From f2b2d87b1b8235ff9f8da33238e8e4d1a64efb93 Mon Sep 17 00:00:00 2001
From: Jim Procter <jprocter@issues.jalview.org>
Date: Fri, 12 Apr 2019 16:06:54 +0100
Subject: [PATCH] JAL-3130 gradle test now runs open clover 4.3.1 and new
 cloverReport task

---
 build.gradle |  124 ++++++++++++++++++++++++++++++++++++++++++++++++++++------
 1 file changed, 111 insertions(+), 13 deletions(-)

diff --git a/build.gradle b/build.gradle
index d4140bd..c6f86d6 100644
--- a/build.gradle
+++ b/build.gradle
@@ -4,7 +4,7 @@ import org.gradle.internal.os.OperatingSystem
 
 buildscript {
   dependencies {
-    //classpath files("$gradlePluginsDir/gradle-macappbundle-2.3.0-patched-2.3.0.jar")
+        classpath 'org.openclover:clover:4.3.1'
   }
 }
 
@@ -18,12 +18,14 @@ plugins {
 repositories {
   jcenter()
   mavenCentral()
+  mavenLocal()
   flatDir {
     dirs gradlePluginsDir
   }
 }
 
 mainClassName = launcherClass
+def cloverInstrDir = file("$buildDir/sources-instr")
 
 sourceSets {
 
@@ -50,9 +52,35 @@ sourceSets {
     runtimeClasspath = compileClasspath
   }
 
+  modules {
+    compileClasspath = fileTree(dir: "$jalviewDir/$j11libDir", include: ["*.jar"])
+
+    runtimeClasspath = compileClasspath
+  }
+  
+  clover {
+    java {
+        srcDirs = [ cloverInstrDir ]
+        outputDir = file("$jalviewDir/$testOutputDir")
+    }
+    
+    resources {
+      srcDirs = sourceSets.main.resources.srcDirs
+    }
+    compileClasspath = configurations.cloverRuntime + files( sourceSets.clover.java.outputDir )
+    compileClasspath += fileTree(dir: "$jalviewDir/$utilsDir", include: ["**/*.jar"])
+    compileClasspath += fileTree(dir: "$jalviewDir/$libDir", include: ["*.jar"])
+    if (JAVA_VERSION.equals("1.8")) {
+      print("ADDING J11LIBS TO CLASSPATH")
+      compileClasspath += fileTree(dir: "$jalviewDir/$j11libDir", include: ["*.jar"])
+    }
+
+    runtimeClasspath = compileClasspath
+  }
+  
   test {
     java {
-      srcDirs "$jalviewDir/$testSourceDir"
+      srcDirs = [ cloverInstrDir ]
       outputDir = file("$jalviewDir/$testOutputDir")
     }
 
@@ -60,21 +88,66 @@ sourceSets {
       srcDirs = sourceSets.main.resources.srcDirs
     }
 
-    compileClasspath = sourceSets.main.compileClasspath
-    compileClasspath += files( sourceSets.test.java.outputDir )
+
+    compileClasspath += configurations.cloverRuntime + files( sourceSets.test.java.outputDir )
     compileClasspath += fileTree(dir: "$jalviewDir/$utilsDir", include: ["**/*.jar"])
+    compileClasspath += fileTree(dir: "$jalviewDir/$libDir", include: ["*.jar"])
+    if (JAVA_VERSION.equals("1.8")) {
+      print("ADDING J11LIBS TO CLASSPATH")
+      compileClasspath += fileTree(dir: "$jalviewDir/$j11libDir", include: ["*.jar"])
+    }
 
     runtimeClasspath = compileClasspath
   }
+}
 
-  modules {
-    compileClasspath = fileTree(dir: "$jalviewDir/$j11libDir", include: ["*.jar"])
+// clover bits
+dependencies {
+  cloverCompile 'org.openclover:clover:4.3.1'
+  testCompile 'org.openclover:clover:4.3.1'
+}
 
-    runtimeClasspath = compileClasspath
-  }
+configurations {
+    cloverRuntime
+    cloverRuntime.extendsFrom cloverCompile
+}
+ 
+task cloverInstr() {
+    inputs.files files (sourceSets.main.allJava, fileTree(dir:"$jalviewDir/$testSourceDir", include: ["**/*.java"]))
+    outputs.dir cloverInstrDir
 
+    doFirst {
+        delete cloverInstrDir
+        def argsList = ["--initstring", "${buildDir}/clover/clover.db",
+                        "-d", "${buildDir}/sources-instr"]
+        argsList.addAll(inputs.files.files.collect({ file ->
+            file.absolutePath
+        }))
+        String[] args = argsList.toArray()
+        println("About to instrument "+args.length +" files")
+        com.atlassian.clover.CloverInstr.mainImpl(args)
+    }
 }
 
+test.dependsOn cloverInstr
+ 
+task cloverReport {
+    inputs.dir "${buildDir}/clover"
+    outputs.dir "${reportsDir}/clover"
+    onlyIf {
+        file("${buildDir}/clover/clover.db").exists()
+    }
+    doFirst {
+        def argsList = ["--initstring", "${buildDir}/clover/clover.db",
+                        "-o", "${reportsDir}/clover"]
+        String[] args = argsList.toArray()
+        com.atlassian.clover.reporters.html.HtmlReporter.runReport(args)
+    }
+}
+
+// end clover bits
+
+
 compileJava {
 
   doFirst {
@@ -112,8 +185,29 @@ compileTestJava {
     }
     print ("Setting target compatibility to "+targetCompatibility+"\n")
   }
-
-}
+  classpath += configurations.cloverRuntime
+}
+
+
+//compileCloverJava {
+//
+//  doFirst {
+//    if (JAVA_VERSION.equals("1.8")) {
+//      sourceCompatibility = 1.8
+//      targetCompatibility = 1.8
+//    } else if (JAVA_VERSION.equals("11")) {
+//      sourceCompatibility = 11
+//      targetCompatibility = 11
+//
+//      options.compilerArgs += [
+//        '--module-path', sourceSets.modules.compileClasspath.asPath,
+//        '--add-modules', j11modules
+//      ]
+//    }
+//    print ("Setting target compatibility to "+targetCompatibility+"\n")
+//  }
+//  classpath += configurations.cloverRuntime
+//}
 
 clean {
   delete sourceSets.main.java.outputDir
@@ -121,6 +215,7 @@ clean {
 
 cleanTest {
   delete sourceSets.test.java.outputDir
+  delete cloverInstrDir
 }
 
 def getDate(format) {
@@ -213,12 +308,14 @@ task prepare {
   dependsOn copyHelp
 }
 
+
 //testReportDirName = "test-reports" // note that test workingDir will be $jalviewDir
 test {
   dependsOn prepare
-  dependsOn compileJava
-  dependsOn compileTestJava
-  useTestNG {
+  
+  
+  useTestNG()
+  options {
     includeGroups testngGroups
     preserveOrder true
   }
@@ -530,3 +627,4 @@ task installers(type: com.install4j.gradle.Install4jTask) {
   inputs.dir(project.ext.getdownWebsiteDir)
   outputs.dir("$jalviewDir/$install4jBuildDir")
 }
+
-- 
1.7.10.2