X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=build.gradle;h=9987e3baa5159720b9161cdc256e726466d18b6d;hb=refs%2Fheads%2Ffeature%2FJAL-3874_add_source_jars_to_eclipse;hp=48c83a3454ad316eda31c43f7df32ac3f3524d7e;hpb=0ce1f9eeea695483eb2d0e1f7ec82629abf8003f;p=jalview.git diff --git a/build.gradle b/build.gradle index 48c83a3..9987e3b 100644 --- a/build.gradle +++ b/build.gradle @@ -40,7 +40,7 @@ plugins { id 'eclipse' id "com.diffplug.gradle.spotless" version "3.28.0" id 'com.github.johnrengelman.shadow' version '4.0.3' - id 'com.install4j.gradle' version '8.0.4' + id 'com.install4j.gradle' version '8.0.10' id 'com.dorongold.task-tree' version '1.5' // only needed to display task dependency tree with gradle task1 [task2 ...] taskTree id 'com.palantir.git-version' version '0.12.3' } @@ -57,24 +57,13 @@ def string(Object o) { return o == null ? "" : o.toString() } - -ext { - jalviewDirAbsolutePath = file(jalviewDir).getAbsolutePath() - jalviewDirRelativePath = jalviewDir - - // local build environment properties - // can be "projectDir/local.properties" - def localProps = "${projectDir}/local.properties" - def propsFile = null; - if (file(localProps).exists()) { - propsFile = localProps +def overrideProperties(String propsFileName, boolean output = false) { + if (propsFileName == null) { + return } - // or "../projectDir_local.properties" - def dirLocalProps = projectDir.getParent() + "/" + projectDir.getName() + "_local.properties" - if (file(dirLocalProps).exists()) { - propsFile = dirLocalProps - } - if (propsFile != null) { + def propsFile = file(propsFileName) + if (propsFile != null && propsFile.exists()) { + println("Using properties from file '${propsFileName}'") try { def p = new Properties() def localPropsFIS = new FileInputStream(propsFile) @@ -82,18 +71,43 @@ ext { localPropsFIS.close() p.each { key, val -> - def oldval = findProperty(key) - setProperty(key, val) - if (oldval != null) { - println("Overriding property '${key}' ('${oldval}') with ${file(propsFile).getName()} value '${val}'") + def oldval + if (project.hasProperty(key)) { + oldval = project.findProperty(key) + project.setProperty(key, val) + if (output) { + println("Overriding property '${key}' ('${oldval}') with ${file(propsFile).getName()} value '${val}'") + } } else { - println("Setting unknown property '${key}' with ${file(propsFile).getName()}s value '${val}'") + ext.setProperty(key, val) + if (output) { + println("Setting ext property '${key}' with ${file(propsFile).getName()}s value '${val}'") + } } } } catch (Exception e) { - System.out.println("Exception reading local.properties") + println("Exception reading local.properties") + e.printStackTrace() } } +} + +ext { + jalviewDirAbsolutePath = file(jalviewDir).getAbsolutePath() + jalviewDirRelativePath = jalviewDir + + getdownChannelName = CHANNEL.toLowerCase() + // default to "default". Currently only has different cosmetics for "develop", "release", "default" + propertiesChannelName = ["develop", "release", "test-release", "jalviewjs", "jalviewjs-release" ].contains(getdownChannelName) ? getdownChannelName : "default" + // Import channel_properties + channelDir = string("${jalviewDir}/${channel_properties_dir}/${propertiesChannelName}") + channelGradleProperties = string("${channelDir}/channel_gradle.properties") + overrideProperties(channelGradleProperties, false) + // local build environment properties + // can be "projectDir/local.properties" + overrideProperties("${projectDir}/local.properties", true) + // or "../projectDir_local.properties" + overrideProperties(projectDir.getParent() + "/" + projectDir.getName() + "_local.properties", true) //// // Import releaseProps from the RELEASE file @@ -111,7 +125,7 @@ ext { } //// // Set JALVIEW_VERSION if it is not already set - if (findProperty(JALVIEW_VERSION)==null || "".equals(JALVIEW_VERSION)) { + if (findProperty("JALVIEW_VERSION")==null || "".equals(JALVIEW_VERSION)) { JALVIEW_VERSION = releaseProps.get("jalview.version") } @@ -147,6 +161,9 @@ ext { } */ + // datestamp + buildDate = new Date().format("yyyyMMdd") + // essentials bareSourceDir = string(source_dir) sourceDir = string("${jalviewDir}/${bareSourceDir}") @@ -172,21 +189,27 @@ ext { getdownWebsiteDir = string("${jalviewDir}/${getdown_website_dir}/${JAVA_VERSION}") buildDist = true + buildProperties = null // the following values might be overridden by the CHANNEL switch - getdownChannelName = CHANNEL.toLowerCase() getdownDir = string("${getdownChannelName}/${JAVA_VERSION}") getdownAppBase = string("${getdown_channel_base}/${getdownDir}") getdownLauncher = string("${jalviewDir}/${getdown_lib_dir}/${getdown_launcher}") getdownAppDistDir = getdown_app_dir_alt + getdownImagesDir = string("${jalviewDir}/${getdown_images_dir}") + getdownSetAppBaseProperty = false // whether to pass the appbase and appdistdir to the application reportRsyncCommand = false jvlChannelName = CHANNEL.toLowerCase() install4jSuffix = CHANNEL.substring(0, 1).toUpperCase() + CHANNEL.substring(1).toLowerCase(); // BUILD -> Build - install4jDSStore = "DS_Store-NON-RELEASE" - install4jDMGBackgroundImage = "jalview_dmg_background-NON-RELEASE.png" + install4jDMGDSStore = "${install4j_images_dir}/${install4j_dmg_ds_store}" + install4jDMGBackgroundImage = "${install4j_images_dir}/${install4j_dmg_background}" install4jInstallerName = "${jalview_name} Non-Release Installer" - install4jExecutableName = jalview_name.replaceAll("[^\\w]+", "_").toLowerCase() + install4jExecutableName = install4j_executable_name install4jExtraScheme = "jalviewx" + install4jMacIconsFile = string("${install4j_images_dir}/${install4j_mac_icons_file}") + install4jWindowsIconsFile = string("${install4j_images_dir}/${install4j_windows_icons_file}") + install4jPngIconFile = string("${install4j_images_dir}/${install4j_png_icon_file}") + install4jBackground = string("${install4j_images_dir}/${install4j_background}") switch (CHANNEL) { case "BUILD": @@ -202,12 +225,10 @@ ext { install4jExtraScheme = "jalviewb" break - case "RELEASE": + case [ "RELEASE", "JALVIEWJS-RELEASE" ]: getdownAppDistDir = getdown_app_dir_release reportRsyncCommand = true install4jSuffix = "" - install4jDSStore = "DS_Store" - install4jDMGBackgroundImage = "jalview_dmg_background.png" install4jInstallerName = "${jalview_name} Installer" break @@ -245,23 +266,13 @@ ext { case "DEVELOP": reportRsyncCommand = true - + getdownSetAppBaseProperty = true // DEVELOP-RELEASE is usually associated with a Jalview release series so set the version - JALVIEW_VERSION=JALVIEW_VERSION+"-develop" + JALVIEW_VERSION=JALVIEW_VERSION+"-d${buildDate}" - channelPropertiesFile = string("${channel_properties_dir}/develop_properties") - getdownImagesDir = "${getdown_images_dir}/develop" - getdownBgColour = "000000" - getdownFgColour = "FFFFFF" - getdownLightFgColour = "CCCCFF" install4jSuffix = "Develop" - install4jDSStore = "DS_Store-DEVELOP" - install4jDMGBackgroundImage = "jalview_dmg_background-DEVELOP.png" install4jExtraScheme = "jalviewd" install4jInstallerName = "${jalview_name} Develop Installer" - install4jMacIconsFile = string("${install4j_utils_dir}/develop/${install4j_mac_icons_file}") - install4jWindowsIconsFile = string("${install4j_utils_dir}/develop/${install4j_windows_icons_file}") - install4jPngIconFile = string("${install4j_utils_dir}/develop/${install4j_png_icon_file}") break case "TEST-RELEASE": @@ -273,8 +284,6 @@ ext { } JALVIEW_VERSION = JALVIEW_VERSION+"-test" install4jSuffix = "Test" - install4jDSStore = "DS_Store-TEST-RELEASE" - install4jDMGBackgroundImage = "jalview_dmg_background-TEST.png" install4jExtraScheme = "jalviewt" install4jInstallerName = "${jalview_name} Test Installer" break @@ -298,13 +307,11 @@ ext { } JALVIEW_VERSION = "TEST" install4jSuffix = "Test-Local" - install4jDSStore = "DS_Store-TEST-RELEASE" - install4jDMGBackgroundImage = "jalview_dmg_background-TEST.png" install4jExtraScheme = "jalviewt" install4jInstallerName = "${jalview_name} Test Installer" break - case "LOCAL": + case [ "LOCAL", "JALVIEWJS" ]: JALVIEW_VERSION = "TEST" getdownAppBase = file(getdownWebsiteDir).toURI().toString() getdownLauncher = string("${jalviewDir}/${getdown_lib_dir}/${getdown_launcher_local}") @@ -318,7 +325,16 @@ ext { } // override getdownAppBase if requested if (findProperty("getdown_appbase_override") != null) { - getdownAppBase = string(getProperty("getdown_appbase_override")) + // revert to LOCAL if empty string + if (string(getdown_appbase_override) == "") { + getdownAppBase = file(getdownWebsiteDir).toURI().toString() + getdownLauncher = string("${jalviewDir}/${getdown_lib_dir}/${getdown_launcher_local}") + } else if (string(getdown_appbase_override).startsWith("file://")) { + getdownAppBase = string(getdown_appbase_override) + getdownLauncher = string("${jalviewDir}/${getdown_lib_dir}/${getdown_launcher_local}") + } else { + getdownAppBase = string(getdown_appbase_override) + } println("Overriding getdown appbase with '${getdownAppBase}'") } // sanitise file name for jalview launcher file for this channel @@ -354,6 +370,7 @@ ext { .replaceAll("_*-_*", "-") // collapse _-_ .toLowerCase() + getdownWrapperLink = install4jUnixApplicationFolder // e.g. "jalview_local" getdownAppDir = string("${getdownWebsiteDir}/${getdownAppDistDir}") //getdownJ11libDir = "${getdownWebsiteDir}/${getdown_j11lib_dir}" getdownResourceDir = string("${getdownWebsiteDir}/${getdown_resource_dir}") @@ -444,16 +461,18 @@ ext { install4jHomeDir = System.getProperty("user.home") + install4jHomeDir.substring(1) } - resourceBuildDir = string("${buildDir}/resource") - resourcesBuildDir = string("${resourceBuildDir}/resources") - helpBuildDir = string("${resourceBuildDir}/${help_dir}") - docBuildDir = string("${resourceBuildDir}/${doc_dir}") + resourceBuildDir = string("${buildDir}/resources") + resourcesBuildDir = string("${resourceBuildDir}/resources_build") + helpBuildDir = string("${resourceBuildDir}/help_build") + docBuildDir = string("${resourceBuildDir}/doc_build") - buildProperties = string("${resourcesBuildDir}/${build_properties_file}") + if (buildProperties == null) { + buildProperties = string("${resourcesBuildDir}/${build_properties_file}") + } buildingHTML = string("${jalviewDir}/${doc_dir}/building.html") helpParentDir = string("${jalviewDir}/${help_parent_dir}") helpSourceDir = string("${helpParentDir}/${help_dir}") - helpFile = string("${helpBuildDir}/help.jhm") + helpFile = string("${helpBuildDir}/${help_dir}/help.jhm") relativeBuildDir = file(jalviewDirAbsolutePath).toPath().relativize(buildDir.toPath()) @@ -472,6 +491,7 @@ ext { jalviewjsCoreClasslists = [] jalviewjsJalviewTemplateName = string(jalviewjs_name) jalviewjsJ2sSettingsFileName = string("${jalviewDir}/${jalviewjs_j2s_settings}") + jalviewjsJ2sAltSettingsFileName = string("${jalviewDir}/${jalviewjs_j2s_alt_settings}") jalviewjsJ2sProps = null jalviewjsJ2sPlugin = jalviewjs_j2s_plugin @@ -491,13 +511,14 @@ sourceSets { } resources { - srcDirs resourcesBuildDir + srcDirs = [ resourcesBuildDir, docBuildDir, helpBuildDir ] } compileClasspath = files(sourceSets.main.java.outputDir) compileClasspath += fileTree(dir: "${jalviewDir}/${libDir}", include: ["*.jar"]) runtimeClasspath = compileClasspath + runtimeClasspath += files(sourceSets.main.resources.srcDirs) } clover { @@ -534,6 +555,7 @@ sourceSets { compileClasspath += fileTree(dir: "${jalviewDir}/${utils_dir}/testnglibs", include: ["**/*.jar"]) runtimeClasspath = compileClasspath + runtimeClasspath += files(sourceSets.test.resources.srcDirs) } } @@ -606,7 +628,15 @@ eclipse { //println("Not adding duplicate entry "+itPath) } else { //println("Adding entry "+itPath) - cp.entries += new Library(fileReference(itPath)) + def lib = new Library(fileReference(itPath)) + // check for source jar + def sourcePath = file("${j11sourcesDir}/"+it.name.replaceAll(".jar\$","-sources.jar")) + if (sourcePath.exists()) { + def refFactory = eclipse.classpath.getFileReferenceFactory(); + def sourceRef = refFactory.fromFile(sourcePath) + lib.setSourcePath(sourceRef) + } + cp.entries += lib alreadyAddedLibPath.put(itPath, true) } } @@ -634,6 +664,18 @@ eclipse { } // whenMerged + /* + withXml { + xml -> + def node = xml.asNode() + node.classpathentry.forEach { + if (it.@kind == "lib") { + println("LIB "+it.toString()) + } + } + } + */ + } // file containers 'org.eclipse.buildship.core.gradleclasspathcontainer' @@ -1009,20 +1051,6 @@ def getDate(format) { } -clean { - doFirst { - delete buildProperties - } -} - - -task cleanBuildingHTML(type: Delete) { - doFirst { - delete buildingHTML - } -} - - def convertMdToHtml (FileTree mdFiles, File cssFile) { MutableDataSet options = new MutableDataSet() @@ -1096,14 +1124,45 @@ def convertMdToHtml (FileTree mdFiles, File cssFile) { def htmlFilePath = mdFile.getPath().replaceAll(/\..*?$/, ".html") def htmlFile = file(htmlFilePath) + println("Creating ${htmlFilePath}") htmlFile.text = htmlText } } +task copyDocs(type: Copy) { + def inputDir = "${jalviewDir}/${doc_dir}" + def outputDir = "${docBuildDir}/${doc_dir}" + from(inputDir) { + include('**/*.txt') + include('**/*.md') + include('**/*.html') + include('**/*.xml') + filter(ReplaceTokens, + beginToken: '$$', + endToken: '$$', + tokens: [ + 'Version-Rel': JALVIEW_VERSION, + 'Year-Rel': getDate("yyyy") + ] + ) + } + from(inputDir) { + exclude('**/*.txt') + exclude('**/*.md') + exclude('**/*.html') + exclude('**/*.xml') + } + into outputDir + + inputs.dir(inputDir) + outputs.dir(outputDir) +} + + task convertMdFiles { - dependsOn cleanBuildingHTML - def mdFiles = fileTree(dir: "${jalviewDir}/${doc_dir}", include: "*.md") + dependsOn copyDocs + def mdFiles = fileTree(dir: docBuildDir, include: "**/*.md") def cssFile = file("${jalviewDir}/${flexmark_css}") doLast { @@ -1122,33 +1181,16 @@ task convertMdFiles { } -task copyDocs(type: Copy) { - dependsOn convertMdFiles - def syncDir = "${docBuildDir}" - from ("${jalviewDir}/${doc_dir}") { - exclude '**/*.gif' - exclude '**/*.jpg' - exclude '**/*.png' - filter(ReplaceTokens, - beginToken: '$$', - endToken: '$$', - tokens: [ - 'Version-Rel': JALVIEW_VERSION, - 'Year-Rel': getDate("yyyy") - ] - ) - } - into syncDir -} - - task copyHelp(type: Copy) { def inputDir = helpSourceDir - def outputDir = "${helpBuildDir}" + def outputDir = "${helpBuildDir}/${help_dir}" from(inputDir) { - exclude '**/*.gif' - exclude '**/*.jpg' - exclude '**/*.png' + include('**/*.txt') + include('**/*.md') + include('**/*.html') + include('**/*.hs') + include('**/*.xml') + include('**/*.jhm') filter(ReplaceTokens, beginToken: '$$', endToken: '$$', @@ -1159,9 +1201,12 @@ task copyHelp(type: Copy) { ) } from(inputDir) { - include '**/*.gif' - include '**/*.jpg' - include '**/*.png' + exclude('**/*.txt') + exclude('**/*.md') + exclude('**/*.html') + exclude('**/*.hs') + exclude('**/*.xml') + exclude('**/*.jhm') } into outputDir @@ -1172,7 +1217,16 @@ task copyHelp(type: Copy) { task copyResources(type: Copy) { - from(resourceDir) { + group = "build" + description = "Copy (and make text substitutions in) the resources dir to the build area" + + def inputDir = resourceDir + def outputDir = resourcesBuildDir + from(inputDir) { + include('**/*.txt') + include('**/*.md') + include('**/*.html') + include('**/*.xml') filter(ReplaceTokens, beginToken: '$$', endToken: '$$', @@ -1182,13 +1236,31 @@ task copyResources(type: Copy) { ] ) } - include "**/*.*" - into "${resourcesBuildDir}" - //preserve { - // include "**" - //} + from(inputDir) { + exclude('**/*.txt') + exclude('**/*.md') + exclude('**/*.html') + exclude('**/*.xml') + } + into outputDir + + inputs.dir(inputDir) + outputs.dir(outputDir) } +task copyChannelResources(type: Copy) { + dependsOn copyResources + group = "build" + description = "Copy the channel resources dir to the build resources area" + + def inputDir = "${channelDir}/${resource_dir}" + def outputDir = resourcesBuildDir + from inputDir + into outputDir + + inputs.dir(inputDir) + outputs.dir(outputDir) +} task createBuildProperties(type: WriteProperties) { dependsOn copyResources @@ -1197,10 +1269,6 @@ task createBuildProperties(type: WriteProperties) { inputs.dir(sourceDir) inputs.dir(resourcesBuildDir) -//println("MKDIRS "+file(buildProperties).getParentFile().toString()) -// doFirst { -// file(buildProperties).getParentFile().mkdirs() -// } outputFile (buildProperties) // taking time specific comment out to allow better incremental builds comment "--Jalview Build Details--\n"+getDate("yyyy-MM-dd HH:mm:ss") @@ -1208,27 +1276,61 @@ task createBuildProperties(type: WriteProperties) { property "BUILD_DATE", getDate("HH:mm:ss dd MMMM yyyy") property "VERSION", JALVIEW_VERSION property "INSTALLATION", INSTALLATION+" git-commit:"+gitHash+" ["+gitBranch+"]" + if (getdownSetAppBaseProperty) { + property "GETDOWNAPPBASE", getdownAppBase + property "GETDOWNAPPDISTDIR", getdownAppDistDir + } outputs.file(outputFile) } -task prepare { +task buildIndices(type: JavaExec) { + dependsOn copyHelp + classpath = sourceSets.main.compileClasspath + main = "com.sun.java.help.search.Indexer" + workingDir = "${helpBuildDir}/${help_dir}" + def argDir = "html" + args = [ argDir ] + inputs.dir("${workingDir}/${argDir}") + + outputs.dir("${classesDir}/doc") + outputs.dir("${classesDir}/help") + outputs.file("${workingDir}/JavaHelpSearch/DOCS") + outputs.file("${workingDir}/JavaHelpSearch/DOCS.TAB") + outputs.file("${workingDir}/JavaHelpSearch/OFFSETS") + outputs.file("${workingDir}/JavaHelpSearch/POSITIONS") + outputs.file("${workingDir}/JavaHelpSearch/SCHEMA") + outputs.file("${workingDir}/JavaHelpSearch/TMAP") +} + +task buildResources { dependsOn copyResources + dependsOn copyChannelResources + dependsOn createBuildProperties +} + +task prepare { + dependsOn buildResources dependsOn copyDocs dependsOn copyHelp + dependsOn convertMdFiles + dependsOn buildIndices } -jar.dependsOn prepare + + +compileJava.dependsOn prepare +run.dependsOn compileJava +//run.dependsOn prepare //testReportDirName = "test-reports" // note that test workingDir will be $jalviewDir test { dependsOn prepare - //dependsOn compileJava ////? DELETE if (useClover) { dependsOn cloverClasses } else { //? - dependsOn compileJava //? + dependsOn compileJava //? } useTestNG() { @@ -1241,12 +1343,16 @@ test { maxHeapSize = "1024m" workingDir = jalviewDir - //systemProperties 'clover.jar' System.properties.clover.jar def testLaf = project.findProperty("test_laf") if (testLaf != null) { println("Setting Test LaF to '${testLaf}'") systemProperty "laf", testLaf } + def testHiDPIScale = project.findProperty("test_HiDPIScale") + if (testHiDPIScale != null) { + println("Setting Test HiDPI Scale to '${testHiDPIScale}'") + systemProperty "sun.java2d.uiScale", testHiDPIScale + } sourceCompatibility = compile_source_compatibility targetCompatibility = compile_target_compatibility jvmArgs += additional_compiler_args @@ -1259,26 +1365,6 @@ test { } -task buildIndices(type: JavaExec) { - dependsOn copyHelp - classpath = sourceSets.main.compileClasspath - main = "com.sun.java.help.search.Indexer" - workingDir = "${helpBuildDir}" - def argDir = "html" - args = [ argDir ] - inputs.dir("${workingDir}/${argDir}") - - outputs.dir("${classesDir}/doc") - outputs.dir("${classesDir}/help") - outputs.file("${workingDir}/JavaHelpSearch/DOCS") - outputs.file("${workingDir}/JavaHelpSearch/DOCS.TAB") - outputs.file("${workingDir}/JavaHelpSearch/OFFSETS") - outputs.file("${workingDir}/JavaHelpSearch/POSITIONS") - outputs.file("${workingDir}/JavaHelpSearch/SCHEMA") - outputs.file("${workingDir}/JavaHelpSearch/TMAP") -} - - task compileLinkCheck(type: JavaCompile) { options.fork = true classpath = files("${jalviewDir}/${utils_dir}") @@ -1293,31 +1379,31 @@ task compileLinkCheck(type: JavaCompile) { task linkCheck(type: JavaExec) { - dependsOn prepare, compileLinkCheck + dependsOn prepare + dependsOn compileLinkCheck def helpLinksCheckerOutFile = file("${jalviewDir}/${utils_dir}/HelpLinksChecker.out") classpath = files("${jalviewDir}/${utils_dir}") main = "HelpLinksChecker" workingDir = jalviewDir - def helpBuildDir = "${helpBuildDir}" - args = [ helpBuildDir, "-nointernet" ] + args = [ "${helpBuildDir}/${help_dir}", "-nointernet" ] def outFOS = new FileOutputStream(helpLinksCheckerOutFile, false) // false == don't append - def errFOS = outFOS standardOutput = new org.apache.tools.ant.util.TeeOutputStream( outFOS, - standardOutput) + System.out) errorOutput = new org.apache.tools.ant.util.TeeOutputStream( outFOS, - errorOutput) + System.err) inputs.dir(helpBuildDir) outputs.file(helpLinksCheckerOutFile) } + // import the pubhtmlhelp target ant.properties.basedir = "${jalviewDir}" -ant.properties.helpBuildDir = "${jalviewDirAbsolutePath}/${helpBuildDir}" +ant.properties.helpBuildDir = "${helpBuildDir}/${help_dir}" ant.importBuild "${utils_dir}/publishHelp.xml" @@ -1329,9 +1415,8 @@ task cleanPackageDir(type: Delete) { jar { + dependsOn prepare dependsOn linkCheck - dependsOn buildIndices - dependsOn createBuildProperties manifest { attributes "Main-Class": main_class, @@ -1341,7 +1426,8 @@ jar { "Implementation-Version": JALVIEW_VERSION } - destinationDirectory = file("${jalviewDir}/${package_dir}") + def outputDir = "${jalviewDir}/${package_dir}" + destinationDirectory = file(outputDir) archiveFileName = rootProject.name+".jar" exclude "cache*/**" @@ -1350,8 +1436,11 @@ jar { exclude "**/*.jar" exclude "**/*.jar.*" - inputs.dir(classesDir) - outputs.file("${jalviewDir}/${package_dir}/${archiveFileName}") + inputs.dir(sourceSets.main.java.outputDir) + sourceSets.main.resources.srcDirs.each{ dir -> + inputs.dir(dir) + } + outputs.file("${outputDir}/${archiveFileName}") } @@ -1391,6 +1480,7 @@ task cleanDist { dependsOn clean } + shadowJar { group = "distribution" description = "Create a single jar file with all dependency libraries merged. Can be run with java -jar" @@ -1430,7 +1520,7 @@ task getdownWebsite() { copy { from buildProperties - rename(build_properties_file, getdown_build_properties) + rename(file(buildProperties).getName(), getdown_build_properties) into getdownAppDir } getdownWebsiteResourceFilenames += "${getdownAppDistDir}/${getdown_build_properties}" @@ -1446,6 +1536,14 @@ task getdownWebsite() { if (getdownAltMultiJavaLocation != null && getdownAltMultiJavaLocation.length() > 0) { props.put("getdown_txt_multi_java_location", getdownAltMultiJavaLocation) } + if (getdownImagesDir != null && file(getdownImagesDir).exists()) { + props.put("getdown_txt_ui.background_image", "${getdownImagesDir}/${getdown_background_image}") + props.put("getdown_txt_ui.instant_background_image", "${getdownImagesDir}/${getdown_instant_background_image}") + props.put("getdown_txt_ui.error_background", "${getdownImagesDir}/${getdown_error_background}") + props.put("getdown_txt_ui.progress_image", "${getdownImagesDir}/${getdown_progress_image}") + props.put("getdown_txt_ui.icon", "${getdownImagesDir}/${getdown_icon}") + props.put("getdown_txt_ui.mac_dock_icon", "${getdownImagesDir}/${getdown_mac_dock_icon}") + } props.put("getdown_txt_title", jalview_name) props.put("getdown_txt_ui.name", install4jApplicationName) @@ -1494,6 +1592,18 @@ task getdownWebsite() { into getdownResourceDir } } + + def getdownWrapperScripts = [ getdown_bash_wrapper_script, getdown_powershell_wrapper_script, getdown_batch_wrapper_script ] + getdownWrapperScripts.each{ script -> + def s = file( "${jalviewDir}/utils/getdown/${getdown_wrapper_script_dir}/${script}" ) + if (s.exists()) { + copy { + from s + into "${getdownWebsiteDir}/${getdown_wrapper_script_dir}" + } + getdownTextString += "resource = ${getdown_wrapper_script_dir}/${script}\n" + } + } def codeFiles = [] fileTree(file(package_dir)).each{ f -> @@ -1534,6 +1644,11 @@ task getdownWebsite() { //getdownTextString += "class = " + file(getdownLauncher).getName() + "\n" getdownTextString += "resource = ${getdown_launcher_new}\n" getdownTextString += "class = ${main_class}\n" + // Not setting these properties in general so that getdownappbase and getdowndistdir will default to release version in jalview.bin.Cache + if (getdownSetAppBaseProperty) { + getdownTextString += "jvmarg = -Dgetdowndistdir=${getdownAppDistDir}\n" + getdownTextString += "jvmarg = -Dgetdownappbase=${getdownAppBase}\n" + } def getdown_txt = file("${getdownWebsiteDir}/getdown.txt") getdown_txt.write(getdownTextString) @@ -1542,12 +1657,14 @@ task getdownWebsite() { def launchJvl = file("${getdownWebsiteDir}/${getdownLaunchJvl}") launchJvl.write("appbase=${getdownAppBase}") + // files going into the getdown website dir: getdown-launcher.jar copy { from getdownLauncher rename(file(getdownLauncher).getName(), getdown_launcher_new) into getdownWebsiteDir } + // files going into the getdown website dir: getdown-launcher(-local).jar copy { from getdownLauncher if (file(getdownLauncher).getName() != getdown_launcher) { @@ -1556,23 +1673,26 @@ task getdownWebsite() { into getdownWebsiteDir } + // files going into the getdown website dir: ./install dir and files if (! (CHANNEL.startsWith("ARCHIVE") || CHANNEL.startsWith("DEVELOP"))) { copy { from getdown_txt from getdownLauncher - from "${getdownWebsiteDir}/${getdown_build_properties}" + from "${getdownAppDir}/${getdown_build_properties}" if (file(getdownLauncher).getName() != getdown_launcher) { rename(file(getdownLauncher).getName(), getdown_launcher) } into getdownInstallDir } + // and make a copy in the getdown files dir (these are not downloaded by getdown) copy { from getdownInstallDir into getdownFilesInstallDir } } + // files going into the getdown files dir: getdown.txt, getdown-launcher.jar, channel-launch.jvl, build_properties copy { from getdown_txt from launchJvl @@ -1584,6 +1704,7 @@ task getdownWebsite() { into getdownFilesDir } + // and ./resources (not all downloaded by getdown) copy { from getdownResourceDir into "${getdownFilesDir}/${getdown_resource_dir}" @@ -1748,12 +1869,6 @@ task copyInstall4jTemplate { } } - // remove the "Uninstall Old Jalview (optional)" symlink from DMG for non-release DS_Stores - if (! (CHANNEL == "RELEASE" || CHANNEL == "TEST-RELEASE" ) ) { - def symlink = install4jConfigXml.'**'.topLevelFiles.symlink.find { sl -> sl.'@name' == "Uninstall Old Jalview (optional).app" } - symlink.parent().remove(symlink) - } - // write install4j file install4jConfFile.text = XmlUtil.serialize(install4jConfigXml) } @@ -1794,6 +1909,8 @@ task installers(type: com.install4j.gradle.Install4jTask) { 'JALVIEW_APPLICATION_NAME': install4jApplicationName, 'JALVIEW_DIR': "../..", 'OSX_KEYSTORE': OSX_KEYSTORE, + 'OSX_APPLEID': OSX_APPLEID, + 'OSX_ALTOOLPASS': OSX_ALTOOLPASS, 'JSIGN_SH': JSIGN_SH, 'JRE_DIR': getdown_app_dir_java, 'INSTALLER_TEMPLATE_VERSION': install4jTemplateVersion, @@ -1813,8 +1930,12 @@ task installers(type: com.install4j.gradle.Install4jTask) { 'BUNDLE_ID': install4jBundleId, 'INTERNAL_ID': install4jInternalId, 'WINDOWS_APPLICATION_ID': install4jWinApplicationId, - 'MACOS_DS_STORE': install4jDSStore, + 'MACOS_DMG_DS_STORE': install4jDMGDSStore, 'MACOS_DMG_BG_IMAGE': install4jDMGBackgroundImage, + 'WRAPPER_LINK': getdownWrapperLink, + 'BASH_WRAPPER_SCRIPT': getdown_bash_wrapper_script, + 'POWERSHELL_WRAPPER_SCRIPT': getdown_powershell_wrapper_script, + 'WRAPPER_SCRIPT_BIN_DIR': getdown_wrapper_script_dir, 'INSTALLER_NAME': install4jInstallerName, 'INSTALL4J_UTILS_DIR': install4j_utils_dir, 'GETDOWN_WEBSITE_DIR': getdown_website_dir, @@ -1830,6 +1951,11 @@ task installers(type: com.install4j.gradle.Install4jTask) { 'UNIX_APPLICATION_FOLDER': install4jUnixApplicationFolder, 'EXECUTABLE_NAME': install4jExecutableName, 'EXTRA_SCHEME': install4jExtraScheme, + 'MAC_ICONS_FILE': install4jMacIconsFile, + 'WINDOWS_ICONS_FILE': install4jWindowsIconsFile, + 'PNG_ICON_FILE': install4jPngIconFile, + 'BACKGROUND': install4jBackground, + ] //println("INSTALL4J VARIABLES:") @@ -1841,15 +1967,25 @@ task installers(type: com.install4j.gradle.Install4jTask) { if (install4j_faster.equals("true") || CHANNEL.startsWith("LOCAL")) { faster = true disableSigning = true + disableNotarization = true } if (OSX_KEYPASS) { macKeystorePassword = OSX_KEYPASS + } + + if (OSX_ALTOOLPASS) { + appleIdPassword = OSX_ALTOOLPASS + disableNotarization = false + } else { + disableNotarization = true } doFirst { println("Using projectFile "+projectFile) + if (!disableNotarization) { println("Will notarize OSX App DMG") } } + //verbose=true inputs.dir(getdownWebsiteDir) inputs.file(install4jConfFile) @@ -1870,7 +2006,8 @@ spotless { task sourceDist(type: Tar) { group "distribution" description "Create a source .tar.gz file for distribution" - + + dependsOn createBuildProperties dependsOn convertMdFiles def VERSION_UNDERSCORES = JALVIEW_VERSION.replaceAll("\\.", "_") @@ -1958,6 +2095,15 @@ task sourceDist(type: Tar) { // exclude(EXCLUDE_FILES) // exclude(PROCESS_FILES) // } + + from(file(buildProperties).getParent()) { + include(file(buildProperties).getName()) + rename(file(buildProperties).getName(), "build_properties") + filter({ line -> + line.replaceAll("^INSTALLATION=.*\$","INSTALLATION=Source Release"+" git-commit\\\\:"+gitHash+" ["+gitBranch+"]") + }) + } + } @@ -1965,7 +2111,7 @@ task helppages { dependsOn copyHelp dependsOn pubhtmlhelp - inputs.dir("${helpBuildDir}") + inputs.dir("${helpBuildDir}/${help_dir}") outputs.dir("${buildDir}/distributions/${help_dir}") } @@ -1977,6 +2123,33 @@ task j2sSetHeadlessBuild { } +task jalviewjsEnableAltFileProperty(type: WriteProperties) { + group "jalviewjs" + description "Enable the alternative J2S Config file for headless build" + + outputFile = jalviewjsJ2sSettingsFileName + def j2sPropsFile = file(jalviewjsJ2sSettingsFileName) + def j2sProps = new Properties() + if (j2sPropsFile.exists()) { + try { + def j2sPropsFileFIS = new FileInputStream(j2sPropsFile) + j2sProps.load(j2sPropsFileFIS) + j2sPropsFileFIS.close() + + j2sProps.each { prop, val -> + property(prop, val) + } + } catch (Exception e) { + println("Exception reading ${jalviewjsJ2sSettingsFileName}") + e.printStackTrace() + } + } + if (! j2sProps.stringPropertyNames().contains(jalviewjs_j2s_alt_file_property_config)) { + property(jalviewjs_j2s_alt_file_property_config, jalviewjs_j2s_alt_file_property) + } +} + + task jalviewjsSetEclipseWorkspace { def propKey = "jalviewjs_eclipse_workspace" def propVal = null @@ -2189,7 +2362,7 @@ task jalviewjsTransferUnzipAllLibs { task jalviewjsCreateJ2sSettings(type: WriteProperties) { group "JalviewJS" - description "Create the .j2s file from the j2s.* properties" + description "Create the alternative j2s file from the j2s.* properties" jalviewjsJ2sProps = project.properties.findAll { it.key.startsWith("j2s.") }.sort { it.key } def siteDirProperty = "j2s.site.directory" @@ -2208,11 +2381,11 @@ task jalviewjsCreateJ2sSettings(type: WriteProperties) { property(siteDirProperty,"${jalviewDirRelativePath}/${jalviewjsTransferSiteJsDir}") } } - outputFile = jalviewjsJ2sSettingsFileName + outputFile = jalviewjsJ2sAltSettingsFileName if (! IN_ECLIPSE) { inputs.properties(jalviewjsJ2sProps) - outputs.file(jalviewjsJ2sSettingsFileName) + outputs.file(jalviewjsJ2sAltSettingsFileName) } } @@ -2246,7 +2419,9 @@ task jalviewjsSyncAllLibs (type: Sync) { task jalviewjsSyncResources (type: Sync) { - def inputFiles = fileTree(dir: resourceDir) + dependsOn buildResources + + def inputFiles = fileTree(dir: resourcesBuildDir) def outputDir = "${jalviewDir}/${jalviewjsSiteDir}/${jalviewjs_j2s_subdir}" from inputFiles @@ -2328,6 +2503,7 @@ task jalviewjsProjectImport(type: Exec) { args += [ "--launcher.appendVmargs", "-vmargs", "-Dorg.eclipse.equinox.p2.reconciler.dropins.directory=${jalviewDirAbsolutePath}/${jalviewjsBuildDir}/${jalviewjs_eclipse_tmp_dropins_dir}" ] if (!IN_ECLIPSE) { args += [ "-D${j2sHeadlessBuildProperty}=true" ] + args += [ "-D${jalviewjs_j2s_alt_file_property}=${jalviewjsJ2sAltSettingsFileName}" ] } inputs.file("${jalviewDir}/.project") @@ -2341,6 +2517,9 @@ task jalviewjsTranspile(type: Exec) { dependsOn jalviewjsEclipseSetup dependsOn jalviewjsProjectImport dependsOn jalviewjsEclipsePaths + if (!IN_ECLIPSE) { + dependsOn jalviewjsEnableAltFileProperty + } doFirst { // do not run a headless transpile when we claim to be in Eclipse @@ -2360,6 +2539,7 @@ task jalviewjsTranspile(type: Exec) { args += [ "--launcher.appendVmargs", "-vmargs", "-Dorg.eclipse.equinox.p2.reconciler.dropins.directory=${jalviewDirAbsolutePath}/${jalviewjsBuildDir}/${jalviewjs_eclipse_tmp_dropins_dir}" ] if (!IN_ECLIPSE) { args += [ "-D${j2sHeadlessBuildProperty}=true" ] + args += [ "-D${jalviewjs_j2s_alt_file_property}=${jalviewjsJ2sAltSettingsFileName}" ] } def stdout @@ -2387,12 +2567,12 @@ DEBUG: ${eclipseDebug} new org.apache.tools.ant.util.TeeOutputStream( logOutFOS, stdout), - standardOutput) + System.out) errorOutput = new org.apache.tools.ant.util.TeeOutputStream( new org.apache.tools.ant.util.TeeOutputStream( logErrFOS, stderr), - errorOutput) + System.err) } else { standardOutput = new org.apache.tools.ant.util.TeeOutputStream( logOutFOS, @@ -2787,7 +2967,13 @@ task jalviewjsServer { def htmlFile = "${jalviewDirAbsolutePath}/${filename}" doLast { - SimpleHttpFileServerFactory factory = new SimpleHttpFileServerFactory() + def factory + try { + def f = Class.forName("org.gradle.plugins.javascript.envjs.http.simple.SimpleHttpFileServerFactory") + factory = f.newInstance() + } catch (ClassNotFoundException e) { + throw new GradleException("Unable to create SimpleHttpFileServerFactory") + } def port = Integer.valueOf(jalviewjs_server_port) def start = port def running = false @@ -2840,7 +3026,7 @@ task cleanJalviewjsAll { if (eclipseWorkspace != null && file(eclipseWorkspace.getAbsolutePath()+"/.metadata").exists()) { delete file(eclipseWorkspace.getAbsolutePath()+"/.metadata") } - delete "${jalviewDir}/${jalviewjs_j2s_settings}" + delete jalviewjsJ2sAltSettingsFileName } outputs.upToDateWhen( { false } )