Update build script

Signed-off-by: Paolo Di Tommaso <paolo.ditommaso@gmail.com>

.gitignore

@@ -1,7 +1,7 @@
 # Ignore Gradle project-specific cache directory
 .gradle
 .idea
-.nextflow
+.nextflow*
 
 # Ignore Gradle build output directory
 build

buildSrc/build.gradle

@@ -0,0 +1,14 @@
+/*
+ * This file was generated by the Gradle 'init' task.
+ */
+
+plugins {
+    // Support convention plugins written in Groovy. Convention plugins are build scripts in 'src/main' that automatically become available as plugins in the main build.
+    id 'groovy-gradle-plugin'
+}
+
+repositories {
+    // Use the plugin portal to apply community plugins in convention plugins.
+    gradlePluginPortal()
+}
+

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

@@ -0,0 +1,11 @@
+/*
+ * This file was generated by the Gradle 'init' task.
+ */
+
+plugins {
+    // Apply the common convention plugin for shared build configuration between library and application projects.
+    id 'io.nextflow.groovy-common-conventions'
+
+    // Apply the application plugin to add support for building a CLI application in Java.
+    id 'application'
+}

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

@@ -0,0 +1,48 @@
+/*
+ * This file was generated by the Gradle 'init' task.
+ */
+
+plugins {
+    // Apply the groovy Plugin to add support for Groovy.
+    id 'groovy'
+}
+
+repositories {
+    // Use Maven Central for resolving dependencies.
+    mavenCentral()
+}
+
+java {
+    toolchain {
+        languageVersion = JavaLanguageVersion.of(17)
+    }
+}
+
+compileJava {
+    options.release.set(11)
+}
+
+tasks.withType(GroovyCompile) {
+    sourceCompatibility = '11'
+    targetCompatibility = '11'
+}
+
+tasks.withType(Test) {
+    jvmArgs ([
+            '--add-opens=java.base/java.lang=ALL-UNNAMED',
+            '--add-opens=java.base/java.io=ALL-UNNAMED',
+            '--add-opens=java.base/java.nio=ALL-UNNAMED',
+            '--add-opens=java.base/java.nio.file.spi=ALL-UNNAMED',
+            '--add-opens=java.base/java.net=ALL-UNNAMED',
+            '--add-opens=java.base/java.util=ALL-UNNAMED',
+            '--add-opens=java.base/java.util.concurrent.locks=ALL-UNNAMED',
+            '--add-opens=java.base/java.util.concurrent.atomic=ALL-UNNAMED',
+            '--add-opens=java.base/sun.nio.ch=ALL-UNNAMED',
+            '--add-opens=java.base/sun.nio.fs=ALL-UNNAMED',
+            '--add-opens=java.base/sun.net.www.protocol.http=ALL-UNNAMED',
+            '--add-opens=java.base/sun.net.www.protocol.https=ALL-UNNAMED',
+            '--add-opens=java.base/sun.net.www.protocol.ftp=ALL-UNNAMED',
+            '--add-opens=java.base/sun.net.www.protocol.file=ALL-UNNAMED',
+            '--add-opens=java.base/jdk.internal.misc=ALL-UNNAMED',
+    ])
+}

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

@@ -0,0 +1,11 @@
+/*
+ * This file was generated by the Gradle 'init' task.
+ */
+
+plugins {
+    // Apply the common convention plugin for shared build configuration between library and application projects.
+    id 'io.nextflow.groovy-common-conventions'
+    // Apply the java-library plugin for API and implementation separation.
+    id 'java-library'
+}
+

plugins/build.gradle

@@ -96,6 +96,8 @@ subprojects {
                 "sha512sum": "${computeSha512(zip)}"
               }
             """.stripIndent()
+            // cleanup tmp dir
+            file("$buildDir/tmp/makeZip").deleteDir()
         }
         outputs.file("$buildDir/libs/${project.name}-${project.version}.zip")
     }
@@ -139,10 +141,28 @@ subprojects {
         skipExisting = true
     }
 
+    jar {
+        from sourceSets.main.allSource
+        doLast {
+            file("$buildDir/tmp/jar").deleteDir()
+        }
+    }
+
+    tasks.withType(GenerateModuleMetadata) {
+        enabled = false
+    }
+
+    task upload(dependsOn: [uploadPlugin] ) { }
 }
 
+/*
+ * Upload all plugins to the corresponding GitHub repos
+ */
 task upload(dependsOn: [subprojects.uploadPlugin]) { }
 
+/*
+ * Copies the plugins required dependencies in the corresponding lib directory
+ */
 classes.dependsOn subprojects.copyPluginLibs
 
 /*

plugins/nf-hello/build.gradle

@@ -16,18 +16,13 @@
 
 plugins {
     // Apply the groovy plugin to add support for Groovy
-    id 'groovy'
+    id 'io.nextflow.groovy-library-conventions'
     id 'idea'
 }
 
 group = 'io.nextflow'
 // DO NOT SET THE VERSION HERE
 // THE VERSION FOR PLUGINS IS DEFINED IN THE `/resources/META-INF/MANIFEST.NF` file
-java {
-    toolchain {
-        languageVersion = JavaLanguageVersion.of(11)
-    }
-}
 
 idea {
     module.inheritOutputDirs = true

settings.gradle

@@ -15,5 +15,5 @@
  */
 
 rootProject.name = 'nf-hello'
-include 'plugins'
+include('plugins')
 include('plugins:nf-hello')