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Posted to commits@ctakes.apache.org by bu...@apache.org on 2012/11/15 23:37:50 UTC
svn commit: r838535 - in /websites/staging/ctakes/trunk/content: ./
ctakes/2.6.0/ctakes-2.6-Clinical-Documents-Pipeline.html
Author: buildbot
Date: Thu Nov 15 22:37:49 2012
New Revision: 838535
Log:
Staging update by buildbot for ctakes
Added:
websites/staging/ctakes/trunk/content/ctakes/2.6.0/ctakes-2.6-Clinical-Documents-Pipeline.html
Modified:
websites/staging/ctakes/trunk/content/ (props changed)
Propchange: websites/staging/ctakes/trunk/content/
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--- cms:source-revision (original)
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Added: websites/staging/ctakes/trunk/content/ctakes/2.6.0/ctakes-2.6-Clinical-Documents-Pipeline.html
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--- websites/staging/ctakes/trunk/content/ctakes/2.6.0/ctakes-2.6-Clinical-Documents-Pipeline.html (added)
+++ websites/staging/ctakes/trunk/content/ctakes/2.6.0/ctakes-2.6-Clinical-Documents-Pipeline.html Thu Nov 15 22:37:49 2012
@@ -0,0 +1,135 @@
+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
+<html>
+<head>
+<!--
+
+ 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.
+-->
+
+<link href="/ctakes/css/ctakes.css" rel="stylesheet" type="text/css">
+
+<title>cTAKES 2.6 Clinical Documents Pipeline</title>
+<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
+
+</head>
+
+<body>
+ <div class="banner">
+ <div id="bannerleft">
+ <a href="http://www.apache.org/"><img src="http://www.apache.org/images/asf_logo_wide.gif" alt="The Apache Software Foundation" border="0"/></a>
+ <br/>
+ <img alt="cTAKES logo" src="/ctakes/images/ctakes_logo.jpg" border="0"/>
+ </div>
+ <div id="bannerright">
+ <img id="asf-logo" alt="Apache Incubator" src="http://incubator.apache.org/images/egg-logo.png" border="0"/></a>
+ </div>
+ </div>
+ <div id="clear"></div>
+
+
+ <div id="sidenav">
+ <h1 id="general">General</h1>
+<ul>
+<li><a href="/ctakes/index.html">About</a></li>
+<li><a href="/ctakes/gettingstarted.html">Getting Started</a></li>
+<li><a href="/ctakes/downloads.html">Downloads</a></li>
+<li><a href="/ctakes/glossary.html">Glossary</a></li>
+</ul>
+<h1 id="community">Community</h1>
+<ul>
+<li><a href="/ctakes/get-involved.html">Get Involved</a></li>
+<li><a href="https://issues.apache.org/jira/browse/ctakes">Bug Tracker</a></li>
+<li><a href="/ctakes/mailing-lists.html">Mailing Lists</a></li>
+<li><a href="/ctakes/people.html">People</a></li>
+<li><a href="http://incubator.apache.org/projects/ctakes.html">Incubator page</a></li>
+<li><a href="/ctakes/license.html">License</a></li>
+<li><a href="/ctakes/history.html">History</a></li>
+<li><a href="/ctakes/community-faqs.html">Community FAQs</a></li>
+</ul>
+<h1 id="users">Users</h1>
+<ul>
+<li><a href="/ctakes/userguide.html">User Guide</a></li>
+<li><a href="/ctakes/user-faqs.html">User FAQs</a></li>
+</ul>
+<h1 id="developers">Developers</h1>
+<ul>
+<li><a href="/ctakes/developerguide.html">Developer Guide</a></li>
+<li><a href="/ctakes/developer-faqs.html">Developer FAQs</a></li>
+</ul>
+<h1 id="ppmc">PPMC</h1>
+<ul>
+<li><a href="/ctakes/ppmc-faqs.html">PPMC FAQs</a></li>
+<li><a href="/ctakes/ctakes-release-guide.html">Release Guide</a> <br />
+</li>
+</ul>
+<h1 id="asf">ASF</h1>
+<ul>
+<li><a href="http://www.apache.org">Apache Software Foundation</a></li>
+<li><a href="http://www.apache.org/foundation/thanks.html">Thanks</a></li>
+<li><a href="http://www.apache.org/foundation/sponsorship.html">Become a Sponsor</a></li>
+</ul>
+ </div>
+ <div id="contenta">
+ <h1 id="ctakes-26-clinical-documents-pipeline">cTAKES 2.6 - Clinical Documents Pipeline</h1>
+<h2 id="overview-of-clinical-documents-pipeline">Overview of Clinical Documents Pipeline</h2>
+<p>This project is the top-level, main project for processing a clinical document
+through the entire cTAKES pipeline, including sentence detection, part of
+speech tagging <a href="http://ohnlp.sourceforge.net/cTAKES/#cd_pos_tagger">POS</a>,
+<a href="http://ohnlp.sourceforge.net/cTAKES/#cd_chunker">chunking</a>, named entity
+recognition, context detection, and negation detection. Refer to <a href="http://ohnlp.sourceforge.net/cTAKES/#cd_necontexts">context in
+the cTAKES documentation on
+SourceForge</a>.</p>
+<p>The pipeline can process two types of documents</p>
+<ul>
+<li>plain text files</li>
+<li>Clinical Document Architecture (CDA) XML files that conform to the DTD provided</li>
+</ul>
+<h2 id="analysis-engines-annotators">Analysis engines (annotators)</h2>
+<h3 id="aggregatecdaprocessorxml-for-cda-documents-conforming-to-the-provided-dtd">AggregateCdaProcessor.xml for CDA documents conforming to the provided DTD</h3>
+<p>The file desc/analysis_engine/AggregateCdaProcessor.xml is the aggregate
+analysis engine to use to run the entire pipeline, including the
+CdaCasInitialzer analysis engine, which reads CDA documents that conform to
+the DTD provided, and create Segment annotations based on the sections within
+the CDA document.</p>
+<p><strong>Parameters</strong></p>
+<p><strong>ChunkerCreatorClass</strong><br />
+the full class name of an implementation of the interface
+edu.mayo.bmi.uima.chunker.ChunkerCreator</p>
+<h3 id="aggregateplaintextprocessorxml-for-plain-text-documents">AggregatePlaintextProcessor.xml for plain text documents</h3>
+<p>The file desc/analysis_engine/AggregatePlaintextProcessor.xml is the aggregate
+analysis engine to use to run the entire pipeline, including the
+SimpleSegmentAnnotator analysis engine, which creates a Segment annotation
+that wraps the entire plain text document. Other annotators in the pipeline
+require at least one Segment annotation.</p>
+<p><strong>Parameters</strong><br />
+SegmentID the identifier or name to assign to the Segment annotation
+ChunkerCreatorClass the full class name of an implementation of the interface
+edu.mayo.bmi.uima.chunker.ChunkerCreator</p>
+<p><img alt="" src="/images/icons/emoticons/information.png" /></p>
+<p>The ChunkCreatorClass parameter of both annotators is set to
+edu.mayo.bmi.uima.chunker.PhraseTypeChunkCreator so that each phrase type gets
+its own type of annotation, rather than having all chunks be of type Chunk.</p>
+ </div>
+
+ <div id="footera">
+ <div id="copyrighta">
+ <p>Copyright © 2011 The Apache Software Foundation, Licensed under the <a href="http://www.apache.org/licenses/LICENSE-2.0">Apache License, Version 2.0</a>.<br/>Apache and the Apache feather logo are trademarks of The Apache Software Foundation.</p>
+ </div>
+ </div>
+
+</body>
+</html>
+