Make release v2.1.1.

monarch-initiative · Apr 17, 2024 · cccf148 · cccf148
1 parent a24872a
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diff --git a/CHANGELOG.rst b/CHANGELOG.rst
@@ -2,9 +2,11 @@
 Changelog
 =========
 
-------
-latest
-------
+-----
+2.1.1
+-----
+
+- add *Past medical history* to `Aspect` enum
 
 -----
 2.1.0

diff --git a/README.md b/README.md
@@ -14,7 +14,6 @@ associate phenotype annotation files.
 
 - **Language/Platform:** Java >=11
 - **License:** BSD 3-Clause Clear
-- **Version:** 2.1.0
 - **Authors:**
     - Sebastian Bauer
     - Peter N. Robinson
@@ -34,25 +33,25 @@ associate phenotype annotation files.
     - `phenol-cli` for performing empirical score distribution computation as a stand-alone program.
 
 ## Usage
-We recommend indicating the phenol version in the `properties` section of the pom file of the application.
+We recommend importing the `phenol` modules that are needed for your application.
 
-```
-<properties>
-  (...)
-  <phenol.version>2.1.0</phenol.version>
-</properties>
-```
+For instance:
 
-Then import the phenol modules that are needed for your application.
 ```xml
 <dependency>
     <groupId>org.monarchinitiative.phenol</groupId>
     <artifactId>phenol-core</artifactId>
     <version>${phenol.version}</version>
 </dependency>
+<dependency>
+  <groupId>org.monarchinitiative.phenol</groupId>
+  <artifactId>phenol-io</artifactId>
+<version>${phenol.version}</version>
+</dependency>
 <!-- ... and other modules -->
 ```
 
+where `${phenol.version}` corresponds to the desired version, such as `2.1.0`.
 
 ## History
 Phenol was initially forked from [ontolib]([https://github.com/Phenomics/ontolib) in February 2018, but was

diff --git a/docs/conf.py b/docs/conf.py
@@ -12,7 +12,7 @@
 # The short X.Y version.
 version = '2.1'
 # The full version, including alpha/beta/rc tags.
-release = '2.1.0'
+release = '2.1.1'
 
 # -- General configuration ---------------------------------------------------
 # https://www.sphinx-doc.org/en/master/usage/configuration.html#general-configuration

diff --git a/phenol-analysis/pom.xml b/phenol-analysis/pom.xml
@@ -4,7 +4,7 @@
   <parent>
     <groupId>org.monarchinitiative.phenol</groupId>
     <artifactId>phenol</artifactId>
-    <version>2.1.1-SNAPSHOT</version>
+    <version>2.1.1</version>
   </parent>
 
   <artifactId>phenol-analysis</artifactId>

diff --git a/phenol-annotations/pom.xml b/phenol-annotations/pom.xml
@@ -4,7 +4,7 @@
   <parent>
     <groupId>org.monarchinitiative.phenol</groupId>
     <artifactId>phenol</artifactId>
-    <version>2.1.1-SNAPSHOT</version>
+    <version>2.1.1</version>
   </parent>
 
   <artifactId>phenol-annotations</artifactId>

diff --git a/phenol-cli/pom.xml b/phenol-cli/pom.xml
@@ -4,7 +4,7 @@
   <parent>
     <groupId>org.monarchinitiative.phenol</groupId>
     <artifactId>phenol</artifactId>
-    <version>2.1.1-SNAPSHOT</version>
+    <version>2.1.1</version>
   </parent>
 
   <artifactId>phenol-cli</artifactId>

diff --git a/phenol-core/pom.xml b/phenol-core/pom.xml
@@ -4,7 +4,7 @@
   <parent>
     <groupId>org.monarchinitiative.phenol</groupId>
     <artifactId>phenol</artifactId>
-    <version>2.1.1-SNAPSHOT</version>
+    <version>2.1.1</version>
   </parent>
 
   <artifactId>phenol-core</artifactId>

diff --git a/phenol-io/pom.xml b/phenol-io/pom.xml
@@ -4,7 +4,7 @@
   <parent>
     <groupId>org.monarchinitiative.phenol</groupId>
     <artifactId>phenol</artifactId>
-    <version>2.1.1-SNAPSHOT</version>
+    <version>2.1.1</version>
   </parent>
 
   <artifactId>phenol-io</artifactId>

diff --git a/pom.xml b/pom.xml
@@ -5,7 +5,7 @@
   <groupId>org.monarchinitiative.phenol</groupId>
   <artifactId>phenol</artifactId>
   <packaging>pom</packaging>
-  <version>2.1.1-SNAPSHOT</version>
+  <version>2.1.1</version>
 
   <name>Phenol</name>
-Original file line number
+Diff line change
@@ Expand Up / @@ -2,9 +2,11 @@ @@
     Changelog
     =========
-    ------
-    latest
-    ------
+    -----
+.1.1
+    -----
+    - add *Past medical history* to `Aspect` enum
     -----
 .1.0
@@ Expand Down @@