </includes>
+ </configuration>
+ </plugin>
</plugins>
</build>
</project>
Modified: ctakes/trunk/ctakes-dictionary-lookup-res/src/main/resources/org/apache/ctakes/dictionary/lookup/AssertionCuePhraseDictionaryLookupAnnotator.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-dictionary-lookup-res/src/main/resources/org/apache/ctakes/dictionary/lookup/AssertionCuePhraseDictionaryLookupAnnotator.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-dictionary-lookup-res/src/main/resources/org/apache/ctakes/dictionary/lookup/AssertionCuePhraseDictionaryLookupAnnotator.xml (original)
+++ ctakes/trunk/ctakes-dictionary-lookup-res/src/main/resources/org/apache/ctakes/dictionary/lookup/AssertionCuePhraseDictionaryLookupAnnotator.xml Mon Jun 16 18:10:32 2014
@@ -1,4 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?><taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
+<!--
+
+ 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.
+
+-->
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
<annotatorImplementationName>org.apache.ctakes.dictionary.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
Modified: ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AssertionCuePhraseDictionaryLookupAnnotator.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AssertionCuePhraseDictionaryLookupAnnotator.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AssertionCuePhraseDictionaryLookupAnnotator.xml (original)
+++ ctakes/trunk/ctakes-dictionary-lookup/desc/analysis_engine/AssertionCuePhraseDictionaryLookupAnnotator.xml Mon Jun 16 18:10:32 2014
@@ -1,4 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?><taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
+<!--
+
+ 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.
+
+-->
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
<annotatorImplementationName>org.apache.ctakes.dictionary.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
Modified: ctakes/trunk/ctakes-drug-ner-res/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-drug-ner-res/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-drug-ner-res/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml (original)
+++ ctakes/trunk/ctakes-drug-ner-res/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml Mon Jun 16 18:10:32 2014
@@ -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.
+
+-->
<typeSystemDescription xmlns="http://uima.apache.org/resourceSpecifier">
<name>org.apache.ctakes.drugner.types.TypeSystem</name>
<description/>
Modified: ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DictionaryLookupAnnotator.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DictionaryLookupAnnotator.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DictionaryLookupAnnotator.xml (original)
+++ ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DictionaryLookupAnnotator.xml Mon Jun 16 18:10:32 2014
@@ -1,4 +1,24 @@
<?xml version="1.0" encoding="UTF-8"?><taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
+<!--
+
+ 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.
+
+-->
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
<annotatorImplementationName>org.apache.ctakes.dictionary.lookup.ae.DictionaryLookupAnnotator</annotatorImplementationName>
Modified: ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextProcessor.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextProcessor.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextProcessor.xml (original)
+++ ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextProcessor.xml Mon Jun 16 18:10:32 2014
@@ -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: ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugCNP2LookupWindow.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugCNP2LookupWindow.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugCNP2LookupWindow.xml (original)
+++ ctakes/trunk/ctakes-drug-ner/desc/analysis_engine/DrugCNP2LookupWindow.xml Mon Jun 16 18:10:32 2014
@@ -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.
+
+-->
<taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
Modified: ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_CPE.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_CPE.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_CPE.xml (original)
+++ ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_CPE.xml Mon Jun 16 18:10:32 2014
@@ -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.
+
+-->
<cpeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<collectionReader>
<collectionIterator>
Modified: ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_PlainText_CPE.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_PlainText_CPE.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_PlainText_CPE.xml (original)
+++ ctakes/trunk/ctakes-drug-ner/desc/collection_processing_engine/DrugNER_PlainText_CPE.xml Mon Jun 16 18:10:32 2014
@@ -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.
+
+-->
<cpeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<collectionReader>
<collectionIterator>
Modified: ctakes/trunk/ctakes-drug-ner/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-drug-ner/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-drug-ner/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml (original)
+++ ctakes/trunk/ctakes-drug-ner/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml Mon Jun 16 18:10:32 2014
@@ -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.
+
+-->
<typeSystemDescription xmlns="http://uima.apache.org/resourceSpecifier">
<name>org.apache.ctakes.drugner.types.TypeSystem</name>
<description/>
Modified: ctakes/trunk/ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml (original)
+++ ctakes/trunk/ctakes-lvg/desc/analysis_engine/LvgAnnotator.xml Mon Jun 16 18:10:32 2014
@@ -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.
+
+-->
<taeDescription xmlns="http://uima.apache.org/resourceSpecifier">
<frameworkImplementation>org.apache.uima.java</frameworkImplementation>
<primitive>true</primitive>
Modified: ctakes/trunk/ctakes-lvg/src/main/test/org/apache/ctakes/lvg/test/TestLvgAnnotator.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-lvg/src/main/test/org/apache/ctakes/lvg/test/TestLvgAnnotator.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-lvg/src/main/test/org/apache/ctakes/lvg/test/TestLvgAnnotator.java (original)
+++ ctakes/trunk/ctakes-lvg/src/main/test/org/apache/ctakes/lvg/test/TestLvgAnnotator.java Mon Jun 16 18:10:32 2014
@@ -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.lvg.test;
import static org.junit.Assert.*;
Modified: ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
Binary files - no diff available.
Modified: ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystemDescription.xsl
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystemDescription.xsl?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
Binary files - no diff available.
Modified: ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterMap.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterMap.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterMap.java (original)
+++ ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterMap.java Mon Jun 16 18:10:32 2014
@@ -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.utils.struct;
import java.util.HashMap;
Modified: ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterTreeMap.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterTreeMap.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterTreeMap.java (original)
+++ ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/struct/CounterTreeMap.java Mon Jun 16 18:10:32 2014
@@ -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.utils.struct;
import java.util.Comparator;
Modified: ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateMath.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateMath.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateMath.java (original)
+++ ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateMath.java Mon Jun 16 18:10:32 2014
@@ -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.utils.wiki;
public class ApproximateMath {
Modified: ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateSimilarity.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateSimilarity.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateSimilarity.java (original)
+++ ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/ApproximateSimilarity.java Mon Jun 16 18:10:32 2014
@@ -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.utils.wiki;
import org.apache.lucene.search.similarities.DefaultSimilarity;
Modified: ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/SearchResult.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/SearchResult.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/SearchResult.java (original)
+++ ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/SearchResult.java Mon Jun 16 18:10:32 2014
@@ -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.utils.wiki;
public class SearchResult {
Modified: ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/TestCosineSimilarity.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/TestCosineSimilarity.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/TestCosineSimilarity.java (original)
+++ ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/TestCosineSimilarity.java Mon Jun 16 18:10:32 2014
@@ -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.utils.wiki;
import java.io.IOException;
Modified: ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/WikiIndex.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/WikiIndex.java?rev=1602946&r1=1602945&r2=1602946&view=diff
==============================================================================
--- ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/WikiIndex.java (original)
+++ ctakes/trunk/ctakes-utils/src/main/java/org/apache/ctakes/utils/wiki/WikiIndex.java Mon Jun 16 18:10:32 2014
@@ -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.utils.wiki;
import java.io.File;