Merge develop into feature/nextflow-parsing-bumps

Keep Java 21 / jersey 3 / jgit 7 from this branch; take jackson 2.22.3 from develop.

Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>

Author: denis-yuen

nextflow-parsing/NextflowParsingFunction/pom.xml

@@ -13,7 +13,7 @@
     <maven.compiler.target>21</maven.compiler.target>
     <junit-version>5.9.1</junit-version>
     <jersey-version>3.1.11</jersey-version>
-    <jackson-version>2.22.1</jackson-version>
+    <jackson-version>2.22.3</jackson-version>
   </properties>
   <repositories>
     <repository>