Update dependencies to Java 21 + nextflow 25.01.x

Signed-off-by: Paolo Di Tommaso <[email protected]>

Author: pditommaso

buildSrc/src/main/groovy/io.nextflow.groovy-common-conventions.gradle

@@ -13,18 +13,12 @@ repositories {
 }
 
 java {
+    // these settings apply to all jvm tooling, including groovy
     toolchain {
         languageVersion = JavaLanguageVersion.of(21)
     }
-}
-
-compileJava {
-    options.release.set(17)
-}
-
-tasks.withType(GroovyCompile) {
-    sourceCompatibility = '17'
-    targetCompatibility = '17'
+    sourceCompatibility = 17
+    targetCompatibility = 17
 }
 
 tasks.withType(Test) {

gradle/wrapper/gradle-wrapper.properties

@@ -1,5 +1,5 @@
 distributionBase=GRADLE_USER_HOME
 distributionPath=wrapper/dists
-distributionUrl=https\://services.gradle.org/distributions/gradle-8.4-bin.zip
+distributionUrl=https\://services.gradle.org/distributions/gradle-8.13-bin.zip
 zipStoreBase=GRADLE_USER_HOME
 zipStorePath=wrapper/dists

plugins/nf-hello/build.gradle

@@ -50,21 +50,20 @@ sourceSets {
 }
 
 ext{
-    nextflowVersion = '24.11.0-edge'
+    nextflowVersion = '25.01.0-edge'
 }
 
 dependencies {
     // This dependency is exported to consumers, that is to say found on their compile classpath.
     compileOnly "io.nextflow:nextflow:$nextflowVersion"
-    compileOnly 'org.slf4j:slf4j-api:1.7.10'
-    compileOnly 'org.pf4j:pf4j:3.4.1'
-    // add here plugins depepencies
+    compileOnly 'org.slf4j:slf4j-api:2.0.16'
+    compileOnly 'org.pf4j:pf4j:3.12.0'
 
     // test configuration
-    testImplementation "org.apache.groovy:groovy:4.0.18"
-    testImplementation "org.apache.groovy:groovy-nio:4.0.18"
+    testImplementation "org.apache.groovy:groovy:4.0.26"
+    testImplementation "org.apache.groovy:groovy-nio:4.0.26"
     testImplementation "io.nextflow:nextflow:$nextflowVersion"
-    testImplementation ("org.apache.groovy:groovy-test:4.0.18") { exclude group: 'org.apache.groovy' }
+    testImplementation ("org.apache.groovy:groovy-test:4.0.26") { exclude group: 'org.apache.groovy' }
     testImplementation ("cglib:cglib-nodep:3.3.0")
     testImplementation ("org.objenesis:objenesis:3.1")
     testImplementation ("org.spockframework:spock-core:2.3-groovy-4.0") { exclude group: 'org.apache.groovy'; exclude group: 'net.bytebuddy' }

plugins/nf-hello/src/resources/META-INF/MANIFEST.MF

@@ -1,6 +1,6 @@
 Manifest-Version: 1.0
 Plugin-Id: nf-hello
-Plugin-Version: 0.6.0
+Plugin-Version: 0.7.0
 Plugin-Class: nextflow.hello.HelloPlugin
 Plugin-Provider: nextflow
-Plugin-Requires: >=24.11.0-edge
+Plugin-Requires: >=25.01.0-edge

plugins/nf-hello/src/test/nextflow/hello/MockHelpers.groovy

@@ -177,6 +177,6 @@ class MockTaskHandler extends TaskHandler {
     }
 
     @Override
-    void kill() { }
+    protected void killTask() { }
 
 }