buildscript {
dependencies {
- classpath 'org.openclover:clover:4.3.1'
- classpath 'org.apache.commons:commons-compress:1.18'
+ classpath 'org.openclover:clover:4.3.1'
+ classpath 'org.apache.commons:commons-compress:1.18'
}
}
def compile_target_compatibility
ext {
- // where the getdown channel will be built.
+ // where the getdown channel will be built.
// TODO: consider allowing this expression to be overrriden by -P arg
getdownWebsiteDir = jalviewDir + '/' + getdown_website_dir + '/' + JAVA_VERSION + '/'
getdownAppDir = getdownWebsiteDir + '/' + getdown_app_dir
def JAVA_INTEGER_VERSION
def additional_compiler_args = []
- // these are getdown.txt properties defined dependent on the JAVA_VERSION
+ // these are getdown.txt properties defined dependent on the JAVA_VERSION
def getdown_alt_java_min_version
// this property is assigned below and expanded to multiple lines in the getdown task
def getdown_alt_multi_java_location
}
clover {
java {
- srcDirs = [ cloverInstrDir ]
- outputDir = file("${buildDir}/${cloverClassesDir}")
+ srcDirs = [ cloverInstrDir ]
+ outputDir = file("${buildDir}/${cloverClassesDir}")
}
-
+
resources {
srcDirs = sourceSets.main.resources.srcDirs
}
runtimeClasspath = compileClasspath
}
-
+
test {
java {
srcDirs "$jalviewDir/$testSourceDir"
srcDirs = sourceSets.main.resources.srcDirs
}
- compileClasspath = files( sourceSets.test.java.outputDir )
+ compileClasspath = files( sourceSets.test.java.outputDir )
if (use_clover) {
compileClasspath += sourceSets.clover.compileClasspath
}
configurations {
- cloverRuntime
- cloverRuntime.extendsFrom cloverCompile
+ cloverRuntime
+ cloverRuntime.extendsFrom cloverCompile
}
eclipse {
}
}
containers 'org.eclipse.buildship.core.gradleclasspathcontainer'
-
+
minusConfigurations += removeThese
plusConfigurations = [ ]
file {
HashMap<String, Boolean> addedSrcPath = new HashMap<>();
cp.entries.each { entry ->
if (entry.kind == 'src') {
- if (addedSrcPath.getAt(entry.path) || !(entry.path == "src" || entry.path == "test" || entry.path == "resources")) {
+ if (addedSrcPath.getAt(entry.path) || !(entry.path == "src" || entry.path == "test")) {
removeTheseToo += entry
} else {
addedSrcPath.putAt(entry.path, true)
}
cp.entries.removeAll(removeTheseToo)
}
-
+
withXml {
def node = it.asNode()
def srcTestAttributes
if (addTestAttribute) {
srcTestAttributes.append(new Node(null, "attribute", [name:"test", value:"true"]))
}
-
+
node.appendNode('classpathentry', [kind:"output", path:"bin/main"])
+ node.appendNode('classpathentry', [kind:"lib", path:helpParentDir])
+ node.appendNode('classpathentry', [kind:"lib", path:resourceDir])
HashMap<String, Boolean> addedLibPath = new HashMap<>();
def allPaths = sourceSets.test.compileClasspath + sourceSets.main.compileClasspath
sourceSets.main.compileClasspath.each{
} else {
//println("Adding entry "+itPath)
node.appendNode('classpathentry', [kind:"lib", path:itPath])
- .appendNode('attributes')
- .appendNode('attribute', [name:"test", value:"true"])
+ .appendNode('attributes')
+ .appendNode('attribute', [name:"test", value:"true"])
addedLibPath.put(itPath, true)
}
}
file {
withProperties { props ->
def jalview_prefs = new Properties()
- def ins = new FileInputStream(eclipse_extra_jdt_prefs_file)
- jalview_prefs.load(ins)
- ins.close()
- jalview_prefs.forEach { t, v ->
- if (props.getAt(t) == null) {
- props.putAt(t, v)
- }
- }
+ def ins = new FileInputStream(eclipse_extra_jdt_prefs_file)
+ jalview_prefs.load(ins)
+ ins.close()
+ jalview_prefs.forEach { t, v ->
+ if (props.getAt(t) == null) {
+ props.putAt(t, v)
+ }
+ }
}
}
}
task cloverInstr() {
// only instrument source, we build test classes as normal
- 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}/${cloverSourcesInstrDir}"]
- argsList.addAll(inputs.files.files.collect({ file ->
- file.absolutePath
- }))
- String[] args = argsList.toArray()
- println("About to instrument "+args.length +" files")
- com.atlassian.clover.CloverInstr.mainImpl(args)
- }
+ inputs.files files (sourceSets.main.allJava) // , fileTree(dir:"$jalviewDir/$testSourceDir", include: ["**/*.java"]))
+ outputs.dir cloverInstrDir
+
+ doFirst {
+ delete cloverInstrDir
+ def argsList = ["--initstring", "${buildDir}/clover/clover.db",
+ "-d", "${buildDir}/${cloverSourcesInstrDir}"]
+ 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)
+ }
}
-
+
task cloverReport {
- group = "Verification"
- description = "Createst the Clover report"
- 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)
-
- // and generate ${reportsDir}/clover/clover.xml
- args = ["--initstring", "${buildDir}/clover/clover.db",
- "-o", "${reportsDir}/clover/clover.xml"].toArray()
- com.atlassian.clover.reporters.xml.XMLReporter.runReport(args)
- }
+ group = "Verification"
+ description = "Createst the Clover report"
+ inputs.dir "${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)
+
+ // and generate ${reportsDir}/clover/clover.xml
+ args = ["--initstring", "${buildDir}/clover/clover.db",
+ "-o", "${reportsDir}/clover/clover.xml"].toArray()
+ com.atlassian.clover.reporters.xml.XMLReporter.runReport(args)
+ }
}
// end clover bits
}
def helpFile = "$classes/$helpDir/help.jhm"
- task syncHelp(type: Sync) {
- inputs.files("$jalviewDir/$helpDir")
- outputs.files(helpFile)
-
- def syncDir = "$classes/$helpDir"
- from fileTree("$jalviewDir/$helpDir")
- into syncDir
- }
task copyHelp(type: Copy) {
- def inputDir = "$jalviewDir/$helpDir"
+ def inputDir = "$jalviewDir/$helpParentDir/$helpDir"
def outputDir = "$classes/$helpDir"
- from inputDir
+ from(inputDir) {
+ exclude '**/*.gif'
+ exclude '**/*.jpg'
+ exclude '**/*.png'
+ filter(ReplaceTokens, beginToken: '$$', endToken: '$$', tokens: ['Version-Rel': JALVIEW_VERSION])
+ }
+ from(inputDir) {
+ include '**/*.gif'
+ include '**/*.jpg'
+ include '**/*.png'
+ }
into outputDir
- filter(ReplaceTokens, beginToken: '$$', endToken: '$$', tokens: ['Version-Rel': "USING_FILTER"])
+
inputs.dir(inputDir)
outputs.files(helpFile)
outputs.dir(outputDir)
dependsOn cloverInstr
}
- print("Running tests " + (use_clover?"WITH":"WITHOUT") + " clover [clover="+use_clover+"]\n")
-
+ print("Running tests " + (use_clover?"WITH":"WITHOUT") + " clover [clover="+use_clover+"]\n")
+
useTestNG() {
includeGroups testngGroups
preserveOrder true
useDefaultListeners=true
}
-
+
workingDir = jalviewDir
//systemProperties 'clover.jar' System.properties.clover.jar
sourceCompatibility = compile_source_compatibility
shadowJar {
dependsOn makeDist
from ("$jalviewDir/$libDistDir") {
- include("*.jar")
+ include("*.jar")
}
mainClassName = shadowJarMainClass
mergeServiceFiles()
def props = project.properties.sort { it.key }
props.put("getdown_txt_java_min_version", getdown_alt_java_min_version)
props.put("getdown_txt_multi_java_location", getdown_alt_multi_java_location)
-
+
props.put("getdown_txt_appbase", getdown_app_base)
props.each{ prop, val ->
if (prop.startsWith("getdown_txt_") && val != null) {
// NOT USING MODULES YET, EVERYTHING SHOULD BE IN dist
/*
- if (JAVA_VERSION.equals("11")) {
- def j11libFiles = fileTree(dir: "$jalviewDir/$j11libDir", include: ["*.jar"]).getFiles()
- j11libFiles.sort().each{f ->
- def line = "code = " + getdown_j11lib_dir + '/' + f.getName() + "\n"
- getdownTextString += line
- copy {
- from f.getPath()
- into project.ext.getdownJ11libDir
- }
- }
- }
- */
+ if (JAVA_VERSION.equals("11")) {
+ def j11libFiles = fileTree(dir: "$jalviewDir/$j11libDir", include: ["*.jar"]).getFiles()
+ j11libFiles.sort().each{f ->
+ def line = "code = " + getdown_j11lib_dir + '/' + f.getName() + "\n"
+ getdownTextString += line
+ copy {
+ from f.getPath()
+ into project.ext.getdownJ11libDir
+ }
+ }
+ }
+ */
getdownTextString += "code = " + file(getdownLauncher).getName() + "\n"
getdownTextString += "class = " + mainClass + "\n"
from jalviewDir + '/' + project.getProperty('getdown_txt_ui.progress_image')
from jalviewDir + '/' + project.getProperty('getdown_txt_ui.icon')
from jalviewDir + '/' + project.getProperty('getdown_txt_ui.mac_dock_icon')
- into project.ext.getdownFilesDir + '/' + getdown_resource_dir
+ into project.ext.getdownFilesDir + '/' + getdown_resource_dir
}
}
def install4jDir = "$jalviewDir/$install4jResourceDir"
def install4jConfFile = "jalview-installers-java"+JAVA_VERSION+".install4j"
install4jConf = "$install4jDir/$install4jConfFile"
-
+
task copyInstall4jTemplate(type: Copy) {
macosJavaVMDir = System.env.HOME+"/buildtools/jre/openjdk-java_vm/getdown/macos-jre"+JAVA_VERSION+"/jre"
macosJavaVMTgz = System.env.HOME+"/buildtools/jre/openjdk-java_vm/install4j/tgz/macos-jre"+JAVA_VERSION+".tar.gz"
dependsOn copyInstall4jTemplate
projectFile = file(install4jConf)
println("Using projectFile "+projectFile)
- variables = [majorVersion: version.substring(2, 11), build: 001]
+ variables = [majorVersion: version.substring(2, 11), build: 001, OSX_KEYSTORE: OSX_KEYSTORE, JSIGN_SH: JSIGN_SH]
destination = "$jalviewDir/$install4jBuildDir/$JAVA_VERSION"
buildSelected = true
+
+ if (OSX_KEYPASS) {
+ macKeystorePassword=OSX_KEYPASS
+
+ }
+
inputs.dir(project.ext.getdownWebsiteDir)
inputs.file(install4jConf)
inputs.dir(macosJavaVMDir)
git://source.jalview.org / jalview.git / commitdiff