Publish jar to GitHub Packages

.github/workflows/maven.yml

@@ -6,30 +6,54 @@
 # separate terms of service, privacy policy, and support
 # documentation.
 
-name: Java CI with Maven
+name: Maven CI And Publish
 
 on:
   push:
     branches: [ "main" ]
   pull_request:
     branches: [ "main" ]
+  release:
+    types: [ published ]
+  workflow_dispatch:
 
 jobs:
   build:
-
     runs-on: ubuntu-latest
+    permissions:
+      contents: read
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
     - name: Set up JDK 21
-      uses: actions/setup-java@v3
+      uses: actions/setup-java@v4
       with:
         java-version: '21'
         distribution: 'temurin'
         cache: maven
     - name: Build with Maven
       run: mvn -B package --file pom.xml
 
-    # Optional: Uploads the full dependency graph to GitHub to improve the quality of Dependabot alerts this repository can receive
-    - name: Update dependency graph
-      uses: advanced-security/maven-dependency-submission-action@571e99aab1055c2e71a1e2309b9691de18d6b7d6
+  publish:
+    if: github.event_name == 'release' || (github.event_name == 'workflow_dispatch' && github.ref == 'refs/heads/main')
+    needs: build
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      packages: write
+
+    steps:
+    - uses: actions/checkout@v4
+    - name: Set up JDK 21 for GitHub Packages
+      uses: actions/setup-java@v4
+      with:
+        java-version: '21'
+        distribution: 'temurin'
+        cache: maven
+        server-id: github
+        server-username: GITHUB_ACTOR
+        server-password: GITHUB_TOKEN
+    - name: Publish to GitHub Packages
+      run: mvn -B -DskipTests deploy --file pom.xml
+      env:
+        GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

README.md

@@ -1,6 +1,2 @@
 # maf
 Utility classes for the Mutation Annotation Format (MAF)
-
-### ⚠ Candidate for Dreprecation
-*This codebase may soon be deprecated. As far as we are aware, there is only one project which uses this code as a dependency : [genome-nexus-annotation-pipeline](https://github.com/genome-nexus/genome-nexus-annotation-pipeline). We are planning to absorb these classes into that project if there are no other projects using this code. If you wish to keep this repository as a standalone resource please send a message soon to the cBioPortal project [via slack](https://cbioportal.slack.com/archives/C04K8VD6E) [via email](mailto:cbioportal@cbioportal.org).
-This Deprecation message was added 2024_02_07

pom.xml

@@ -13,6 +13,14 @@
 
 	<description>Utility classes for the Mutation Annotation Format (MAF) </description>
 
+	<distributionManagement>
+		<repository>
+			<id>github</id>
+			<name>GitHub Packages</name>
+			<url>https://maven.pkg.github.com/cBioPortal/maf</url>
+		</repository>
+	</distributionManagement>
+
 	<properties>
 		<maven.compiler.source>21</maven.compiler.source>
 		<maven.compiler.target>21</maven.compiler.target>
@@ -44,4 +52,4 @@
 		    <url>https://jitpack.io</url>
 		</repository>
 	</repositories>
-</project>
+</project>