build: Updated application versions for 5.1.0 release

.gitignore

@@ -13,3 +13,4 @@
 
 /logs/
 
+.idea/*

CHANGELOG.md

@@ -1,7 +1,25 @@
 # Change Log
+
 All notable changes to this project will be documented in this file.
 See the [change log guidelines](http://keepachangelog.com/) for information on how to structure the file.
 
+## [5.1.0]
+
+### Added
+
+- Upgrade hale dependencies to 5.1 and Java version to 17.
+- Added support for specifying filters when loading data.
+
+### Changed
+
+- Always use the latest versions of hale offline resources like INSPIRE schemas.
+- Include support for MS Access.
+
+### Fixed
+
+- Fixed a problem that lead to alignment migration failing if collection of statistics was not enabled.
+- Fixed error when collecting merge statistics for an alignment with custom functions.
+
 ## [4.0.0]
 
 ## Added
@@ -111,6 +129,7 @@ Initial release based on hale studio 3.0.0.
 - Command to generate JSON representations of hale alignments (`hale project alignment export-json`)
 - Experimental command to filter to create a copy of a hale project with a filtered alignment (`hale project alignment filter`)
 
+[5.1.0]: https://github.com/halestudio/hale-cli/compare/v4.0.0...v5.1.0
 [4.0.0]: https://github.com/halestudio/hale-cli/compare/v3.5.0...v4.0.0
 [3.5.0]: https://github.com/halestudio/hale-cli/compare/v3.4.0...v3.5.0
 [3.4.0]: https://github.com/halestudio/hale-cli/compare/v3.3.2...v3.4.0

README.md

@@ -33,7 +33,7 @@ Build docker image:
 Run
 ---
 
-You can run the application using Gradle. However, there is no possibility to easily provide arguments.
+You can run the application using Gradle.
 
 ```
 ./gradlew run
@@ -45,6 +45,12 @@ Alternatively, you can run the start script of the built application.
 hale --version
 ```
 
+You can provide arguments to run as string in `""` following the below syntax.
+For example pass argument `help` to run command as below
+```
+./gradlew run --args="help"
+```
+
 If using `./gradlew installDist`, the start script can be found in `./build/install/hale/bin/`.
 
 JVM parameters can be provided to the start script with the `HALE_OPTS` environment variable.

gradle/wrapper/gradle-wrapper.properties

@@ -1,5 +1,6 @@
 distributionBase=GRADLE_USER_HOME
 distributionPath=wrapper/dists
+distributionUrl=https\://services.gradle.org/distributions/gradle-7.6.1-bin.zip
+networkTimeout=10000
 zipStoreBase=GRADLE_USER_HOME
 zipStorePath=wrapper/dists
-distributionUrl=https\://services.gradle.org/distributions/gradle-3.5-bin.zip