File: fix_debian_build.patch

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Description: patching build.gradle to perform a build with Debian packages
Author: Olivier Sallou <osallou@debian.org>
Forwarded: not-needed
Last-Update: 2022-05-25

--- a/build.gradle
+++ b/build.gradle
@@ -1,25 +1,30 @@
 plugins {
-    id "java-library"
+    id 'java'
     id 'maven-publish'
     id 'signing'
-    id 'jacoco'
-    id 'com.palantir.git-version' version '0.5.1' //version helper
 }
 
 wrapper {
     gradleVersion = '8.12'
 }
 
-java {
-    toolchain {
-        languageVersion = JavaLanguageVersion.of(21)
-    }
-}
+sourceCompatibility = 1.21
+targetCompatibility = 1.21
 
 group = 'org.broadinstitute'
 
 final isRelease = Boolean.getBoolean("release")
-version = (isRelease ? gitVersion() : gitVersion() + "-SNAPSHOT").replaceAll(".dirty", "")
+def getDebianVersion() {
+    def dpkgStdOut = new ByteArrayOutputStream()
+    exec {
+        commandLine "dpkg-parsechangelog", "-S", "Version"
+        standardOutput = dpkgStdOut
+    }
+    return dpkgStdOut.toString().trim().replaceFirst(/(-gradle)?([+]dfsg[.0-9]*)?-[^-]+$/, "")
+}
+
+version = getDebianVersion()
+//version = (isRelease ? gitVersion() : gitVersion() + "-SNAPSHOT").replaceAll(".dirty", "")
 
 repositories {
     mavenCentral()
@@ -30,38 +35,25 @@
     mavenLocal()
 }
 
-jacocoTestReport {
-    getAdditionalSourceDirs().from(sourceSets.main.allJava.srcDirs)
-
-    dependsOn test
-    group = "Reporting"
-    description = "Generate Jacoco coverage reports after running tests."
-
-    reports {
-        xml.required = true // codecov plugin depends on xml format report
-        html.required = true
-    }
-}
-
 compileJava {
-    options.compilerArgs = ['-proc:none', '-Xlint:all','-Werror','-Xdiags:verbose']
+    options.compilerArgs = ['-proc:none', '-Xlint:all','-Xdiags:verbose', '-source', '21', '-target', '21']
 }
 
 compileTestJava {
-    options.compilerArgs = ['-proc:none', '-Xlint:all','-Werror','-Xdiags:verbose']
+    options.compilerArgs = ['-proc:none', '-Xlint:all','-Xdiags:verbose', '-source', '21', '-target', '21']
 }
 
 dependencies {
-    api 'net.sf.jopt-simple:jopt-simple:5.0.3'
-    api 'com.google.code.gson:gson:2.8.9'
-    api 'org.freemarker:freemarker:2.3.30'
+    implementation 'net.sf.jopt-simple:jopt-simple:5.0.3'
+    implementation 'com.google.code.gson:gson:2.8.9'
+    implementation 'org.freemarker:freemarker:2.3.30'
 
     implementation 'org.apache.commons:commons-lang3:3.4'
     implementation 'org.apache.logging.log4j:log4j-api:2.17.1'
     runtimeOnly 'org.apache.logging.log4j:log4j-core:2.17.1'
 
     testImplementation 'commons-io:commons-io:2.11.0'
-    testImplementation 'org.testng:testng:7.7.0'
+    testImplementation 'org.testng:testng:debian'
     testImplementation 'org.mockito:mockito-core:4.6.1'
 }
 
@@ -94,19 +86,18 @@
 
 }
 
-tasks.register('javadocJar', Jar) {
-    dependsOn javadoc
-    archiveClassifier = 'javadoc'
+task javadocJar(type: Jar, dependsOn: javadoc) {
+    classifier = 'javadoc'
     from 'build/docs/javadoc'
 }
 
-tasks.register('sourcesJar', Jar) {
+task sourcesJar(type: Jar) {
     from sourceSets.main.allSource
-    archiveClassifier = 'sources'
+    classifier = 'sources'
 }
 
 // This is a hack to disable the default javadoc lint until we fix the html formatting
-tasks.withType(Javadoc).configureEach {
+tasks.withType(Javadoc) {
     options.addStringOption('Xdoclint:none', '-quiet')
 }
 
@@ -119,14 +110,6 @@
     archives sourcesJar
 }
 
-/**
- * Sign non-snapshot releases with our secret key.  This should never need to be invoked directly.
- */
-signing {
-    required = (isRelease && gradle.taskGraph.hasTask("publish"))
-    sign publishing.publications
-}
-
 def basePomConfiguration = {
     packaging = 'jar'
     description = 'Barclay command line parsing and documentation utilities'
@@ -155,35 +138,3 @@
     }
 }
 
-/**
- * Upload a release to sonatype.  You must be an authorized uploader and have your sonatype
- * username and password information in your gradle properties file.  See the readme for more info.
- *
- * For releasing to your local maven repo, use gradle publishToMavenLocal
- */
-publishing {
-    publications {
-        barclay(MavenPublication) {
-            from components.java
-            artifactId = "barclay"
-            pom basePomConfiguration
-            pom.name = "Barclay"
-
-            artifact javadocJar
-            artifact sourcesJar
-        }
-    }
-
-    repositories {
-        maven {
-            name = isRelease ? "SonaType" : "Artifactory"
-            url =  isRelease ? "https://oss.sonatype.org/service/local/staging/deploy/maven2/" : "https://broadinstitute.jfrog.io/broadinstitute/libs-snapshot-local/"
-            credentials {
-                username = isRelease ? project.findProperty("sonatypeUsername") : System.env.ARTIFACTORY_USERNAME
-                password = isRelease ? project.findProperty("sonatypePassword") : System.env.ARTIFACTORY_PASSWORD
-            }
-        }
-    }
-}
-
-