Added:
ctakes/ctakes-models/trunk/ctakes-assertion-models/src/main/resources/org/apache/ctakes/assertion/models/uncertainty/model.jar
URL:
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==============================================================================
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Added: ctakes/ctakes-models/trunk/ctakes-chunker-models/LICENSE
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-chunker-models/LICENSE?rev=1905648&view=auto
==============================================================================
--- ctakes/ctakes-models/trunk/ctakes-chunker-models/LICENSE (added)
+++ ctakes/ctakes-models/trunk/ctakes-chunker-models/LICENSE Wed Nov 30
15:54:26 2022
@@ -0,0 +1,202 @@
+
+ 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.
Added: ctakes/ctakes-models/trunk/ctakes-chunker-models/pom.xml
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-chunker-models/pom.xml?rev=1905648&view=auto
==============================================================================
--- ctakes/ctakes-models/trunk/ctakes-chunker-models/pom.xml (added)
+++ ctakes/ctakes-models/trunk/ctakes-chunker-models/pom.xml Wed Nov 30
15:54:26 2022
@@ -0,0 +1,32 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!--
+
+ Licensed to the Apache Software Foundation (ASF) under one
+ or more contributor license agreements. See the NOTICE file
+ distributed with this work for additional information
+ regarding copyright ownership. The ASF licenses this file
+ to you under the Apache License, Version 2.0 (the
+ "License"); you may not use this file except in compliance
+ with the License. You may obtain a copy of the License at
+
+ http://www.apache.org/licenses/LICENSE-2.0
+
+ Unless required by applicable law or agreed to in writing,
+ software distributed under the License is distributed on an
+ "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
+ KIND, either express or implied. See the License for the
+ specific language governing permissions and limitations
+ under the License.
+
+-->
+<project xmlns="http://maven.apache.org/POM/4.0.0";
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
http://maven.apache.org/xsd/maven-4.0.0.xsd";>
+ <modelVersion>4.0.0</modelVersion>
+ <parent>
+ <groupId>org.apache.ctakes</groupId>
+ <artifactId>ctakes-models</artifactId>
+ <version>5.0.0-SNAPSHOT</version>
+ </parent>
+ <artifactId>ctakes-chunker-models</artifactId>
+ <name>ctakes-chunker models</name>
+ <description>Machine Learning Models for ctakes-chunker</description>
+</project>
Added:
ctakes/ctakes-models/trunk/ctakes-chunker-models/src/main/resources/org/apache/ctakes/chunker/models/README
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-chunker-models/src/main/resources/org/apache/ctakes/chunker/models/README?rev=1905648&view=auto
==============================================================================
---
ctakes/ctakes-models/trunk/ctakes-chunker-models/src/main/resources/org/apache/ctakes/chunker/models/README
(added)
+++
ctakes/ctakes-models/trunk/ctakes-chunker-models/src/main/resources/org/apache/ctakes/chunker/models/README
Wed Nov 30 15:54:26 2022
@@ -0,0 +1,24 @@
+
+A chunker model is included with this project.
+
+The model derives from a combination of GENIA, Penn Treebank (Wall Street
Journal) and anonymized
+clinical data per Safe Harbor HIPAA guidelines. Prior to model building, the
clinical data was
+deidentified for patient names to preserve patient confidentiality. Any person
name in the model
+will originate from non-patient data sources.
+
+To build a model of your own, you need to
+1) obtain training data - see data/chunk/genia/README and data/chunk/ptb/README
+2) build a model using the training data.
+
+After you have obtained training data, you can build a chunker model by
running the following:
+
+java opennlp.tools.chunker.ChunkerME <training-data> <model-name> <iterations>
<cutoff>
+where <training-data> is an OpenNLP training data file as described in e.g.
data/chunk/genia/README
+ <model-name> The file name of the resulting model. The name should end
with either '.txt'
+ (for a plain text model) or '.bin.gz' (for a compressed
binary model).
+ <iterations> How many training iterations will be performed. The
default is 100.
+ <cutoff> The minimum number of times a feature has to be seen to be
considered for
+ inclusion in the model. The default cutoff is 5.
+
+The arguments <iterations> and <cutoff> are, taken together, optional - i.e.
you should provide
+both or provide neither.
Added:
ctakes/ctakes-models/trunk/ctakes-chunker-models/src/main/resources/org/apache/ctakes/chunker/models/chunker-model.zip
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-chunker-models/src/main/resources/org/apache/ctakes/chunker/models/chunker-model.zip?rev=1905648&view=auto
==============================================================================
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------------------------------------------------------------------------------
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Added: ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/LICENSE
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/LICENSE?rev=1905648&view=auto
==============================================================================
--- ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/LICENSE (added)
+++ ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/LICENSE Wed
Nov 30 15:54:26 2022
@@ -0,0 +1,202 @@
+
+ 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.
Added: ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/pom.xml
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/pom.xml?rev=1905648&view=auto
==============================================================================
--- ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/pom.xml (added)
+++ ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/pom.xml Wed
Nov 30 15:54:26 2022
@@ -0,0 +1,35 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!--
+
+ Licensed to the Apache Software Foundation (ASF) under one
+ or more contributor license agreements. See the NOTICE file
+ distributed with this work for additional information
+ regarding copyright ownership. The ASF licenses this file
+ to you under the Apache License, Version 2.0 (the
+ "License"); you may not use this file except in compliance
+ with the License. You may obtain a copy of the License at
+
+ http://www.apache.org/licenses/LICENSE-2.0
+
+ Unless required by applicable law or agreed to in writing,
+ software distributed under the License is distributed on an
+ "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
+ KIND, either express or implied. See the License for the
+ specific language governing permissions and limitations
+ under the License.
+
+-->
+<project xmlns="http://maven.apache.org/POM/4.0.0";
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
http://maven.apache.org/xsd/maven-4.0.0.xsd";>
+ <modelVersion>4.0.0</modelVersion>
+ <parent>
+ <groupId>org.apache.ctakes</groupId>
+ <artifactId>ctakes-models</artifactId>
+ <version>5.0.0-SNAPSHOT</version>
+ </parent>
+ <artifactId>ctakes-constituency-parser-models</artifactId>
+ <name>ctakes-constituency-parser models</name>
+ <description>Machine Learning models for
ctakes-constituency-parser</description>
+ <dependencies>
+ </dependencies>
+
+</project>
Added:
ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/src/main/resources/org/apache/ctakes/constituency/parser/models/README
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/src/main/resources/org/apache/ctakes/constituency/parser/models/README?rev=1905648&view=auto
==============================================================================
---
ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/src/main/resources/org/apache/ctakes/constituency/parser/models/README
(added)
+++
ctakes/ctakes-models/trunk/ctakes-constituency-parser-models/src/main/resources/org/apache/ctakes/constituency/parser/models/README
Wed Nov 30 15:54:26 2022
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+
+The model in parsermodel is trained on Mipacq data (clinical notes, clinical
questions, medpedia, etc.)
+as well as the Penn Treebank (Wall Street Journal). This model performs about
1.5 better labeled F-score
+on some preliminary runs. fastModel is trained only on clinical data but is a
much smaller model and
+runs a lot faster.
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URL:
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==============================================================================
--- ctakes/ctakes-models/trunk/ctakes-core-models/LICENSE (added)
+++ ctakes/ctakes-models/trunk/ctakes-core-models/LICENSE Wed Nov 30 15:54:26
2022
@@ -0,0 +1,202 @@
+
+ Apache License
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+
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Added: ctakes/ctakes-models/trunk/ctakes-core-models/pom.xml
URL:
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==============================================================================
--- ctakes/ctakes-models/trunk/ctakes-core-models/pom.xml (added)
+++ ctakes/ctakes-models/trunk/ctakes-core-models/pom.xml Wed Nov 30 15:54:26
2022
@@ -0,0 +1,32 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!--
+
+ Licensed to the Apache Software Foundation (ASF) under one
+ or more contributor license agreements. See the NOTICE file
+ distributed with this work for additional information
+ regarding copyright ownership. The ASF licenses this file
+ to you under the Apache License, Version 2.0 (the
+ "License"); you may not use this file except in compliance
+ with the License. You may obtain a copy of the License at
+
+ http://www.apache.org/licenses/LICENSE-2.0
+
+ Unless required by applicable law or agreed to in writing,
+ software distributed under the License is distributed on an
+ "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
+ KIND, either express or implied. See the License for the
+ specific language governing permissions and limitations
+ under the License.
+
+-->
+<project xmlns="http://maven.apache.org/POM/4.0.0";
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
http://maven.apache.org/xsd/maven-4.0.0.xsd";>
+ <modelVersion>4.0.0</modelVersion>
+ <parent>
+ <groupId>org.apache.ctakes</groupId>
+ <artifactId>ctakes-models</artifactId>
+ <version>5.0.0-SNAPSHOT</version>
+ </parent>
+ <artifactId>ctakes-core-models</artifactId>
+ <name>ctakes-core models</name>
+ <description>Machine Learning models for ctakes-core</description>
+</project>
Added:
ctakes/ctakes-models/trunk/ctakes-core-models/src/main/resources/org/apache/ctakes/core/models/sentdetect/README
URL:
http://svn.apache.org/viewvc/ctakes/ctakes-models/trunk/ctakes-core-models/src/main/resources/org/apache/ctakes/core/models/sentdetect/README?rev=1905648&view=auto
==============================================================================
---
ctakes/ctakes-models/trunk/ctakes-core-models/src/main/resources/org/apache/ctakes/core/models/sentdetect/README
(added)
+++
ctakes/ctakes-models/trunk/ctakes-core-models/src/main/resources/org/apache/ctakes/core/models/sentdetect/README
Wed Nov 30 15:54:26 2022
@@ -0,0 +1,110 @@
+Contents:
+- Included sentence detector model
+- Training a sentence detector model from the included sample data
+- Training a sentence detector model from other training data
+- Verifying you can train a sentence detector model successfully
+- FYI - Using opennlp directly
+- Running the SentenceDetectorAnnotator analysis engine
+ - SentenceDetectorAggregate.xml
+ - SentenceDetectorCPE.xml
+ - SentenceDetectorAnnotator.xml
+
+
+################################################################
+Included sentence detector model
+################################################################
+A sentence detector model is included with this project.
+
+The model derives from a combination of GENIA, Penn Treebank (Wall Street
Journal) and anonymized
+clinical data per Safe Harbor HIPAA guidelines. Prior to model building, the
clinical data was
+deidentified for patient names to preserve patient confidentiality. Any person
name in the model
+will originate from non-patient data sources.
+
+
+################################################################
+Training a sentence detector model from the included sample data
+################################################################
+
+To train a sentence detector that recognizes the same set of candidate
+end-of-sentence characters that the SentenceDetectorAnnotator uses,
+using the included sample training sentences, use the included launch
+called "SentenceDetector - train a new model", or use:
+ java org.apache.ctakes.core.ae.SentenceDetector
+ data/test/sample_sd_training_sentences.txt
+ resources/sentdetect/sample_sd.mod
+
+
+###########################################################
+Training a sentence detector model from other training data
+###########################################################
+
+To train a sentence detector that recognizes the same set of candidate
+end-of-sentence characters that the SentenceDetectorAnnotator uses,
+on the Run dialog within eclipse, set the Program arguments on the Arguments
+tab (the first argument is your sentences training data file) for the
+included launch called "SentenceDetector - train a new model".
+
+The first argument is your sentences training data file
+The second argument is the name of the model file to be created
+The third argument is the number of iterations for training
+The fourth argument is the cutoff value used
+
+An alternative to using the launch is to use:
+ java org.apache.ctakes.core.ae.SentenceDetector sents_file model iters? cut?
+where sents_file contains one sentence per line,
+model is the file that is to be created,
+and iters and cut are optional parameters.
+
+For example, sents_file could contain the following four lines:
+The boy ran.
+Did the girl run too?
+Yes, she did.
+Where did she go?
+
+
+##############################################################
+Verifying you can train a sentence detector model successfully
+##############################################################
+
+Train a sentence detector model from the included sample data, as described
+above.
+Compare the contents of your sentence detector model to the included sample
+sentence detector model. You might use diff, like this:
+diff resources/sentdetect/sample_sd.mod
resources/sentdetect/sample_sd_included.mod
+
+
+############################
+FYI - Using opennlp directly
+############################
+
+You can train a sentence detector directly using the opennlp sentence detector
+(SentenceDetectorME) with the default set of candidate end-of-sentence
+characters, using
+ java opennlp.tools.sentdetect.SentenceDetectorME infile outfile (iters cut)?
+where infile contains one sentence per line (new lines separating sentences)
+For example, infile could contain the following four lines:
+The boy ran.
+Did the girl run too?
+Yes, she did.
+Where did she go?
+
+
+######################################################
+Running the SentenceDetectorAnnotator analysis engine
+######################################################
+
+Launch the "SentenceDetector annotator" run configuration.
+Open CPE SentenceDetectorCPE.xml, which uses the analysis
+engines listed in SentenceDetectorAggregate.xml.
+
+The aggregate analysis engine is defined to read from plain text file(s) in
+data\test\sample_notes_plaintext
+using the FilesInDirectoryCollectionReader.
+
+Since the sentence annotator processes the text one section at a time, there
+must be at least one section (segment) annotation for the
SentenceDetectorAnnotator
+to add Sentence annotations.
+Therefore the first analysis engine is the SimpleSegmentAnnotator, which
+creates a single Segment annotation that covers the entire text.
+Then the SentenceDetectorAnnotator analysis engine adds Sentence annotations.
+
