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Posted to commits@ctakes.apache.org by se...@apache.org on 2024/01/26 17:26:38 UTC
(ctakes) branch main updated: Update model resources for 5.0.0 upcoming code release
This is an automated email from the ASF dual-hosted git repository.
seanfinan pushed a commit to branch main
in repository https://gitbox.apache.org/repos/asf/ctakes.git
The following commit(s) were added to refs/heads/main by this push:
new ecdf4b2 Update model resources for 5.0.0 upcoming code release
ecdf4b2 is described below
commit ecdf4b2c31802e871cee33073500ed0028c90cd9
Author: Sean Finan <se...@childrens.harvard.edu>
AuthorDate: Fri Jan 26 12:26:21 2024 -0500
Update model resources for 5.0.0 upcoming code release
---
ctakes-assertion/pom.xml | 2 +-
ctakes-chunker/pom.xml | 2 +-
ctakes-constituency-parser/pom.xml | 2 +-
ctakes-core/pom.xml | 2 +-
ctakes-coreference/pom.xml | 2 +-
ctakes-dependency-parser/pom.xml | 2 +-
ctakes-pos-tagger/pom.xml | 2 +-
ctakes-relation-extractor/pom.xml | 2 +-
ctakes-side-effect/pom.xml | 2 +-
ctakes-smoking-status/pom.xml | 2 +-
ctakes-temporal/pom.xml | 2 +-
ctakes-ytex-uima/pom.xml | 2 +-
pom.xml | 151 +++++++++++++------------------------
13 files changed, 65 insertions(+), 110 deletions(-)
diff --git a/ctakes-assertion/pom.xml b/ctakes-assertion/pom.xml
index dcb7e84..75c11b4 100644
--- a/ctakes-assertion/pom.xml
+++ b/ctakes-assertion/pom.xml
@@ -32,7 +32,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-assertion-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-chunker/pom.xml b/ctakes-chunker/pom.xml
index 92407f1..b084e2e 100644
--- a/ctakes-chunker/pom.xml
+++ b/ctakes-chunker/pom.xml
@@ -32,7 +32,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-chunker-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-constituency-parser/pom.xml b/ctakes-constituency-parser/pom.xml
index 35a7eb7..c5cdb5d 100644
--- a/ctakes-constituency-parser/pom.xml
+++ b/ctakes-constituency-parser/pom.xml
@@ -32,7 +32,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-constituency-parser-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-core/pom.xml b/ctakes-core/pom.xml
index e9801e4..f407e2d 100644
--- a/ctakes-core/pom.xml
+++ b/ctakes-core/pom.xml
@@ -32,7 +32,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-core-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-coreference/pom.xml b/ctakes-coreference/pom.xml
index 8d29aff..7c65fb9 100644
--- a/ctakes-coreference/pom.xml
+++ b/ctakes-coreference/pom.xml
@@ -32,7 +32,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-coreference-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-dependency-parser/pom.xml b/ctakes-dependency-parser/pom.xml
index 4d35aa0..4e7eb2a 100644
--- a/ctakes-dependency-parser/pom.xml
+++ b/ctakes-dependency-parser/pom.xml
@@ -33,7 +33,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-dependency-parser-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<!-- ctakes-dependency-parser-clear is a large model, not used by default in ctakes.
If you need to use it then uncomment the dependency declaration below. -->
diff --git a/ctakes-pos-tagger/pom.xml b/ctakes-pos-tagger/pom.xml
index 234547c..22d0031 100644
--- a/ctakes-pos-tagger/pom.xml
+++ b/ctakes-pos-tagger/pom.xml
@@ -32,7 +32,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-pos-tagger-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-relation-extractor/pom.xml b/ctakes-relation-extractor/pom.xml
index 40416fd..7f777ca 100644
--- a/ctakes-relation-extractor/pom.xml
+++ b/ctakes-relation-extractor/pom.xml
@@ -32,7 +32,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-relation-extractor-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<!-- Clinical Pipeline contains ctakes modules that are needed. -->
<!-- Is Clinical Pipeline the best dependency? -->
diff --git a/ctakes-side-effect/pom.xml b/ctakes-side-effect/pom.xml
index 9cf80ea..9f1fa66 100644
--- a/ctakes-side-effect/pom.xml
+++ b/ctakes-side-effect/pom.xml
@@ -33,7 +33,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-side-effect-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-smoking-status/pom.xml b/ctakes-smoking-status/pom.xml
index 810d776..b7539f7 100644
--- a/ctakes-smoking-status/pom.xml
+++ b/ctakes-smoking-status/pom.xml
@@ -33,7 +33,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-smoking-status-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
diff --git a/ctakes-temporal/pom.xml b/ctakes-temporal/pom.xml
index 083d785..77f7d39 100644
--- a/ctakes-temporal/pom.xml
+++ b/ctakes-temporal/pom.xml
@@ -34,7 +34,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-temporal-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<!-- Relation extractor uses clinical-pipeline. No need to redeclare all those dependencies. -->
<dependency>
diff --git a/ctakes-ytex-uima/pom.xml b/ctakes-ytex-uima/pom.xml
index e88f0e8..aaae37d 100644
--- a/ctakes-ytex-uima/pom.xml
+++ b/ctakes-ytex-uima/pom.xml
@@ -65,7 +65,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-dependency-parser-models</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
<scope>test</scope>
</dependency>
<!-- <dependency>-->
diff --git a/pom.xml b/pom.xml
index d68535a..af87680 100644
--- a/pom.xml
+++ b/pom.xml
@@ -30,7 +30,7 @@
<url>http://ctakes.apache.org</url>
<inceptionYear>2012</inceptionYear>
<scm>
- <!-- In child modules, Maven will append ${artifactId} to the following
+ <!-- In child modules, Maven will append ${artifactId} to the following
URLs -->
<connection>scm:git:https://github.com/apache/ctakes</connection>
<developerConnection>scm:git:https://github.com/apache/ctakes</developerConnection>
@@ -98,6 +98,7 @@
<commons-logging.version>1.1.1</commons-logging.version>
<commons-pool.version>1.5.4</commons-pool.version>
<ctakesresources.version>4.0.0</ctakesresources.version>
+ <ctakes-models.version>5.0.0</ctakes-models.version>
<cxf.version>2.7.8</cxf.version>
<diffutils.version>1.3.0</diffutils.version>
<dom4j.version>1.6.1</dom4j.version>
@@ -525,7 +526,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-core-model</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
@@ -550,7 +551,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-pos-tagger-model</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
@@ -560,7 +561,7 @@
<dependency>
<groupId>org.apache.ctakes</groupId>
<artifactId>ctakes-chunker-model</artifactId>
- <version>${project.version}</version>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
@@ -569,38 +570,28 @@
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-context-tokenizer
- </artifactId>
+ <artifactId>ctakes-context-tokenizer</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-clinical-pipeline
- </artifactId>
+ <artifactId>ctakes-clinical-pipeline</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-ne-contexts
- </artifactId>
+ <artifactId>ctakes-ne-contexts</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-assertion
- </artifactId>
+ <artifactId>ctakes-assertion</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-assertion-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-assertion-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
@@ -609,121 +600,87 @@
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-constituency-parser
- </artifactId>
+ <artifactId>ctakes-constituency-parser</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-constituency-parser-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-constituency-parser-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-coreference
- </artifactId>
+ <artifactId>ctakes-coreference</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-coreference-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-coreference-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-drug-ner
- </artifactId>
+ <artifactId>ctakes-drug-ner</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-side-effect
- </artifactId>
+ <artifactId>ctakes-side-effect</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-side-effect-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-side-effect-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-smoking-status
- </artifactId>
+ <artifactId>ctakes-smoking-status</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-smoking-status-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-smoking-status-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-dependency-parser
- </artifactId>
+ <artifactId>ctakes-dependency-parser</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-dependency-parser-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-dependency-parser-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-dependency-parser-model-clear
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-dependency-parser-model-clear</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-relation-extractor
- </artifactId>
+ <artifactId>ctakes-relation-extractor</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-relation-extractor-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-relation-extractor-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-temporal
- </artifactId>
+ <artifactId>ctakes-temporal</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-temporal-model
- </artifactId>
- <version>${project.version}</version>
+ <artifactId>ctakes-temporal-model</artifactId>
+ <version>${ctakes-models.version}</version>
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-ytex
- </artifactId>
+ <artifactId>ctakes-ytex</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
@@ -733,9 +690,7 @@
</dependency>
<dependency>
<groupId>org.apache.ctakes</groupId>
- <artifactId>
- ctakes-distribution
- </artifactId>
+ <artifactId>ctakes-distribution</artifactId>
<version>${project.version}</version>
</dependency>
<dependency>
@@ -841,8 +796,8 @@
<configuration>
<header>ctakes-distribution/src/main/config/license_header.txt</header>
<excludes>
- <!-- We're disabling .txt files for now because some Annotators may
- not be able to handle standard comments in text files. This may break name
+ <!-- We're disabling .txt files for now because some Annotators may
+ not be able to handle standard comments in text files. This may break name
values pairs such as stopWords.txt -->
<exclude>**.txt</exclude>
</excludes>
@@ -881,7 +836,7 @@
</properties>
<strictCheck>true</strictCheck>
</configuration>
- </plugin>
+ </plugin>
<plugin>
<artifactId>maven-assembly-plugin</artifactId>
<version>${maven-assembly-plugin.version}</version>
@@ -948,7 +903,7 @@
<plugin>
<artifactId>maven-dependency-plugin</artifactId>
<version>${maven-dependency-plugin.version}</version>
- </plugin>
+ </plugin>
<plugin>
<artifactId>maven-site-plugin</artifactId>
<version>${maven-site-plugin.version}</version>
@@ -957,7 +912,7 @@
<artifactId>maven-source-plugin</artifactId>
<version>${maven-source-plugin.version}</version>
</plugin>
- <!-- Maven expects tests to start or end with "Test", not "Tests", so
+ <!-- Maven expects tests to start or end with "Test", not "Tests", so
explicitly include files ending in "Tests" -->
<plugin>
<artifactId>maven-surefire-plugin</artifactId>
@@ -972,18 +927,18 @@
<argLine>-Xmx3g</argLine>
<forkedProcessTimeoutInSeconds>900</forkedProcessTimeoutInSeconds>
<additionalClasspathElements>
- <additionalClasspathElement>ctakes-assertion-model/src/main/resources</additionalClasspathElement>
+ <additionalClasspathElement>ctakes-assertion-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-chunker-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-constituency-parser-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-core-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-coreference-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-dependency-parser-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-dependency-parser-model-clear/src/main/resources</additionalClasspathElement>
- <additionalClasspathElement>ctakes-pos-tagger-model/src/main/resources</additionalClasspathElement>
+ <additionalClasspathElement>ctakes-pos-tagger-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-relation-extractor-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-side-effect-model/src/main/resources</additionalClasspathElement>
<additionalClasspathElement>ctakes-smoking-status-model/src/main/resources</additionalClasspathElement>
- <additionalClasspathElement>ctakes-temporal-model/src/main/resources</additionalClasspathElement>
+ <additionalClasspathElement>ctakes-temporal-model/src/main/resources</additionalClasspathElement>
</additionalClasspathElements>
</configuration>
</plugin>
@@ -993,7 +948,7 @@
<groupId>org.apache.rat</groupId>
<artifactId>apache-rat-plugin</artifactId>
<version>${apache-rat-plugin.version}</version>
- <configuration>
+ <configuration>
<excludes>
<!-- generated directories -->
<exclude>**/target/**/*</exclude>
@@ -1022,10 +977,10 @@
<!-- Exclude test data files -->
<exclude>**/data/test/**</exclude>
<exclude>**/data/**</exclude>
- <exclude>**/output/**</exclude>
- <exclude>**/sample_note.txt</exclude>
+ <exclude>**/output/**</exclude>
+ <exclude>**/sample_note.txt</exclude>
</excludes>
- <numUnapprovedLicenses>0</numUnapprovedLicenses>
+ <numUnapprovedLicenses>0</numUnapprovedLicenses>
</configuration>
</plugin>
<plugin>
@@ -1036,9 +991,9 @@
<lifecycleMappingMetadata>
<pluginExecutions>
<pluginExecution>
- <!--
+ <!--
This is needed to execute/unpack resources in m2e eclipse ide
- Currently used in the ctakes-dictionary-lookup project
+ Currently used in the ctakes-dictionary-lookup project
-->
<pluginExecutionFilter>
<groupId>org.apache.maven.plugins</groupId>
@@ -1058,7 +1013,7 @@
<!--
Ignore the Maven remote resources plugin in Eclipse. We don't use it from Eclipse,
and it causes a warning if m2e is not configured to ignore it as below.
- -->
+ -->
<pluginExecutionFilter>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-remote-resources-plugin</artifactId>
@@ -1071,7 +1026,7 @@
<action>
<ignore />
</action>
- </pluginExecution>
+ </pluginExecution>
</pluginExecutions>
</lifecycleMappingMetadata>
</configuration>