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Posted to commits@ctakes.apache.org by se...@apache.org on 2022/12/13 23:55:54 UTC
[ctakes] 01/03: Revert "Initial Commit."
This is an automated email from the ASF dual-hosted git repository.
seanfinan pushed a commit to branch master
in repository https://gitbox.apache.org/repos/asf/ctakes.git
commit 67ca874955d8ccd823b044dee5875f5765e226ab
Author: Sean Finan <se...@childrens.harvard.edu>
AuthorDate: Tue Dec 13 18:39:34 2022 -0500
Revert "Initial Commit."
This reverts commit 981fab84496c205c2bc98efebcbb6b4d017e6b2d.
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.gitattributes | 21 -
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LICENSE | 253 -
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README | 14 -
ctakes-assertion-zoner/LICENSE | 202 -
ctakes-assertion-zoner/desc/ZonerDescriptor.xml | 112 -
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ctakes-assertion/LICENSE | 202 -
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ctakes-relation-extractor/LICENSE | 202 -
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ctakes-smoking-status/LICENSE | 202 -
ctakes-smoking-status/README | 284 -
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pom.xml | 1123 -
3387 files changed, 2810505 deletions(-)
diff --git a/.gitattributes b/.gitattributes
deleted file mode 100644
index b138159..0000000
--- a/.gitattributes
+++ /dev/null
@@ -1,21 +0,0 @@
-# Auto detect text files and perform LF normalization
-* text=auto
-
-*.cs text diff=csharp eol=lf
-# TODO: Uncomment when files are converted to lf (*NIX is default)
-# *.java text diff=java eol=lf
-# *.html text diff=html eol=lf
-*.py text diff=python eol=lf
-*.pl text diff=perl eol=lf
-*.pm text diff=perl eol=lf
-# *.css text eol=lf
-*.js text eol=lf
-# *.sql text eol=lf
-
-*.sh text eol=lf
-
-# *.bat text eol=crlf
-*.cmd text eol=crlf
-*.vcxproj text merge=union eol=crlf
-*.csproj text merge=union eol=crlf
-*.sln text merge=union eol=crlf
diff --git a/.gitignore b/.gitignore
deleted file mode 100644
index ff87f1b..0000000
--- a/.gitignore
+++ /dev/null
@@ -1,35 +0,0 @@
-# Java generated
-target/
-
-# Developer environment setup
-/resources/
-*.patch
-
-# Subversion
-.svn
-
-# IntelliJ
-.idea
-*.iml
-*.ipr
-*.iws
-
-# Eclipse
-.project
-.settings
-.classpath
-*/maven-eclipse.xml
-
-# Windows
-Thumbs.db
-*.lnk
-
-# OSX
-.DS_Store
-
-# log files and temp dirs
-cTAKES.error.log
-*.log*
-/temp/
-/tmp/
-
diff --git a/KEYS b/KEYS
deleted file mode 100644
index b153ea3..0000000
--- a/KEYS
+++ /dev/null
@@ -1,248 +0,0 @@
-This file contains the PGP keys of various developers.
-
-Users: pgp < KEYS
- gpg --import KEYS
-Developers:
- pgp -kxa <your name> and append it to this file.
- (pgpk -ll <your name> && pgpk -xa <your name>)
- >> this file.
- (gpg --list-sigs <your name>
- && gpg --armor --export <your name>) >>
- this file.
-
-
------------------------------------------------------------------------------------
-pub 4096R/D218BB0A 2012-10-31
-uid Pei Chen (CODE SIGNING KEY2) <ch...@apache.org>
-sig 3 D218BB0A 2012-10-31 Pei Chen (CODE SIGNING KEY2) <ch...@apache.org>
-sub 4096R/C06F2F96 2012-10-31
-sig D218BB0A 2012-10-31 Pei Chen (CODE SIGNING KEY2) <ch...@apache.org>
-
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diff --git a/LICENSE b/LICENSE
deleted file mode 100644
index 3d04d87..0000000
--- a/LICENSE
+++ /dev/null
@@ -1,253 +0,0 @@
-
- Apache License
- Version 2.0, January 2004
- http://www.apache.org/licenses/
-
- TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
-
- 1. Definitions.
-
- "License" shall mean the terms and conditions for use, reproduction,
- and distribution as defined by Sections 1 through 9 of this document.
-
- "Licensor" shall mean the copyright owner or entity authorized by
- the copyright owner that is granting the License.
-
- "Legal Entity" shall mean the union of the acting entity and all
- other entities that control, are controlled by, or are under common
- control with that entity. For the purposes of this definition,
- "control" means (i) the power, direct or indirect, to cause the
- direction or management of such entity, whether by contract or
- otherwise, or (ii) ownership of fifty percent (50%) or more of the
- outstanding shares, or (iii) beneficial ownership of such entity.
-
- "You" (or "Your") shall mean an individual or Legal Entity
- exercising permissions granted by this License.
-
- "Source" form shall mean the preferred form for making modifications,
- including but not limited to software source code, documentation
- source, and configuration files.
-
- "Object" form shall mean any form resulting from mechanical
- transformation or translation of a Source form, including but
- not limited to compiled object code, generated documentation,
- and conversions to other media types.
-
- "Work" shall mean the work of authorship, whether in Source or
- Object form, made available under the License, as indicated by a
- copyright notice that is included in or attached to the work
- (an example is provided in the Appendix below).
-
- "Derivative Works" shall mean any work, whether in Source or Object
- form, that is based on (or derived from) the Work and for which the
- editorial revisions, annotations, elaborations, or other modifications
- represent, as a whole, an original work of authorship. For the purposes
- of this License, Derivative Works shall not include works that remain
- separable from, or merely link (or bind by name) to the interfaces of,
- the Work and Derivative Works thereof.
-
- "Contribution" shall mean any work of authorship, including
- the original version of the Work and any modifications or additions
- to that Work or Derivative Works thereof, that is intentionally
- submitted to Licensor for inclusion in the Work by the copyright owner
- or by an individual or Legal Entity authorized to submit on behalf of
- the copyright owner. For the purposes of this definition, "submitted"
- means any form of electronic, verbal, or written communication sent
- to the Licensor or its representatives, including but not limited to
- communication on electronic mailing lists, source code control systems,
- and issue tracking systems that are managed by, or on behalf of, the
- Licensor for the purpose of discussing and improving the Work, but
- excluding communication that is conspicuously marked or otherwise
- designated in writing by the copyright owner as "Not a Contribution."
-
- "Contributor" shall mean Licensor and any individual or Legal Entity
- on behalf of whom a Contribution has been received by Licensor and
- subsequently incorporated within the Work.
-
- 2. Grant of Copyright License. Subject to the terms and conditions of
- this License, each Contributor hereby grants to You a perpetual,
- worldwide, non-exclusive, no-charge, royalty-free, irrevocable
- copyright license to reproduce, prepare Derivative Works of,
- publicly display, publicly perform, sublicense, and distribute the
- Work and such Derivative Works in Source or Object form.
-
- 3. Grant of Patent License. Subject to the terms and conditions of
- this License, each Contributor hereby grants to You a perpetual,
- worldwide, non-exclusive, no-charge, royalty-free, irrevocable
- (except as stated in this section) patent license to make, have made,
- use, offer to sell, sell, import, and otherwise transfer the Work,
- where such license applies only to those patent claims licensable
- by such Contributor that are necessarily infringed by their
- Contribution(s) alone or by combination of their Contribution(s)
- with the Work to which such Contribution(s) was submitted. If You
- institute patent litigation against any entity (including a
- cross-claim or counterclaim in a lawsuit) alleging that the Work
- or a Contribution incorporated within the Work constitutes direct
- or contributory patent infringement, then any patent licenses
- granted to You under this License for that Work shall terminate
- as of the date such litigation is filed.
-
- 4. Redistribution. You may reproduce and distribute copies of the
- Work or Derivative Works thereof in any medium, with or without
- modifications, and in Source or Object form, provided that You
- meet the following conditions:
-
- (a) You must give any other recipients of the Work or
- Derivative Works a copy of this License; and
-
- (b) You must cause any modified files to carry prominent notices
- stating that You changed the files; and
-
- (c) You must retain, in the Source form of any Derivative Works
- that You distribute, all copyright, patent, trademark, and
- attribution notices from the Source form of the Work,
- excluding those notices that do not pertain to any part of
- the Derivative Works; and
-
- (d) If the Work includes a "NOTICE" text file as part of its
- distribution, then any Derivative Works that You distribute must
- include a readable copy of the attribution notices contained
- within such NOTICE file, excluding those notices that do not
- pertain to any part of the Derivative Works, in at least one
- of the following places: within a NOTICE text file distributed
- as part of the Derivative Works; within the Source form or
- documentation, if provided along with the Derivative Works; or,
- within a display generated by the Derivative Works, if and
- wherever such third-party notices normally appear. The contents
- of the NOTICE file are for informational purposes only and
- do not modify the License. You may add Your own attribution
- notices within Derivative Works that You distribute, alongside
- or as an addendum to the NOTICE text from the Work, provided
- that such additional attribution notices cannot be construed
- as modifying the License.
-
- You may add Your own copyright statement to Your modifications and
- may provide additional or different license terms and conditions
- for use, reproduction, or distribution of Your modifications, or
- for any such Derivative Works as a whole, provided Your use,
- reproduction, and distribution of the Work otherwise complies with
- the conditions stated in this License.
-
- 5. Submission of Contributions. Unless You explicitly state otherwise,
- any Contribution intentionally submitted for inclusion in the Work
- by You to the Licensor shall be under the terms and conditions of
- this License, without any additional terms or conditions.
- Notwithstanding the above, nothing herein shall supersede or modify
- the terms of any separate license agreement you may have executed
- with Licensor regarding such Contributions.
-
- 6. Trademarks. This License does not grant permission to use the trade
- names, trademarks, service marks, or product names of the Licensor,
- except as required for reasonable and customary use in describing the
- origin of the Work and reproducing the content of the NOTICE file.
-
- 7. Disclaimer of Warranty. Unless required by applicable law or
- agreed to in writing, Licensor provides the Work (and each
- Contributor provides its Contributions) on an "AS IS" BASIS,
- WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
- implied, including, without limitation, any warranties or conditions
- of TITLE, NON-INFRINGEMENT, MERCHANTABILITY, or FITNESS FOR A
- PARTICULAR PURPOSE. You are solely responsible for determining the
- appropriateness of using or redistributing the Work and assume any
- risks associated with Your exercise of permissions under this License.
-
- 8. Limitation of Liability. In no event and under no legal theory,
- whether in tort (including negligence), contract, or otherwise,
- unless required by applicable law (such as deliberate and grossly
- negligent acts) or agreed to in writing, shall any Contributor be
- liable to You for damages, including any direct, indirect, special,
- incidental, or consequential damages of any character arising as a
- result of this License or out of the use or inability to use the
- Work (including but not limited to damages for loss of goodwill,
- work stoppage, computer failure or malfunction, or any and all
- other commercial damages or losses), even if such Contributor
- has been advised of the possibility of such damages.
-
- 9. Accepting Warranty or Additional Liability. While redistributing
- the Work or Derivative Works thereof, You may choose to offer,
- and charge a fee for, acceptance of support, warranty, indemnity,
- or other liability obligations and/or rights consistent with this
- License. However, in accepting such obligations, You may act only
- on Your own behalf and on Your sole responsibility, not on behalf
- of any other Contributor, and only if You agree to indemnify,
- defend, and hold each Contributor harmless for any liability
- incurred by, or claims asserted against, such Contributor by reason
- of your accepting any such warranty or additional liability.
-
- END OF TERMS AND CONDITIONS
-
- APPENDIX: How to apply the Apache License to your work.
-
- To apply the Apache License to your work, attach the following
- boilerplate notice, with the fields enclosed by brackets "[]"
- replaced with your own identifying information. (Don't include
- the brackets!) The text should be enclosed in the appropriate
- comment syntax for the file format. We also recommend that a
- file or class name and description of purpose be included on the
- same "printed page" as the copyright notice for easier
- identification within third-party archives.
-
- Copyright [yyyy] [name of copyright owner]
-
- Licensed 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.
-
-
-Apache cTAKES bundles part of lvg 2008, which has a separate copyright
-notice and license terms.
-See ctakes-lvg/src/main/resources/org/apache/ctakes/lvg/data
-The license for lvg:
-Terms and Conditions for Use of the SPECIALIST NLP Tools
-1. Introduction
-The following Terms and Conditions apply for use of the SPECIALIST NLP Tools.
-Using the SPECIALIST NLP Tools indicates your acceptance of the following
-Terms and Conditions. These Terms and Conditions apply to all SPECIALIST NLP
-Tools, independent of format and method of acquisition.
-2. The SPECIALIST NLP Tools
-The Lister Hill National Center for Biomedical Communications, National
-Library of Medicine, National Institutes of Health, Department of Health
-and Human Services, has developed the SPECIALIST NLP Tools to investigate
-the contributions that natural language processing techniques can make to
-the task of mediating between the language of users and the language of
-online biomedical information resources. The SPECIALIST NLP Tools facilitate
-natural language processing by helping application developers with lexical
-variation and text analysis tasks in the biomedical domain.
-3. Availability
-The SPECIALIST NLP Tools are available to all requesters, both within and
-outside the United States, at no charge.
-4. Use of the SPECIALIST NLP Tools
-a. Redistributions of the SPECIALIST NLP Tools in source or binary form must
-include this list of conditions in the documentation and/or other materials
-provided with the distribution.
-b. In any publication or distribution of all or any portion of the SPECIALIST
-NLP Tools (1) you must attribute the source of the tools as the SPECIALIST NLP
-Tools with the release number and date; (2) you must state any modifications
-made to the SPECIALIST NLP Tools along with a complete description of the
-modifications, which may be in the form of patch files.
-c. You shall not assert any proprietary rights to any portion of the SPECIALIST
-NLP Tools, nor represent the SPECIALIST NLP Tools or any part thereof to anyone
-as other than a United States Government product.
-d. The name of the U.S. Department of Health and Human Services, National
-Institutes of Health, National Library of Medicine, Lister Hill National
-Center for Biomedical Communications may not be used to endorse or promote
-products derived from the SPECIALIST NLP Tools without specific prior written
-permission.
-e. Neither the United States Government, U.S. Department of Health and Human
-Services, National Institutes of Health, National Library of Medicine, Lister
-Hill National Center for Biomedical Communications, nor any of its agencies,
-contractors, subcontractors or employees of the United States Government make
-any warranties, expressed or implied, with respect to the SPECIALIST NLP Tools,
-and, furthermore, assume no liability for any party's use, or the results of
-such use, of any part of these tools.
-These terms and conditions are in effect as long as the user retains any part
-of the SPECIALIST NLP Tools.
-
\ No newline at end of file
diff --git a/NOTICE b/NOTICE
deleted file mode 100644
index 51b297a..0000000
--- a/NOTICE
+++ /dev/null
@@ -1,26 +0,0 @@
-Apache cTAKES
-Copyright 2013 The Apache Software Foundation
-
-This product includes software developed at
-The Apache Software Foundation (http://www.apache.org/).
-
-Portions of cTAKES were originally developed by
-Mayo Clinic and are licensed to the Apache Software
-Foundation under the "Software Grant License Agreement".
-Copyright (c) 2009 Mayo Foundation for Medical Education
-and Research (MFMER)
-
-Portions of cTAKES were originally developed by
-Boston Children's Hospital and are licensed to the Apache Software
-Foundation under the "Software Grant License Agreement".
-Copyright (c) 2012 Boston Children's Hospital.
-
-Portions of cTAKES were originally developed by
-University of Colorado and are licensed to the Apache Software
-Foundation under the "Software Grant License Agreement".
-Copyright (c) 2012 University of Colorado.
-
-Portions of cTAKES were originally developed by
-The MITRE corporation and are licensed to the Apache Software
-Foundation under the "Software Grant License Agreement".
-Copyright (c) 2012 The MITRE Corporation.
diff --git a/README b/README
deleted file mode 100644
index 25c57bd..0000000
--- a/README
+++ /dev/null
@@ -1,14 +0,0 @@
-
-Apache cTAKES
-==================================
-Detailed documentation can be found at:
-http://ctakes.apache.org
-
-Requirements
----------------------------------------
-Java 1.8 is required to run cTAKES
-Maven 3.0.0 is required to build cTAKES
-
-
-For information on Installation and Operation:
-https://cwiki.apache.org/confluence/display/ctakes/ctakes
\ No newline at end of file
diff --git a/ctakes-assertion-zoner/LICENSE b/ctakes-assertion-zoner/LICENSE
deleted file mode 100644
index d645695..0000000
--- a/ctakes-assertion-zoner/LICENSE
+++ /dev/null
@@ -1,202 +0,0 @@
-
- Apache License
- Version 2.0, January 2004
- http://www.apache.org/licenses/
-
- TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
-
- 1. Definitions.
-
- "License" shall mean the terms and conditions for use, reproduction,
- and distribution as defined by Sections 1 through 9 of this document.
-
- "Licensor" shall mean the copyright owner or entity authorized by
- the copyright owner that is granting the License.
-
- "Legal Entity" shall mean the union of the acting entity and all
- other entities that control, are controlled by, or are under common
- control with that entity. For the purposes of this definition,
- "control" means (i) the power, direct or indirect, to cause the
- direction or management of such entity, whether by contract or
- otherwise, or (ii) ownership of fifty percent (50%) or more of the
- outstanding shares, or (iii) beneficial ownership of such entity.
-
- "You" (or "Your") shall mean an individual or Legal Entity
- exercising permissions granted by this License.
-
- "Source" form shall mean the preferred form for making modifications,
- including but not limited to software source code, documentation
- source, and configuration files.
-
- "Object" form shall mean any form resulting from mechanical
- transformation or translation of a Source form, including but
- not limited to compiled object code, generated documentation,
- and conversions to other media types.
-
- "Work" shall mean the work of authorship, whether in Source or
- Object form, made available under the License, as indicated by a
- copyright notice that is included in or attached to the work
- (an example is provided in the Appendix below).
-
- "Derivative Works" shall mean any work, whether in Source or Object
- form, that is based on (or derived from) the Work and for which the
- editorial revisions, annotations, elaborations, or other modifications
- represent, as a whole, an original work of authorship. For the purposes
- of this License, Derivative Works shall not include works that remain
- separable from, or merely link (or bind by name) to the interfaces of,
- the Work and Derivative Works thereof.
-
- "Contribution" shall mean any work of authorship, including
- the original version of the Work and any modifications or additions
- to that Work or Derivative Works thereof, that is intentionally
- submitted to Licensor for inclusion in the Work by the copyright owner
- or by an individual or Legal Entity authorized to submit on behalf of
- the copyright owner. For the purposes of this definition, "submitted"
- means any form of electronic, verbal, or written communication sent
- to the Licensor or its representatives, including but not limited to
- communication on electronic mailing lists, source code control systems,
- and issue tracking systems that are managed by, or on behalf of, the
- Licensor for the purpose of discussing and improving the Work, but
- excluding communication that is conspicuously marked or otherwise
- designated in writing by the copyright owner as "Not a Contribution."
-
- "Contributor" shall mean Licensor and any individual or Legal Entity
- on behalf of whom a Contribution has been received by Licensor and
- subsequently incorporated within the Work.
-
- 2. Grant of Copyright License. Subject to the terms and conditions of
- this License, each Contributor hereby grants to You a perpetual,
- worldwide, non-exclusive, no-charge, royalty-free, irrevocable
- copyright license to reproduce, prepare Derivative Works of,
- publicly display, publicly perform, sublicense, and distribute the
- Work and such Derivative Works in Source or Object form.
-
- 3. Grant of Patent License. Subject to the terms and conditions of
- this License, each Contributor hereby grants to You a perpetual,
- worldwide, non-exclusive, no-charge, royalty-free, irrevocable
- (except as stated in this section) patent license to make, have made,
- use, offer to sell, sell, import, and otherwise transfer the Work,
- where such license applies only to those patent claims licensable
- by such Contributor that are necessarily infringed by their
- Contribution(s) alone or by combination of their Contribution(s)
- with the Work to which such Contribution(s) was submitted. If You
- institute patent litigation against any entity (including a
- cross-claim or counterclaim in a lawsuit) alleging that the Work
- or a Contribution incorporated within the Work constitutes direct
- or contributory patent infringement, then any patent licenses
- granted to You under this License for that Work shall terminate
- as of the date such litigation is filed.
-
- 4. Redistribution. You may reproduce and distribute copies of the
- Work or Derivative Works thereof in any medium, with or without
- modifications, and in Source or Object form, provided that You
- meet the following conditions:
-
- (a) You must give any other recipients of the Work or
- Derivative Works a copy of this License; and
-
- (b) You must cause any modified files to carry prominent notices
- stating that You changed the files; and
-
- (c) You must retain, in the Source form of any Derivative Works
- that You distribute, all copyright, patent, trademark, and
- attribution notices from the Source form of the Work,
- excluding those notices that do not pertain to any part of
- the Derivative Works; and
-
- (d) If the Work includes a "NOTICE" text file as part of its
- distribution, then any Derivative Works that You distribute must
- include a readable copy of the attribution notices contained
- within such NOTICE file, excluding those notices that do not
- pertain to any part of the Derivative Works, in at least one
- of the following places: within a NOTICE text file distributed
- as part of the Derivative Works; within the Source form or
- documentation, if provided along with the Derivative Works; or,
- within a display generated by the Derivative Works, if and
- wherever such third-party notices normally appear. The contents
- of the NOTICE file are for informational purposes only and
- do not modify the License. You may add Your own attribution
- notices within Derivative Works that You distribute, alongside
- or as an addendum to the NOTICE text from the Work, provided
- that such additional attribution notices cannot be construed
- as modifying the License.
-
- You may add Your own copyright statement to Your modifications and
- may provide additional or different license terms and conditions
- for use, reproduction, or distribution of Your modifications, or
- for any such Derivative Works as a whole, provided Your use,
- reproduction, and distribution of the Work otherwise complies with
- the conditions stated in this License.
-
- 5. Submission of Contributions. Unless You explicitly state otherwise,
- any Contribution intentionally submitted for inclusion in the Work
- by You to the Licensor shall be under the terms and conditions of
- this License, without any additional terms or conditions.
- Notwithstanding the above, nothing herein shall supersede or modify
- the terms of any separate license agreement you may have executed
- with Licensor regarding such Contributions.
-
- 6. Trademarks. This License does not grant permission to use the trade
- names, trademarks, service marks, or product names of the Licensor,
- except as required for reasonable and customary use in describing the
- origin of the Work and reproducing the content of the NOTICE file.
-
- 7. Disclaimer of Warranty. Unless required by applicable law or
- agreed to in writing, Licensor provides the Work (and each
- Contributor provides its Contributions) on an "AS IS" BASIS,
- WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
- implied, including, without limitation, any warranties or conditions
- of TITLE, NON-INFRINGEMENT, MERCHANTABILITY, or FITNESS FOR A
- PARTICULAR PURPOSE. You are solely responsible for determining the
- appropriateness of using or redistributing the Work and assume any
- risks associated with Your exercise of permissions under this License.
-
- 8. Limitation of Liability. In no event and under no legal theory,
- whether in tort (including negligence), contract, or otherwise,
- unless required by applicable law (such as deliberate and grossly
- negligent acts) or agreed to in writing, shall any Contributor be
- liable to You for damages, including any direct, indirect, special,
- incidental, or consequential damages of any character arising as a
- result of this License or out of the use or inability to use the
- Work (including but not limited to damages for loss of goodwill,
- work stoppage, computer failure or malfunction, or any and all
- other commercial damages or losses), even if such Contributor
- has been advised of the possibility of such damages.
-
- 9. Accepting Warranty or Additional Liability. While redistributing
- the Work or Derivative Works thereof, You may choose to offer,
- and charge a fee for, acceptance of support, warranty, indemnity,
- or other liability obligations and/or rights consistent with this
- License. However, in accepting such obligations, You may act only
- on Your own behalf and on Your sole responsibility, not on behalf
- of any other Contributor, and only if You agree to indemnify,
- defend, and hold each Contributor harmless for any liability
- incurred by, or claims asserted against, such Contributor by reason
- of your accepting any such warranty or additional liability.
-
- END OF TERMS AND CONDITIONS
-
- APPENDIX: How to apply the Apache License to your work.
-
- To apply the Apache License to your work, attach the following
- boilerplate notice, with the fields enclosed by brackets "[]"
- replaced with your own identifying information. (Don't include
- the brackets!) The text should be enclosed in the appropriate
- comment syntax for the file format. We also recommend that a
- file or class name and description of purpose be included on the
- same "printed page" as the copyright notice for easier
- identification within third-party archives.
-
- Copyright [yyyy] [name of copyright owner]
-
- Licensed 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.
diff --git a/ctakes-assertion-zoner/desc/ZonerDescriptor.xml b/ctakes-assertion-zoner/desc/ZonerDescriptor.xml
deleted file mode 100644
index e2ad52d..0000000
--- a/ctakes-assertion-zoner/desc/ZonerDescriptor.xml
+++ /dev/null
@@ -1,112 +0,0 @@
-<?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>
- <annotatorImplementationName>org.mitre.medfacts.uima.Zoner</annotatorImplementationName>
- <analysisEngineMetaData>
- <name>ZonerDescriptor</name>
- <description/>
- <version>1.0</version>
- <vendor>MITRE</vendor>
- <configurationParameters/>
- <configurationParameterSettings/>
- <typeSystemDescription>
- <types>
- <typeDescription>
- <name>org.mitre.medfacts.uima.Heading</name>
- <description>a section heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.mitre.medfacts.uima.Zone</name>
- <description>A document Zone, including its heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.mitre.medfacts.uima.Subzone</name>
- <description/>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- </types>
- </typeSystemDescription>
- <typePriorities/>
- <fsIndexCollection/>
- <capabilities>
- <capability>
- <inputs/>
- <outputs/>
- <languagesSupported/>
- </capability>
- </capabilities>
- <operationalProperties>
- <modifiesCas>true</modifiesCas>
- <multipleDeploymentAllowed>true</multipleDeploymentAllowed>
- <outputsNewCASes>false</outputsNewCASes>
- </operationalProperties>
- </analysisEngineMetaData>
- <externalResourceDependencies>
- <externalResourceDependency>
- <key>SectionRegex</key>
- <description/>
- <optional>false</optional>
- </externalResourceDependency>
- </externalResourceDependencies>
- <resourceManagerConfiguration>
- <externalResources>
- <externalResource>
- <name>SectionHeaderRegularExpressions</name>
- <description/>
- <fileResourceSpecifier>
- <fileUrl>file:org/mitre/medfacts/uima/section_regex.xml</fileUrl>
- </fileResourceSpecifier>
- </externalResource>
- </externalResources>
- <externalResourceBindings>
- <externalResourceBinding>
- <key>SectionRegex</key>
- <resourceName>SectionHeaderRegularExpressions</resourceName>
- </externalResourceBinding>
- </externalResourceBindings>
- </resourceManagerConfiguration>
-</analysisEngineDescription>
diff --git a/ctakes-assertion-zoner/desc/ZonerDescriptorStyleMap.xml b/ctakes-assertion-zoner/desc/ZonerDescriptorStyleMap.xml
deleted file mode 100644
index 4d2e31c..0000000
--- a/ctakes-assertion-zoner/desc/ZonerDescriptorStyleMap.xml
+++ /dev/null
@@ -1,23 +0,0 @@
-<?xml version="1.0" encoding="ISO-8859-1"?>
-<!--
-
- 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.
-
--->
-<styleMap>
-</styleMap>
diff --git a/ctakes-assertion-zoner/desc/analysis_engine/assertion_zoner__both_regular_and_mayo.xml b/ctakes-assertion-zoner/desc/analysis_engine/assertion_zoner__both_regular_and_mayo.xml
deleted file mode 100644
index 787e6b2..0000000
--- a/ctakes-assertion-zoner/desc/analysis_engine/assertion_zoner__both_regular_and_mayo.xml
+++ /dev/null
@@ -1,4881 +0,0 @@
-<?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>
- <delegateAnalysisEngine key="org.mitre.medfacts.uima.ZoneAnnotator.2">
- <analysisEngineDescription>
- <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
- <primitive>true</primitive>
- <annotatorImplementationName>org.mitre.medfacts.uima.ZoneAnnotator</annotatorImplementationName>
- <analysisEngineMetaData>
- <name>org.mitre.medfacts.uima.ZoneAnnotator</name>
- <description>Descriptor automatically generated by uimaFIT</description>
- <version>unknown</version>
- <vendor>org.mitre.medfacts.uima</vendor>
- <configurationParameters>
- <configurationParameter>
- <name>SectionRegex</name>
- <description>xml configuration file with zone regular expression values</description>
- <type>String</type>
- <multiValued>false</multiValued>
- <mandatory>true</mandatory>
- </configurationParameter>
- </configurationParameters>
- <configurationParameterSettings>
- <nameValuePair>
- <name>SectionRegex</name>
- <value>
- <string>org/mitre/medfacts/uima/mayo_sections.xml</string>
- </value>
- </nameValuePair>
- </configurationParameterSettings>
- <typeSystemDescription>
- <types>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Heading</name>
- <description>a section heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Subzone</name>
- <description/>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Zone</name>
- <description>A document Zone, including its heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.AnatomicalSite</name>
- <description>A body part or area, corresponding to the UMLS semantic group of Anatomy. An Entity based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Entity</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Attribute</name>
- <description>The semantic encapsulation of a modifer. E.g., for Clinical Elements, Attributes may be used to specify Body Side for a Procedure.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</name>
- <description>The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.). This is finer-grained to allow combinations of values.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.BodySide</name>
- <description>Value set: unmarked (default), left, right, bilateral</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Course</name>
- <description>An indication of progress or decline of a condition. Value set: unmarked (default), changed, increased, decreased, improved, worsened, resolved</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Date</name>
- <description>A normalized form for dates, namely with day, month, and year. A subtype of Element but may not use all inherited attributes.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>day</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>month</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>year</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.DiseaseDisorder</name>
- <description>This is an Event from the UMLS semantic group of Disorders (except that Sign and Symptom types are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>associatedSignSymptom</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManifestationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Course</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Element</name>
- <description>A basic semantic unit that refers to something in the real world, including Entities, Events, Attributes, Dates. Element inherits from uima.cas.TOP to combine textual mentions of these real-world objects.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ontologyConcept</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>mentions</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</elementType>
- </featureDescription>
- <featureDescription>
- <name>discoveryTechnique</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>confidence</name>
- <description/>
- <rangeTypeName>uima.cas.Double</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>conditional</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>generic</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>subject</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>uncertainty</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>historyOf</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Entity</name>
- <description>A real-world entity such as a body part. For example, multiple Procedures may have the same AnatomicalSite entity for their locations.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Event</name>
- <description>A real-world event; similar to Entity, but may bear some temporal properties and relationships. In the constrained clinical context, many concepts are discussed as instances with some temporal component, e.g., Medications, Labs.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>properties</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.EventProperties</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.EventProperties</name>
- <description>A set of mostly temporal properties that are unique to Events.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>contextualModality</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>contextualAspect</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>permanence</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>category</name>
- <description>Type of Event.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>aspect</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>docTimeRel</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>degree</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Lab</name>
- <description>This is an Event from the UMLS semantic group of Laboratory Procedures. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>abnormalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deltaFlag</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabDeltaFlag</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>labValue</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabValue</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ordinalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>referenceRangeNarrative</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabReferenceRange</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabDeltaFlag</name>
- <description>An indicator to warn that the laboratory test result has changed significantly from the previous identical laboratory test result.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabReferenceRange</name>
- <description>Holds a narrative (i.e. string) reference range</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabValue</name>
- <description>Quantitative results of a laboratory, with number and unit.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Medication</name>
- <description>This is an Event from the UMLS semantic group of Chemicals and Drugs, pruned by RxNORM source. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>medicationFrequency</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDuration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationRoute</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStatusChange</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDosage</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStrength</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationForm</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</name>
- <description>Dosage indicates how much of a prescribed drug should be taken. E.g. "one" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</name>
- <description>The amount of time after which a medication should stop being used, e.g., "2 weeks" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationForm</name>
- <description>Form of this medication. Value set includes tablet, capsule, liquid, inhalant, gel, other, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</name>
- <description>How often a medication should be used. e.g., BID or b.i.d. or "twice-a-day" would have a number=2 and unit=day.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description>The periodic unit used, e.g day, month, hour, etc.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</name>
- <description>Means by which the medication was taken or administered. Value set includes Topical, Enteral_Oral, Parenteral_Intravenous, Other, undetermined, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</name>
- <description>Status refers to the whether the medication is currently being taken or not. Value set: start, stop, increase, decrease, no change.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description>Indicates the change status of 'stop', 'start', 'increase', 'decrease', or 'noChange'.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</name>
- <description>Strength indicates the strength number and unit of the prescribed drug. E.g. "5 mg" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description>the unit of measurement</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</name>
- <description>Ontologies (e.g., SNOMED-CT) provide an expert semantic representation for concepts. They typically assign a code to a concept and normalize across various textual representations of that concept.
-IdentifiedAnnotation and Elements may point to these normalized concept representations to indicate clinical concepts.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.OntologyConcept</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>codingScheme</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>code</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>oid</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>oui</name>
- <description>holds the rxnorm unique identifier for a given drug mention.
- TODO: change this attribute because of name clash (UMLS/SNOMED)</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Procedure</name>
- <description>This is an Event from the UMLS semantic group of Procedures (except that Laboratory procedures are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>procedureDevice</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.ProcedureDevice</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>method</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.ProcedureMethod</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.ProcedureDevice</name>
- <description>Corresponds to the UMLS Devices semantic group: medical device and research device.
-Example: arterial line has a Medical Device semantic type. This is qualifying information on how a procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.ProcedureMethod</name>
- <description>The way or the equipment used to give or administration something (medication, test). This corresponds to the Procedures UMLS semantic group.
-More qualifying information on how the procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Severity</name>
- <description>An explicitly-mentioned indication of the seriousness of a condition. Value Set: unmarked (default), severe, moderate, slight</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.SignSymptom</name>
- <description>This is an Event from the UMLS semantic group of Sign or Symptom. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Course</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>severity</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Time</name>
- <description>A normalized form for Time annotations. Inherits from Element, but some fields may be unused.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>normalizedForm</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.UmlsConcept</name>
- <description>Concepts in the Unified Medical Language System (UMLS) Metathesaurus have a concept unique identifier (CUI) and a type unique identifier (TUI, i.e., semantic type) which are curated, normalized codes. For example, "pain" would have a cui=C0030193 and tui=T184.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.UmlsConcept</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</supertypeName>
- <features>
- <featureDescription>
- <name>cui</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>tui</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.Affects</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.AffectsTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.AspectualTextRelation</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.AttributeRelation</name>
- <description>A real-world relationship between an Element and an Attribute.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>arg1</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Element</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>arg2</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</name>
- <description>A super-type for relationships between two spans of text.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>arg1</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.RelationArgument</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>arg2</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.RelationArgument</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.CollectionTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>members</name>
- <description>A super-type for relationships between multiple spans of text.</description>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.relation.RelationArgument</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ComplicatesDisruptsTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.CoreferenceRelation</name>
- <description>A coreference pair, with antecedent as arg1 and anaphor as arg2</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.DegreeOf</name>
- <description>A UMLS relation between an attribute and an entity/event.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.AttributeRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ElementRelation</name>
- <description>A super-type referring to real-world semantic relationships, e.g., TemporalRelations between two Events.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>arg1</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Element</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>arg2</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Element</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.LocationOf</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ManagesTreatsTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ManifestationOf</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ManifestationOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.Relation</name>
- <description>A superclass for semantic relationships between Elements. For example, one might consider TemporalRelations or UMLSRelations between a Medication and a Disorder. The "category" feature indicates what kind of relation it is.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>category</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>discoveryTechnique</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>confidence</name>
- <description/>
- <rangeTypeName>uima.cas.Double</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>uncertainty</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.RelationArgument</name>
- <description>Relations are like lines connecting two or more endpoints. RelationArguments are used as endpoints that are text spans via the "argument" feature. The directed relations should specify a "role" feature.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>argument</name>
- <description/>
- <rangeTypeName>uima.tcas.Annotation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>role</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>participatesIn</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.relation.Relation</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ResultOf</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ResultOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.TemporalRelation</name>
- <description>Based on ISO TimeML's TLINK.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.UMLSRelation</name>
- <description>A biomedical relationship between two spans of text that have been mapped to UMLS concepts. Inherits "category" from Relation, with values such as affects, causes, complicates, contraindicates, degree_of, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.Demographics</name>
- <description>Demographic information about the patient in a clinical document. Typically comes from structured metadata.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>birthDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deathDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>gender</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>firstName</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>middleName</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lastName</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>firstNameSoundex</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lastNameSoundex</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.DocumentClassification</name>
- <description/>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.DocumentID</name>
- <description>Equivalent to cTAKES: org.apache.ctakes.typesystem.type.DocumentID, but its supertype changed to uima.cas.TOP</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>documentID</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.Metadata</name>
- <description>Structured data that captures information about the document, patient, or context of the clinical text.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>patientID</name>
- <description/>
- <rangeTypeName>uima.cas.Long</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>providerID</name>
- <description/>
- <rangeTypeName>uima.cas.LongArray</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceData</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.structured.SourceData</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>demographics</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.structured.Demographics</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.SourceData</name>
- <description>Information about the caregiving setting for the clinical document. Typically comes from structured metadata.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>noteTypeCode</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>noteSubTypeCode</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>authorSpecialty</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>documentStandard</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceInstanceId</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceRevisionNbr</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceRevisionDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceOriginalDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceInstitution</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceEncounterId</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceApplication</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ADJP</name>
- <description>An adjective phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.ADJP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ADVP</name>
- <description>An adverb phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.ADVP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.BaseToken</name>
- <description>A supertype for tokens subsuming word, punctuation, symbol, newline, contraction, or number. Includes parts of speech, which are grammatical categories, e.g., noun (NN) or preposition (IN) that use Penn Treebank tags with a few additions.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.BaseToken</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>tokenNumber</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>normalizedForm</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>partOfSpeech</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lemmaEntries</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.syntax.Lemma</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.CONJP</name>
- <description>A phrase-level conjunction
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.CONJP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.Chunk</name>
- <description>Chunks are syntactic groupings of tokens, and are the results of a shallow parser (chunker). Possible chunkTypes follow Penn Treebank guidelines, e.g., noun phrase (NP) or prepositional phrase (PP)
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.Chunk</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>chunkType</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ConllDependencyNode</name>
- <description>A dependency parser node in the CONLL-X format, namely, where each node is a token with 10 fields.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description>The token's position in the sentence. The ROOT node, present in every dependency parse, has id=0.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>form</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lemma</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cpostag</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>postag</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>feats</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>head</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.syntax.ConllDependencyNode</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deprel</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>phead</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.syntax.ConllDependencyNode</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>pdeprel</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ContractionToken</name>
- <description>Differentiates a token as being a contraction rather than a punctuation, symbol, newline, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.ContractionToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.INTJ</name>
- <description>An interjection
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.INTJ</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.LST</name>
- <description>A list item, usually intra-sentential
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.LST</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.Lemma</name>
- <description>Stores a lemma (canonical form of a token). Inherits from uima.cas.TOP, allowing for reuse of standardized forms across the CAS.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Lemma</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>key</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>posTag</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.NP</name>
- <description>A noun phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.NP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.NewlineToken</name>
- <description>Differentiates a token as being a newline rather than a punctuation, symbol, contraction, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.NewlineToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.NumToken</name>
- <description>Differentiates a token as being a number rather than a punctuation, symbol, newline, word, or contraction.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.NumToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- <features>
- <featureDescription>
- <name>numType</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.O</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.PP</name>
- <description>A prepositional phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.PP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.PRT</name>
- <description>A particle, e.g., "out" in "rule out"
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.PRT</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.PunctuationToken</name>
- <description>Differentiates a token as being punctuation rather than a contraction, symbol, newline, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.PunctuationToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.SBAR</name>
- <description>A subordinate clause
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.SBAR</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.StanfordDependency</name>
- <description>Stanford dependencies provide a representation of grammatical relations between words in a sentence. Stanford dependencies are triplets: name of the relation, governor and dependent.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.SymbolToken</name>
- <description>Differentiates a token as being a symbol rather than a punctuation, contraction, newline, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.SymbolToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.TerminalTreebankNode</name>
- <description>A Penn Treebank Node; as a terminal, there is an associated word, and the index of the word is a feature.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.TreebankNode</supertypeName>
- <features>
- <featureDescription>
- <name>index</name>
- <description>The index of this node in the top node's list of terminals.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>tokenIndex</name>
- <description>The tokenIndex of a terminal is n, where the terminal is the nth token in a sentence. The value -1 means that this terminal does not correspond to a token (because it is a trace.) We assume that each token corresponds to a terminal.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.TopTreebankNode</name>
- <description>A Penn Treebank Node; as the top node, this stores the whole subsumed sentence's parse tree as a string. It also stores all the terminals, allowing for traversal of the tree bottom-up (top-down is implied through the TreebankNode's 'children' attribute).</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.TreebankNode</supertypeName>
- <features>
- <featureDescription>
- <name>treebankParse</name>
- <description>A bracketed sentence string representing the parse tree.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>terminals</name>
- <description>Stores the terminal nodes of the parse tree. This allows for bottom-up traversal of a tree.</description>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.syntax.TerminalTreebankNode</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.TreebankNode</name>
- <description>A Penn Treebank-style tree node. Conforms to PTB 2.0 guidelines.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>nodeType</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>nodeValue</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>leaf</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>parent</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.syntax.TreebankNode</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>children</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.syntax.TreebankNode</elementType>
- </featureDescription>
- <featureDescription>
- <name>nodeTags</name>
- <description/>
- <rangeTypeName>uima.cas.StringArray</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>headIndex</name>
- <description>The head index tracks the index into the word tokens which is the syntactic head of a phrase.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.UCP</name>
- <description>An unlike coordinating phrase, e.g., a NP and a PP conjoined via "and"
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.UCP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.VP</name>
- <description>A verb phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.VP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.WordToken</name>
- <description>Differentiates a token as being a word rather than a punctuation, symbol, newline, contraction, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.WordToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- <features>
- <featureDescription>
- <name>capitalization</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>numPosition</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>suggestion</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>canonicalForm</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.temporary.assertion.AssertionCuePhraseAnnotation</name>
- <description>A cue phrase indicating potential negation, uncertainty, or conditional</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhraseCategory</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhraseAssertionFamily</name>
- <description>which assertion family this cue phrase belongs to (negation, uncertainty, or conditional)</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhraseFirstWord</name>
- <description>first word of cue phrase</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhrase</name>
- <description>cue phrase itself (from lookup list)</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.AnatomicalSiteMention</name>
- <description>A text string that refers to a (AnatomicalSite) Entity. A body part or area, corresponding to the UMLS semantic group of Anatomy. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EntityMention</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</name>
- <description>The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.). This is finer-grained to allow combinations of values.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</name>
- <description>Value set: unmarked (default), left, right, bilateral</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ConditionalModifier</name>
- <description>The Conditional modifier refers to mentions which could exist under certain circumstances. If indicated, there are conditions under which an associated Named Entity mention might not be truly asserted.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ContextAnnotation</name>
- <description>Contextual information of an entity. Equivalent to cTAKES: edu.mayo.bmi.uima.context.type.ContextAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>FocusText</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>Scope</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.CourseModifier</name>
- <description>An indication of progress or decline of a condition. Value set: unmarked (default), changed, increased, decreased, improved, worsened, resolved</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.DateAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.DateAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.DiseaseDisorderMention</name>
- <description>A text string that refers to a (DiseaseDisorder) Event. This is from the UMLS semantic group of Disorders (except that Sign and Symptom types are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManagesTreatsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>associatedSignSymptom</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManifestationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ComplicatesDisruptsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>severity</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.EntityMention</name>
- <description>A text string (IdentifiedAnnotation) that refers to an Entity.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>entity</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Entity</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.EventMention</name>
- <description>A text string (IdentifiedAnnotation) that refers to an Event.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>event</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Event</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.FractionAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.FractionAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.GenericModifier</name>
- <description>The Generic modifier indicates that a named entity mention is generic, i.e., not related to the instance of a disorder, sign/symptom, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.HistoryOfModifier</name>
- <description>An indication of explicit mentioning of a past history. The indicator captures only very explicit mentions of historicity.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</name>
- <description>Any span of text that has been discovered or flagged for some reason, such as a Named Entity. Allows for mapping to an ontology. Generalized from cTAKES: org.apache.ctakes.typesystem.type.IdentifiedAnnotation.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ontologyConceptArr</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</elementType>
- </featureDescription>
- <featureDescription>
- <name>typeID</name>
- <description>The type of named entity (e.g. drug, disorder, ...)</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>segmentID</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sentenceID</name>
- <description>contains the sentence id of the sentence that contains the NE's text span</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>discoveryTechnique</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>confidence</name>
- <description>The confidence of the annotation.</description>
- <rangeTypeName>uima.cas.Float</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>uncertainty</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>conditional</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>generic</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>subject</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>historyOf</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>preferredText</name>
- <description>preferredText is the preferred name. normally his is the UMLS preferred name.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabDeltaFlagModifier</name>
- <description>An indicator to warn that the laboratory test result has changed significantly from the previous identical laboratory test result.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabEstimatedModifier</name>
- <description>Signals that the lab value was estimated, e.g., "GFR (estimated): 81". True means that there is an indicator signalling that there was an estimation of the value.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabInterpretationModifier</name>
- <description>Test result interpretations organized in a valued list e.g., "rare cells seen" or "few cells seen" in urinalysis, now combined with very_abnormal and abnormal.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabMention</name>
- <description>A text string that refers to a (Lab) Event. This is from the UMLS semantic group of Laboratory Procedures. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>abnormalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deltaFlag</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.LabDeltaFlagModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>labValue</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ResultOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ordinalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>referenceRangeNarrative</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.LabReferenceRangeModifier</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabReferenceRangeModifier</name>
- <description>Holds a narrative (i.e. string) reference range</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabValueModifier</name>
- <description>Quantitative results of a laboratory, with number and unit.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MeasurementAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.MeasurementAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationAllergyModifier</name>
- <description>Indication of whether the medication is mentioned in the context of Allergies.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationDosageModifier</name>
- <description>Dosage indicates how much of a prescribed drug should be taken. E.g. "one" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationDurationModifier</name>
- <description>The amount of time after which a medication should stop being used, e.g., "2 weeks" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationEventMention</name>
- <description>As of cTAKEs 3.1, see org.apache.ctakes.typesystem.type.textsem.MedicationMention.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>medicationFrequency</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDuration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationRoute</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStatusChange</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDosage</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStrength</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationForm</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationFormModifier</name>
- <description>Form of this medication. Value set includes tablet, capsule, liquid, inhalant, gel, other, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationFrequencyModifier</name>
- <description>How often a medication should be used. e.g., BID or b.i.d. or "twice-a-day" would have a number=2 and unit=day.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationMention</name>
- <description>A text string that refers to a (Medication) Event. This is an Event from the UMLS semantic group of Chemicals and Drugs, pruned by RxNORM source. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>medicationAllergy</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationAllergyModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationFrequency</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationFrequencyModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDuration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationDurationModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationRoute</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationRouteModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStatusChange</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationStatusChangeModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDosage</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationDosageModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStrength</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationStrengthModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationFormModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationRouteModifier</name>
- <description>Means by which the medication was taken or administered. Value set includes Topical, Enteral_Oral, Parenteral_Intravenous, Other, undetermined, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationStatusChangeModifier</name>
- <description>Status refers to the whether the medication is currently being taken or not. Value set: start, stop, increase, decrease, no change.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationStrengthModifier</name>
- <description>Strength indicates the strength number and unit of the prescribed drug. E.g. "5 mg" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.Modifier</name>
- <description>A text string (IdentifiedAnnotation) that refers to an Attribute.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>normalizedForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>category</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.PersonTitleAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.PersonTitleAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.PolarityModifier</name>
- <description>Used to indicate that a procedure or assertion did not occur or does not exist. If indicated, negation is present and polarity should be -1. If not indicated, negation is not present and polarity should be +1 by default.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.Predicate</name>
- <description>Predicates are typically verbs and may participate in SemanticRoleRelations. Follows PropBank standards with a few clinical additions.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>relations</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation</elementType>
- </featureDescription>
- <featureDescription>
- <name>frameSet</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier</name>
- <description>Corresponds to the UMLS Devices semantic group: medical device and research device.
-Example: arterial line has a Medical Device semantic type. This is qualifying information on how a procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ProcedureMention</name>
- <description>A text string that refers to a (Procedure) Event. This is from the UMLS semantic group of Procedures (except that Laboratory procedures are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>procedureDevice</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>method</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier</name>
- <description>The way or the equipment used to give or administration something (medication, test). This corresponds to the Procedures UMLS semantic group.
-More qualifying information on how the procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.RangeAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.RangeAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.RomanNumeralAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.RomanNumeralAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SemanticArgument</name>
- <description>SemanticArguments are used for predicate-argument structures (SemanticRoleRelations). The "label" features should contain the type of semantic role (e.g., ARG0, ARGM) that this argument has w.r.t. the predicate.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>relation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation</name>
- <description>Predicate-argument structure used for semantic role labeling output.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>predicate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.Predicate</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>argument</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.SemanticArgument</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SeverityModifier</name>
- <description>An explicitly-mentioned indication of the seriousness of a condition. Value Set: unmarked (default), severe, moderate, slight</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SignSymptomMention</name>
- <description>A text string that refers to a (SignSymptom) Event. This is from the UMLS semantic group of Sign or Symptom. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManagesTreatsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ComplicatesDisruptsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>severity</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SubjectModifier</name>
- <description>The person the observation is on, i.e., a Person mention. This modifier refers to the entity experiencing the disorder.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.TimeAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.TimeAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.TimeMention</name>
- <description>A text string (IdentifiedAnnotation) that refers to a Time (i.e., TIMEX3).</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>date</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>time</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>timeClass</name>
- <description>DATE, DURATION, QUANTIFIER, PREPOSTEXP, etc.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.UncertaintyModifier</name>
- <description>An introduction of a measure of doubt into a statement. If indicated, there is uncertainty.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.List</name>
- <description>A semi-structured text span, containing other Annotations (typically Sentences, other Lists, etc).</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>items</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>uima.tcas.Annotation</elementType>
- <multipleReferencesAllowed>true</multipleReferencesAllowed>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.LookupWindowAnnotation</name>
- <description>Defines a window within which dictionary terms may match. An auxiliary spanned type.
-Equivalent to cTAKES: edu.mayo.bmi.uima.lookup.type.LookupWindowAnnotation</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.Paragraph</name>
- <description>A text span corresponding to a paragraph, typically containing multiple sentences.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.Segment</name>
- <description>A section of a clinical text, e.g., Diagnosis, Current Medications, Problem List. Different segments often have differing sublanguages and clinical relevance.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Segment</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>preferredText</name>
- <description>preferredText is the normalized/resolved section name. Normally, this is populated by the Sectionizer and would contain the HL7/CCDA section name.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.Sentence</name>
- <description>Sentences may or may not be fully-formed and grammatical. They form the unit of analysis for some downstream components (e.g., constituency parsers).
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Sentence</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>sentenceNumber</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>segmentId</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.util.Pair</name>
- <description>An Attribute-Value tuple.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Property</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>attribute</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.util.Pairs</name>
- <description>A brute force "hash" that stores multiple Pairs in a list.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Properties</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>pairs</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.util.Pair</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.util.ProbabilityDistribution</name>
- <description>A brute force probability distribution for discrete variables.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.util.Pairs</supertypeName>
- </typeDescription>
- </types>
- </typeSystemDescription>
- <fsIndexCollection/>
- <capabilities>
- <capability>
- <inputs/>
- <outputs>
- <type>org.apache.ctakes.assertion.zoner.types.Zone</type>
- <feature>org.apache.ctakes.assertion.zoner.types.Zone:label</feature>
- <type>org.apache.ctakes.assertion.zoner.types.Subzone</type>
- <feature>org.apache.ctakes.assertion.zoner.types.Subzone:label</feature>
- <type>org.apache.ctakes.assertion.zoner.types.Heading</type>
- <feature>org.apache.ctakes.assertion.zoner.types.Heading:label</feature>
- </outputs>
- <languagesSupported/>
- </capability>
- </capabilities>
- <operationalProperties>
- <modifiesCas>true</modifiesCas>
- <multipleDeploymentAllowed>true</multipleDeploymentAllowed>
- <outputsNewCASes>false</outputsNewCASes>
- </operationalProperties>
- </analysisEngineMetaData>
- </analysisEngineDescription>
- </delegateAnalysisEngine>
- <delegateAnalysisEngine key="org.mitre.medfacts.uima.ZoneAnnotator">
- <analysisEngineDescription>
- <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
- <primitive>true</primitive>
- <annotatorImplementationName>org.mitre.medfacts.uima.ZoneAnnotator</annotatorImplementationName>
- <analysisEngineMetaData>
- <name>org.mitre.medfacts.uima.ZoneAnnotator</name>
- <description>Descriptor automatically generated by uimaFIT</description>
- <version>unknown</version>
- <vendor>org.mitre.medfacts.uima</vendor>
- <configurationParameters>
- <configurationParameter>
- <name>SectionRegex</name>
- <description>xml configuration file with zone regular expression values</description>
- <type>String</type>
- <multiValued>false</multiValued>
- <mandatory>true</mandatory>
- </configurationParameter>
- </configurationParameters>
- <configurationParameterSettings>
- <nameValuePair>
- <name>SectionRegex</name>
- <value>
- <string>org/mitre/medfacts/zoner/section_regex.xml</string>
- </value>
- </nameValuePair>
- </configurationParameterSettings>
- <typeSystemDescription>
- <types>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Heading</name>
- <description>a section heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Subzone</name>
- <description/>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Zone</name>
- <description>A document Zone, including its heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.AnatomicalSite</name>
- <description>A body part or area, corresponding to the UMLS semantic group of Anatomy. An Entity based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Entity</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Attribute</name>
- <description>The semantic encapsulation of a modifer. E.g., for Clinical Elements, Attributes may be used to specify Body Side for a Procedure.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</name>
- <description>The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.). This is finer-grained to allow combinations of values.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.BodySide</name>
- <description>Value set: unmarked (default), left, right, bilateral</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Course</name>
- <description>An indication of progress or decline of a condition. Value set: unmarked (default), changed, increased, decreased, improved, worsened, resolved</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Date</name>
- <description>A normalized form for dates, namely with day, month, and year. A subtype of Element but may not use all inherited attributes.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>day</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>month</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>year</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.DiseaseDisorder</name>
- <description>This is an Event from the UMLS semantic group of Disorders (except that Sign and Symptom types are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>associatedSignSymptom</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManifestationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Course</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Element</name>
- <description>A basic semantic unit that refers to something in the real world, including Entities, Events, Attributes, Dates. Element inherits from uima.cas.TOP to combine textual mentions of these real-world objects.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ontologyConcept</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>mentions</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</elementType>
- </featureDescription>
- <featureDescription>
- <name>discoveryTechnique</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>confidence</name>
- <description/>
- <rangeTypeName>uima.cas.Double</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>conditional</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>generic</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>subject</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>uncertainty</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>historyOf</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Entity</name>
- <description>A real-world entity such as a body part. For example, multiple Procedures may have the same AnatomicalSite entity for their locations.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Event</name>
- <description>A real-world event; similar to Entity, but may bear some temporal properties and relationships. In the constrained clinical context, many concepts are discussed as instances with some temporal component, e.g., Medications, Labs.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>properties</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.EventProperties</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.EventProperties</name>
- <description>A set of mostly temporal properties that are unique to Events.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>contextualModality</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>contextualAspect</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>permanence</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>category</name>
- <description>Type of Event.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>aspect</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>docTimeRel</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>degree</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Lab</name>
- <description>This is an Event from the UMLS semantic group of Laboratory Procedures. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>abnormalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deltaFlag</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabDeltaFlag</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>labValue</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabValue</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ordinalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>referenceRangeNarrative</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabReferenceRange</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabDeltaFlag</name>
- <description>An indicator to warn that the laboratory test result has changed significantly from the previous identical laboratory test result.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabReferenceRange</name>
- <description>Holds a narrative (i.e. string) reference range</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabValue</name>
- <description>Quantitative results of a laboratory, with number and unit.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Medication</name>
- <description>This is an Event from the UMLS semantic group of Chemicals and Drugs, pruned by RxNORM source. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>medicationFrequency</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDuration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationRoute</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStatusChange</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDosage</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStrength</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationForm</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</name>
- <description>Dosage indicates how much of a prescribed drug should be taken. E.g. "one" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</name>
- <description>The amount of time after which a medication should stop being used, e.g., "2 weeks" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationForm</name>
- <description>Form of this medication. Value set includes tablet, capsule, liquid, inhalant, gel, other, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</name>
- <description>How often a medication should be used. e.g., BID or b.i.d. or "twice-a-day" would have a number=2 and unit=day.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description>The periodic unit used, e.g day, month, hour, etc.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</name>
- <description>Means by which the medication was taken or administered. Value set includes Topical, Enteral_Oral, Parenteral_Intravenous, Other, undetermined, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</name>
- <description>Status refers to the whether the medication is currently being taken or not. Value set: start, stop, increase, decrease, no change.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description>Indicates the change status of 'stop', 'start', 'increase', 'decrease', or 'noChange'.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</name>
- <description>Strength indicates the strength number and unit of the prescribed drug. E.g. "5 mg" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description>the unit of measurement</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</name>
- <description>Ontologies (e.g., SNOMED-CT) provide an expert semantic representation for concepts. They typically assign a code to a concept and normalize across various textual representations of that concept.
-IdentifiedAnnotation and Elements may point to these normalized concept representations to indicate clinical concepts.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.OntologyConcept</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>codingScheme</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>code</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>oid</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>oui</name>
- <description>holds the rxnorm unique identifier for a given drug mention.
- TODO: change this attribute because of name clash (UMLS/SNOMED)</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Procedure</name>
- <description>This is an Event from the UMLS semantic group of Procedures (except that Laboratory procedures are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>procedureDevice</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.ProcedureDevice</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>method</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.ProcedureMethod</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.ProcedureDevice</name>
- <description>Corresponds to the UMLS Devices semantic group: medical device and research device.
-Example: arterial line has a Medical Device semantic type. This is qualifying information on how a procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.ProcedureMethod</name>
- <description>The way or the equipment used to give or administration something (medication, test). This corresponds to the Procedures UMLS semantic group.
-More qualifying information on how the procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Severity</name>
- <description>An explicitly-mentioned indication of the seriousness of a condition. Value Set: unmarked (default), severe, moderate, slight</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.SignSymptom</name>
- <description>This is an Event from the UMLS semantic group of Sign or Symptom. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Course</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>severity</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Time</name>
- <description>A normalized form for Time annotations. Inherits from Element, but some fields may be unused.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>normalizedForm</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.UmlsConcept</name>
- <description>Concepts in the Unified Medical Language System (UMLS) Metathesaurus have a concept unique identifier (CUI) and a type unique identifier (TUI, i.e., semantic type) which are curated, normalized codes. For example, "pain" would have a cui=C0030193 and tui=T184.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.UmlsConcept</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</supertypeName>
- <features>
- <featureDescription>
- <name>cui</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>tui</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.Affects</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.AffectsTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.AspectualTextRelation</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.AttributeRelation</name>
- <description>A real-world relationship between an Element and an Attribute.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>arg1</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Element</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>arg2</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</name>
- <description>A super-type for relationships between two spans of text.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>arg1</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.RelationArgument</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>arg2</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.RelationArgument</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.CollectionTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>members</name>
- <description>A super-type for relationships between multiple spans of text.</description>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.relation.RelationArgument</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ComplicatesDisruptsTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.CoreferenceRelation</name>
- <description>A coreference pair, with antecedent as arg1 and anaphor as arg2</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.DegreeOf</name>
- <description>A UMLS relation between an attribute and an entity/event.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.AttributeRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ElementRelation</name>
- <description>A super-type referring to real-world semantic relationships, e.g., TemporalRelations between two Events.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>arg1</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Element</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>arg2</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Element</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.LocationOf</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ManagesTreatsTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ManifestationOf</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ManifestationOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.Relation</name>
- <description>A superclass for semantic relationships between Elements. For example, one might consider TemporalRelations or UMLSRelations between a Medication and a Disorder. The "category" feature indicates what kind of relation it is.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>category</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>discoveryTechnique</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>confidence</name>
- <description/>
- <rangeTypeName>uima.cas.Double</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>uncertainty</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.RelationArgument</name>
- <description>Relations are like lines connecting two or more endpoints. RelationArguments are used as endpoints that are text spans via the "argument" feature. The directed relations should specify a "role" feature.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>argument</name>
- <description/>
- <rangeTypeName>uima.tcas.Annotation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>role</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>participatesIn</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.relation.Relation</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ResultOf</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.ResultOfTextRelation</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.TemporalRelation</name>
- <description>Based on ISO TimeML's TLINK.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</name>
- <description>A UMLS relation between clinical elements.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.relation.UMLSRelation</name>
- <description>A biomedical relationship between two spans of text that have been mapped to UMLS concepts. Inherits "category" from Relation, with values such as affects, causes, complicates, contraindicates, degree_of, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.Demographics</name>
- <description>Demographic information about the patient in a clinical document. Typically comes from structured metadata.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>birthDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deathDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>gender</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>firstName</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>middleName</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lastName</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>firstNameSoundex</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lastNameSoundex</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.DocumentClassification</name>
- <description/>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.DocumentID</name>
- <description>Equivalent to cTAKES: org.apache.ctakes.typesystem.type.DocumentID, but its supertype changed to uima.cas.TOP</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>documentID</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.Metadata</name>
- <description>Structured data that captures information about the document, patient, or context of the clinical text.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>patientID</name>
- <description/>
- <rangeTypeName>uima.cas.Long</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>providerID</name>
- <description/>
- <rangeTypeName>uima.cas.LongArray</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceData</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.structured.SourceData</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>demographics</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.structured.Demographics</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.structured.SourceData</name>
- <description>Information about the caregiving setting for the clinical document. Typically comes from structured metadata.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>noteTypeCode</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>noteSubTypeCode</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>authorSpecialty</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>documentStandard</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceInstanceId</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceRevisionNbr</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceRevisionDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceOriginalDate</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceInstitution</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceEncounterId</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sourceApplication</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ADJP</name>
- <description>An adjective phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.ADJP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ADVP</name>
- <description>An adverb phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.ADVP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.BaseToken</name>
- <description>A supertype for tokens subsuming word, punctuation, symbol, newline, contraction, or number. Includes parts of speech, which are grammatical categories, e.g., noun (NN) or preposition (IN) that use Penn Treebank tags with a few additions.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.BaseToken</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>tokenNumber</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>normalizedForm</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>partOfSpeech</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lemmaEntries</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.syntax.Lemma</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.CONJP</name>
- <description>A phrase-level conjunction
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.CONJP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.Chunk</name>
- <description>Chunks are syntactic groupings of tokens, and are the results of a shallow parser (chunker). Possible chunkTypes follow Penn Treebank guidelines, e.g., noun phrase (NP) or prepositional phrase (PP)
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.Chunk</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>chunkType</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ConllDependencyNode</name>
- <description>A dependency parser node in the CONLL-X format, namely, where each node is a token with 10 fields.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description>The token's position in the sentence. The ROOT node, present in every dependency parse, has id=0.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>form</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>lemma</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cpostag</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>postag</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>feats</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>head</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.syntax.ConllDependencyNode</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deprel</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>phead</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.syntax.ConllDependencyNode</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>pdeprel</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.ContractionToken</name>
- <description>Differentiates a token as being a contraction rather than a punctuation, symbol, newline, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.ContractionToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.INTJ</name>
- <description>An interjection
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.INTJ</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.LST</name>
- <description>A list item, usually intra-sentential
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.LST</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.Lemma</name>
- <description>Stores a lemma (canonical form of a token). Inherits from uima.cas.TOP, allowing for reuse of standardized forms across the CAS.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Lemma</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>key</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>posTag</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.NP</name>
- <description>A noun phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.NP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.NewlineToken</name>
- <description>Differentiates a token as being a newline rather than a punctuation, symbol, contraction, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.NewlineToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.NumToken</name>
- <description>Differentiates a token as being a number rather than a punctuation, symbol, newline, word, or contraction.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.NumToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- <features>
- <featureDescription>
- <name>numType</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.O</name>
- <description/>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.PP</name>
- <description>A prepositional phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.PP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.PRT</name>
- <description>A particle, e.g., "out" in "rule out"
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.PRT</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.PunctuationToken</name>
- <description>Differentiates a token as being punctuation rather than a contraction, symbol, newline, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.PunctuationToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.SBAR</name>
- <description>A subordinate clause
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.SBAR</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.StanfordDependency</name>
- <description>Stanford dependencies provide a representation of grammatical relations between words in a sentence. Stanford dependencies are triplets: name of the relation, governor and dependent.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.BinaryTextRelation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.SymbolToken</name>
- <description>Differentiates a token as being a symbol rather than a punctuation, contraction, newline, word, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.SymbolToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.TerminalTreebankNode</name>
- <description>A Penn Treebank Node; as a terminal, there is an associated word, and the index of the word is a feature.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.TreebankNode</supertypeName>
- <features>
- <featureDescription>
- <name>index</name>
- <description>The index of this node in the top node's list of terminals.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>tokenIndex</name>
- <description>The tokenIndex of a terminal is n, where the terminal is the nth token in a sentence. The value -1 means that this terminal does not correspond to a token (because it is a trace.) We assume that each token corresponds to a terminal.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.TopTreebankNode</name>
- <description>A Penn Treebank Node; as the top node, this stores the whole subsumed sentence's parse tree as a string. It also stores all the terminals, allowing for traversal of the tree bottom-up (top-down is implied through the TreebankNode's 'children' attribute).</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.TreebankNode</supertypeName>
- <features>
- <featureDescription>
- <name>treebankParse</name>
- <description>A bracketed sentence string representing the parse tree.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>terminals</name>
- <description>Stores the terminal nodes of the parse tree. This allows for bottom-up traversal of a tree.</description>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.syntax.TerminalTreebankNode</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.TreebankNode</name>
- <description>A Penn Treebank-style tree node. Conforms to PTB 2.0 guidelines.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>nodeType</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>nodeValue</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>leaf</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>parent</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.syntax.TreebankNode</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>children</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.syntax.TreebankNode</elementType>
- </featureDescription>
- <featureDescription>
- <name>nodeTags</name>
- <description/>
- <rangeTypeName>uima.cas.StringArray</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>headIndex</name>
- <description>The head index tracks the index into the word tokens which is the syntactic head of a phrase.</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.UCP</name>
- <description>An unlike coordinating phrase, e.g., a NP and a PP conjoined via "and"
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.UCP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.VP</name>
- <description>A verb phrase
-Equivalent to cTAKES: edu.mayo.bmi.uima.chunker.type.VP</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.Chunk</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.syntax.WordToken</name>
- <description>Differentiates a token as being a word rather than a punctuation, symbol, newline, contraction, or number.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.WordToken</description>
- <supertypeName>org.apache.ctakes.typesystem.type.syntax.BaseToken</supertypeName>
- <features>
- <featureDescription>
- <name>capitalization</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>numPosition</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>suggestion</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>canonicalForm</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.temporary.assertion.AssertionCuePhraseAnnotation</name>
- <description>A cue phrase indicating potential negation, uncertainty, or conditional</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhraseCategory</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhraseAssertionFamily</name>
- <description>which assertion family this cue phrase belongs to (negation, uncertainty, or conditional)</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhraseFirstWord</name>
- <description>first word of cue phrase</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>cuePhrase</name>
- <description>cue phrase itself (from lookup list)</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.AnatomicalSiteMention</name>
- <description>A text string that refers to a (AnatomicalSite) Entity. A body part or area, corresponding to the UMLS semantic group of Anatomy. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EntityMention</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</name>
- <description>The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.). This is finer-grained to allow combinations of values.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</name>
- <description>Value set: unmarked (default), left, right, bilateral</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ConditionalModifier</name>
- <description>The Conditional modifier refers to mentions which could exist under certain circumstances. If indicated, there are conditions under which an associated Named Entity mention might not be truly asserted.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ContextAnnotation</name>
- <description>Contextual information of an entity. Equivalent to cTAKES: edu.mayo.bmi.uima.context.type.ContextAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>FocusText</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>Scope</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.CourseModifier</name>
- <description>An indication of progress or decline of a condition. Value set: unmarked (default), changed, increased, decreased, improved, worsened, resolved</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.DateAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.DateAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.DiseaseDisorderMention</name>
- <description>A text string that refers to a (DiseaseDisorder) Event. This is from the UMLS semantic group of Disorders (except that Sign and Symptom types are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManagesTreatsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>associatedSignSymptom</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManifestationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ComplicatesDisruptsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>severity</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.EntityMention</name>
- <description>A text string (IdentifiedAnnotation) that refers to an Entity.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>entity</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Entity</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.EventMention</name>
- <description>A text string (IdentifiedAnnotation) that refers to an Event.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>event</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Event</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.FractionAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.FractionAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.GenericModifier</name>
- <description>The Generic modifier indicates that a named entity mention is generic, i.e., not related to the instance of a disorder, sign/symptom, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.HistoryOfModifier</name>
- <description>An indication of explicit mentioning of a past history. The indicator captures only very explicit mentions of historicity.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</name>
- <description>Any span of text that has been discovered or flagged for some reason, such as a Named Entity. Allows for mapping to an ontology. Generalized from cTAKES: org.apache.ctakes.typesystem.type.IdentifiedAnnotation.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ontologyConceptArr</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</elementType>
- </featureDescription>
- <featureDescription>
- <name>typeID</name>
- <description>The type of named entity (e.g. drug, disorder, ...)</description>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>segmentID</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>sentenceID</name>
- <description>contains the sentence id of the sentence that contains the NE's text span</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>discoveryTechnique</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>confidence</name>
- <description>The confidence of the annotation.</description>
- <rangeTypeName>uima.cas.Float</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>uncertainty</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>conditional</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>generic</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>subject</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>historyOf</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>preferredText</name>
- <description>preferredText is the preferred name. normally his is the UMLS preferred name.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabDeltaFlagModifier</name>
- <description>An indicator to warn that the laboratory test result has changed significantly from the previous identical laboratory test result.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabEstimatedModifier</name>
- <description>Signals that the lab value was estimated, e.g., "GFR (estimated): 81". True means that there is an indicator signalling that there was an estimation of the value.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabInterpretationModifier</name>
- <description>Test result interpretations organized in a valued list e.g., "rare cells seen" or "few cells seen" in urinalysis, now combined with very_abnormal and abnormal.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabMention</name>
- <description>A text string that refers to a (Lab) Event. This is from the UMLS semantic group of Laboratory Procedures. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>abnormalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deltaFlag</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.LabDeltaFlagModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>labValue</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ResultOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ordinalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>referenceRangeNarrative</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.LabReferenceRangeModifier</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabReferenceRangeModifier</name>
- <description>Holds a narrative (i.e. string) reference range</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.LabValueModifier</name>
- <description>Quantitative results of a laboratory, with number and unit.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MeasurementAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.MeasurementAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationAllergyModifier</name>
- <description>Indication of whether the medication is mentioned in the context of Allergies.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationDosageModifier</name>
- <description>Dosage indicates how much of a prescribed drug should be taken. E.g. "one" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationDurationModifier</name>
- <description>The amount of time after which a medication should stop being used, e.g., "2 weeks" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationEventMention</name>
- <description>As of cTAKEs 3.1, see org.apache.ctakes.typesystem.type.textsem.MedicationMention.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>medicationFrequency</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDuration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationRoute</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStatusChange</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDosage</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStrength</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationForm</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationFormModifier</name>
- <description>Form of this medication. Value set includes tablet, capsule, liquid, inhalant, gel, other, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationFrequencyModifier</name>
- <description>How often a medication should be used. e.g., BID or b.i.d. or "twice-a-day" would have a number=2 and unit=day.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationMention</name>
- <description>A text string that refers to a (Medication) Event. This is an Event from the UMLS semantic group of Chemicals and Drugs, pruned by RxNORM source. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>medicationAllergy</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationAllergyModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationFrequency</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationFrequencyModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDuration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationDurationModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationRoute</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationRouteModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStatusChange</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationStatusChangeModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDosage</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationDosageModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStrength</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationStrengthModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationFormModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationRouteModifier</name>
- <description>Means by which the medication was taken or administered. Value set includes Topical, Enteral_Oral, Parenteral_Intravenous, Other, undetermined, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationStatusChangeModifier</name>
- <description>Status refers to the whether the medication is currently being taken or not. Value set: start, stop, increase, decrease, no change.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.MedicationStrengthModifier</name>
- <description>Strength indicates the strength number and unit of the prescribed drug. E.g. "5 mg" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.Modifier</name>
- <description>A text string (IdentifiedAnnotation) that refers to an Attribute.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>normalizedForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>category</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.PersonTitleAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.PersonTitleAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.PolarityModifier</name>
- <description>Used to indicate that a procedure or assertion did not occur or does not exist. If indicated, negation is present and polarity should be -1. If not indicated, negation is not present and polarity should be +1 by default.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.Predicate</name>
- <description>Predicates are typically verbs and may participate in SemanticRoleRelations. Follows PropBank standards with a few clinical additions.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>relations</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation</elementType>
- </featureDescription>
- <featureDescription>
- <name>frameSet</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier</name>
- <description>Corresponds to the UMLS Devices semantic group: medical device and research device.
-Example: arterial line has a Medical Device semantic type. This is qualifying information on how a procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ProcedureMention</name>
- <description>A text string that refers to a (Procedure) Event. This is from the UMLS semantic group of Procedures (except that Laboratory procedures are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>procedureDevice</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>method</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier</name>
- <description>The way or the equipment used to give or administration something (medication, test). This corresponds to the Procedures UMLS semantic group.
-More qualifying information on how the procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.RangeAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.RangeAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.RomanNumeralAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.RomanNumeralAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SemanticArgument</name>
- <description>SemanticArguments are used for predicate-argument structures (SemanticRoleRelations). The "label" features should contain the type of semantic role (e.g., ARG0, ARGM) that this argument has w.r.t. the predicate.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>relation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SemanticRoleRelation</name>
- <description>Predicate-argument structure used for semantic role labeling output.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.relation.Relation</supertypeName>
- <features>
- <featureDescription>
- <name>predicate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.Predicate</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>argument</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.SemanticArgument</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SeverityModifier</name>
- <description>An explicitly-mentioned indication of the seriousness of a condition. Value Set: unmarked (default), severe, moderate, slight</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SignSymptomMention</name>
- <description>A text string that refers to a (SignSymptom) Event. This is from the UMLS semantic group of Sign or Symptom. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManagesTreatsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ComplicatesDisruptsTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>severity</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOfTextRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.TimeMention</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalTextRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.SubjectModifier</name>
- <description>The person the observation is on, i.e., a Person mention. This modifier refers to the entity experiencing the disorder.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.TimeAnnotation</name>
- <description>Equivalent to cTAKES: edu.mayo.bmi.uima.cdt.type.TimeAnnotation</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.TimeMention</name>
- <description>A text string (IdentifiedAnnotation) that refers to a Time (i.e., TIMEX3).</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</supertypeName>
- <features>
- <featureDescription>
- <name>date</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>time</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>timeClass</name>
- <description>DATE, DURATION, QUANTIFIER, PREPOSTEXP, etc.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textsem.UncertaintyModifier</name>
- <description>An introduction of a measure of doubt into a statement. If indicated, there is uncertainty.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
- <features>
- <featureDescription>
- <name>indicated</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.List</name>
- <description>A semi-structured text span, containing other Annotations (typically Sentences, other Lists, etc).</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>items</name>
- <description/>
- <rangeTypeName>uima.cas.FSList</rangeTypeName>
- <elementType>uima.tcas.Annotation</elementType>
- <multipleReferencesAllowed>true</multipleReferencesAllowed>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.LookupWindowAnnotation</name>
- <description>Defines a window within which dictionary terms may match. An auxiliary spanned type.
-Equivalent to cTAKES: edu.mayo.bmi.uima.lookup.type.LookupWindowAnnotation</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.Paragraph</name>
- <description>A text span corresponding to a paragraph, typically containing multiple sentences.</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.Segment</name>
- <description>A section of a clinical text, e.g., Diagnosis, Current Medications, Problem List. Different segments often have differing sublanguages and clinical relevance.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Segment</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>preferredText</name>
- <description>preferredText is the normalized/resolved section name. Normally, this is populated by the Sectionizer and would contain the HL7/CCDA section name.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.textspan.Sentence</name>
- <description>Sentences may or may not be fully-formed and grammatical. They form the unit of analysis for some downstream components (e.g., constituency parsers).
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Sentence</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>sentenceNumber</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>segmentId</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.util.Pair</name>
- <description>An Attribute-Value tuple.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Property</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>attribute</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.util.Pairs</name>
- <description>A brute force "hash" that stores multiple Pairs in a list.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.Properties</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>pairs</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.util.Pair</elementType>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.util.ProbabilityDistribution</name>
- <description>A brute force probability distribution for discrete variables.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.util.Pairs</supertypeName>
- </typeDescription>
- </types>
- </typeSystemDescription>
- <fsIndexCollection/>
- <capabilities>
- <capability>
- <inputs/>
- <outputs>
- <type>org.apache.ctakes.assertion.zoner.types.Zone</type>
- <feature>org.apache.ctakes.assertion.zoner.types.Zone:label</feature>
- <type>org.apache.ctakes.assertion.zoner.types.Subzone</type>
- <feature>org.apache.ctakes.assertion.zoner.types.Subzone:label</feature>
- <type>org.apache.ctakes.assertion.zoner.types.Heading</type>
- <feature>org.apache.ctakes.assertion.zoner.types.Heading:label</feature>
- </outputs>
- <languagesSupported/>
- </capability>
- </capabilities>
- <operationalProperties>
- <modifiesCas>true</modifiesCas>
- <multipleDeploymentAllowed>true</multipleDeploymentAllowed>
- <outputsNewCASes>false</outputsNewCASes>
- </operationalProperties>
- </analysisEngineMetaData>
- </analysisEngineDescription>
- </delegateAnalysisEngine>
- </delegateAnalysisEngineSpecifiers>
- <analysisEngineMetaData>
- <name/>
- <configurationParameters/>
- <configurationParameterSettings/>
- <flowConstraints>
- <fixedFlow>
- <node>org.mitre.medfacts.uima.ZoneAnnotator</node>
- <node>org.mitre.medfacts.uima.ZoneAnnotator.2</node>
- </fixedFlow>
- </flowConstraints>
- <capabilities/>
- <operationalProperties>
- <modifiesCas>true</modifiesCas>
- <multipleDeploymentAllowed>true</multipleDeploymentAllowed>
- <outputsNewCASes>false</outputsNewCASes>
- </operationalProperties>
- </analysisEngineMetaData>
-</analysisEngineDescription>
diff --git a/ctakes-assertion-zoner/desc/analysis_engine/assertion_zoner__mayo.xml b/ctakes-assertion-zoner/desc/analysis_engine/assertion_zoner__mayo.xml
deleted file mode 100644
index bba3363..0000000
--- a/ctakes-assertion-zoner/desc/analysis_engine/assertion_zoner__mayo.xml
+++ /dev/null
@@ -1,2437 +0,0 @@
-<?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>true</primitive>
- <annotatorImplementationName>org.mitre.medfacts.uima.ZoneAnnotator</annotatorImplementationName>
- <analysisEngineMetaData>
- <name>org.mitre.medfacts.uima.ZoneAnnotator</name>
- <description>Descriptor automatically generated by uimaFIT</description>
- <version>unknown</version>
- <vendor>org.mitre.medfacts.uima</vendor>
- <configurationParameters>
- <configurationParameter>
- <name>SectionRegex</name>
- <description>xml configuration file with zone regular expression values</description>
- <type>String</type>
- <multiValued>false</multiValued>
- <mandatory>true</mandatory>
- </configurationParameter>
- </configurationParameters>
- <configurationParameterSettings>
- <nameValuePair>
- <name>SectionRegex</name>
- <value>
- <string>org/mitre/medfacts/uima/mayo_sections.xml</string>
- </value>
- </nameValuePair>
- </configurationParameterSettings>
- <typeSystemDescription>
- <types>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Heading</name>
- <description>a section heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Subzone</name>
- <description/>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.assertion.zoner.types.Zone</name>
- <description>A document Zone, including its heading</description>
- <supertypeName>uima.tcas.Annotation</supertypeName>
- <features>
- <featureDescription>
- <name>label</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.AnatomicalSite</name>
- <description>A body part or area, corresponding to the UMLS semantic group of Anatomy. An Entity based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Entity</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Attribute</name>
- <description>The semantic encapsulation of a modifer. E.g., for Clinical Elements, Attributes may be used to specify Body Side for a Procedure.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</name>
- <description>The proximity of the location in anatomical terms (distal, proximal, superior, anterior and etc.). This is finer-grained to allow combinations of values.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.BodySide</name>
- <description>Value set: unmarked (default), left, right, bilateral</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Course</name>
- <description>An indication of progress or decline of a condition. Value set: unmarked (default), changed, increased, decreased, improved, worsened, resolved</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Date</name>
- <description>A normalized form for dates, namely with day, month, and year. A subtype of Element but may not use all inherited attributes.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>day</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>month</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>year</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.DiseaseDisorder</name>
- <description>This is an Event from the UMLS semantic group of Disorders (except that Sign and Symptom types are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>associatedSignSymptom</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManifestationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>course</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Course</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>exacerbatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Element</name>
- <description>A basic semantic unit that refers to something in the real world, including Entities, Events, Attributes, Dates. Element inherits from uima.cas.TOP to combine textual mentions of these real-world objects.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>id</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ontologyConcept</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>mentions</name>
- <description/>
- <rangeTypeName>uima.cas.FSArray</rangeTypeName>
- <elementType>org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation</elementType>
- </featureDescription>
- <featureDescription>
- <name>discoveryTechnique</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>confidence</name>
- <description/>
- <rangeTypeName>uima.cas.Double</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>conditional</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>generic</name>
- <description/>
- <rangeTypeName>uima.cas.Boolean</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>subject</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>uncertainty</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>historyOf</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Entity</name>
- <description>A real-world entity such as a body part. For example, multiple Procedures may have the same AnatomicalSite entity for their locations.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Event</name>
- <description>A real-world event; similar to Entity, but may bear some temporal properties and relationships. In the constrained clinical context, many concepts are discussed as instances with some temporal component, e.g., Medications, Labs.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Element</supertypeName>
- <features>
- <featureDescription>
- <name>properties</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.EventProperties</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.EventProperties</name>
- <description>A set of mostly temporal properties that are unique to Events.</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>contextualModality</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>contextualAspect</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>permanence</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>category</name>
- <description>Type of Event.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>aspect</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>docTimeRel</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>degree</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>polarity</name>
- <description/>
- <rangeTypeName>uima.cas.Integer</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Lab</name>
- <description>This is an Event from the UMLS semantic group of Laboratory Procedures. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>abnormalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>deltaFlag</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabDeltaFlag</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>labValue</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabValue</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>ordinalInterpretation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>referenceRangeNarrative</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.LabReferenceRange</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabDeltaFlag</name>
- <description>An indicator to warn that the laboratory test result has changed significantly from the previous identical laboratory test result.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabReferenceRange</name>
- <description>Holds a narrative (i.e. string) reference range</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.LabValue</name>
- <description>Quantitative results of a laboratory, with number and unit.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Medication</name>
- <description>This is an Event from the UMLS semantic group of Chemicals and Drugs, pruned by RxNORM source. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>medicationFrequency</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDuration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationRoute</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStatusChange</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationDosage</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationStrength</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>medicationForm</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.MedicationForm</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endDate</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</name>
- <description>Dosage indicates how much of a prescribed drug should be taken. E.g. "one" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</name>
- <description>The amount of time after which a medication should stop being used, e.g., "2 weeks" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationForm</name>
- <description>Form of this medication. Value set includes tablet, capsule, liquid, inhalant, gel, other, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</name>
- <description>How often a medication should be used. e.g., BID or b.i.d. or "twice-a-day" would have a number=2 and unit=day.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description>The periodic unit used, e.g day, month, hour, etc.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</name>
- <description>Means by which the medication was taken or administered. Value set includes Topical, Enteral_Oral, Parenteral_Intravenous, Other, undetermined, etc.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</name>
- <description>Status refers to the whether the medication is currently being taken or not. Value set: start, stop, increase, decrease, no change.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description>Indicates the change status of 'stop', 'start', 'increase', 'decrease', or 'noChange'.</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</name>
- <description>Strength indicates the strength number and unit of the prescribed drug. E.g. "5 mg" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>number</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>unit</name>
- <description>the unit of measurement</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.OntologyConcept</name>
- <description>Ontologies (e.g., SNOMED-CT) provide an expert semantic representation for concepts. They typically assign a code to a concept and normalize across various textual representations of that concept.
-IdentifiedAnnotation and Elements may point to these normalized concept representations to indicate clinical concepts.
-Equivalent to cTAKES: edu.mayo.bmi.uima.core.type.OntologyConcept</description>
- <supertypeName>uima.cas.TOP</supertypeName>
- <features>
- <featureDescription>
- <name>codingScheme</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>code</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>oid</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>oui</name>
- <description>holds the rxnorm unique identifier for a given drug mention.
- TODO: change this attribute because of name clash (UMLS/SNOMED)</description>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Procedure</name>
- <description>This is an Event from the UMLS semantic group of Procedures (except that Laboratory procedures are separate). Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>procedureDevice</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.ProcedureDevice</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>duration</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>endTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>method</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.ProcedureMethod</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>startTime</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>relativeTemporalContext</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.ProcedureDevice</name>
- <description>Corresponds to the UMLS Devices semantic group: medical device and research device.
-Example: arterial line has a Medical Device semantic type. This is qualifying information on how a procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.ProcedureMethod</name>
- <description>The way or the equipment used to give or administration something (medication, test). This corresponds to the Procedures UMLS semantic group.
-More qualifying information on how the procedure was done.</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.Severity</name>
- <description>An explicitly-mentioned indication of the seriousness of a condition. Value Set: unmarked (default), severe, moderate, slight</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
- <features>
- <featureDescription>
- <name>value</name>
- <description/>
- <rangeTypeName>uima.cas.String</rangeTypeName>
- </featureDescription>
- </features>
- </typeDescription>
- <typeDescription>
- <name>org.apache.ctakes.typesystem.type.refsem.SignSymptom</name>
- <description>This is an Event from the UMLS semantic group of Sign or Symptom. Based on generic Clinical Element Models (CEMs)</description>
- <supertypeName>org.apache.ctakes.typesystem.type.refsem.Event</supertypeName>
- <features>
- <featureDescription>
- <name>alleviatingFactor</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLaterality</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodySide</name>
- <description/>
- <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.BodySide</rangeTypeName>
- </featureDescription>
- <featureDescription>
- <name>bodyLocation</name>
- <description/>
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