def compile_source_compatibility
def compile_target_compatibility
+
ext {
getdownWebsiteDir = "${jalviewDir}/${getdown_website_dir}/${JAVA_VERSION}"
getdownDir = ""
throw new GradleException("JAVA_VERSION=${JAVA_VERSION} not currently supported by Jalview")
}
+
sourceSets {
main {
}
}
+
// clover bits
dependencies {
if (use_clover) {
}
}
+
configurations {
cloverRuntime
cloverRuntime.extendsFrom cloverCompile
}
+
eclipse {
project {
name = eclipse_project_name
}
//fileTree(dir: "$jalviewDir/$utilsDir", include: ["test*/*.jar"]).each {
- sourceSets.test.compileClasspath.findAll { it.name.endsWith(".jar") }.each {
+ sourceSets.test.compileClasspath.findAll { it.name.endsWith(".jar") }.any {
//no longer want to add outputDir as eclipse is using its own output dir in bin/main
if (it.isDirectory() || ! it.exists()) {
// don't add dirs to classpath
- return false // groovy "break" in .each closure
+ return false // groovy "continue" in .any closure
}
+
def itPath = it.toString()
if (itPath.startsWith("${jalviewDirAbsolutePath}/")) {
itPath = itPath.substring(jalviewDirAbsolutePath.length()+1)
}
+
task cloverInstr() {
// only instrument source, we build test classes as normal
inputs.files files (sourceSets.main.allJava) // , fileTree(dir:"$jalviewDir/$testSourceDir", include: ["**/*.java"]))
com.atlassian.clover.reporters.xml.XMLReporter.runReport(args)
}
}
-
// end clover bits
}
+
compileTestJava {
if (use_clover) {
dependsOn compileCloverJava
classpath += configurations.cloverRuntime
}
+
clean {
doFirst {
delete sourceSets.main.java.outputDir
}
}
+
cleanTest {
doFirst {
delete sourceSets.test.java.outputDir
}
}
+
// format is a string like date.format("dd MMMM yyyy")
def getDate(format) {
def date = new Date()
return date.format(format)
}
+
task setGitVals {
def hashStdOut = new ByteArrayOutputStream()
exec {
outputs.upToDateWhen { false }
}
+
task createBuildProperties(type: WriteProperties) {
dependsOn setGitVals
inputs.dir("${jalviewDir}/${sourceDir}")
outputs.file(outputFile)
}
+
def buildingHTML = "${jalviewDir}/${docDir}/building.html"
task cleanBuildingHTML(type: Delete) {
doFirst {
}
}
+
task convertBuildingMD(type: Exec) {
dependsOn cleanBuildingHTML
def buildingMD = "${jalviewDir}/${docDir}/building.md"
outputs.file(buildingHTML)
}
+
clean {
doFirst {
delete buildingHTML
}
}
+
task syncDocs(type: Sync) {
dependsOn convertBuildingMD
def syncDir = "${classes}/${docDir}"
}
-def helpFile = "${classes}/${helpDir}/help.jhm"
+def helpFile = "${classes}/${helpDir}/help.jhm"
task copyHelp(type: Copy) {
def inputDir = "${jalviewDir}/${helpParentDir}/${helpDir}"
def outputDir = "${classes}/${helpDir}"
outputs.dir(outputDir)
}
+
task syncLib(type: Sync) {
def syncDir = "${classes}/${libDistDir}"
from fileTree("${jalviewDir}/${libDistDir}")
into syncDir
}
+
task syncResources(type: Sync) {
from "${jalviewDir}/${resourceDir}"
include "**/*.*"
}
}
+
task prepare {
dependsOn syncResources
dependsOn syncDocs
}
+
task buildIndices(type: JavaExec) {
dependsOn copyHelp
classpath = sourceSets.main.compileClasspath
outputs.file("${workingDir}/JavaHelpSearch/TMAP")
}
+
task compileLinkCheck(type: JavaCompile) {
options.fork = true
classpath = files("${jalviewDir}/${utilsDir}")
outputs.file("${jalviewDir}/${utilsDir}/BufferedLineReader.class")
}
+
task linkCheck(type: JavaExec) {
dependsOn prepare, compileLinkCheck
outputs.file("${jalviewDir}/${packageDir}/${archiveName}")
}
+
task copyJars(type: Copy) {
from fileTree(dir: "${classes}", include: "**/*.jar").files
into "${jalviewDir}/${packageDir}"
}
+
// doing a Sync instead of Copy as Copy doesn't deal with "outputs" very well
task syncJars(type: Sync) {
from fileTree(dir: "${jalviewDir}/${libDistDir}", include: "**/*.jar").files
}
}
+
task makeDist {
group = "build"
description = "Put all required libraries in dist"
outputs.dir("${jalviewDir}/${packageDir}")
}
+
task cleanDist {
dependsOn cleanPackageDir
dependsOn cleanTest
minimize()
}
+
task getdownWebsite() {
group = "distribution"
description = "Create the getdown minimal app folder, and website folder for this version of jalview. Website folder also used for offline app installer"
outputs.dir(project.ext.getdownFilesDir)
}
+
task getdownDigest(type: JavaExec) {
group = "distribution"
description = "Digest the getdown website folder"
outputs.file("${project.ext.getdownWebsiteDir}/digest2.txt")
}
+
task getdown() {
group = "distribution"
description = "Create the minimal and full getdown app folder for installers and website and create digest file"
}
}
+
clean {
doFirst {
delete project.ext.getdownWebsiteDir
}
}
+
install4j {
def install4jHomeDir = "/opt/install4j"
def hostname = "hostname".execute().text.trim()
}
}
+
def install4jConf
def macosJavaVMDir
def macosJavaVMTgz
}
}
+
task installers(type: com.install4j.gradle.Install4jTask) {
group = "distribution"
description = "Create the install4j installers"
outputs.dir("${jalviewDir}/${install4jBuildDir}/${JAVA_VERSION}")
}
+
clean {
doFirst {
delete install4jConf
}
}
+
task sourceDist (type: Tar) {
def VERSION_UNDERSCORES = JALVIEW_VERSION.replaceAll("\\.", "_")
// }
}
+
task helppages {
dependsOn copyHelp
dependsOn pubhtmlhelp
outputs.dir("${helpOutputDir}")
}
+
def jalviewjsBuildDir
def jalviewjsSiteDir
def jalviewjsTransferSiteJsDir
def jalviewjsTransferSiteLibDir
+def jalviewjsTransferSiteSwingJsDir
def jalviewjsTransferSiteCoreDir
task jalviewjsSitePath {
def relativeBuildDir = file(jalviewDirAbsolutePath).toPath().relativize(buildDir.toPath())
jalviewjsSiteDir = "${jalviewjsBuildDir}/${jalviewjs_site_dir}"
jalviewjsTransferSiteJsDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_js"
jalviewjsTransferSiteLibDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_lib"
+ jalviewjsTransferSiteSwingJsDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_swingjs"
jalviewjsTransferSiteCoreDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_core"
}
+
def eclipseWorkspace
task jalviewjsSetEclipseWorkspace {
def propKey = "jalviewjs_eclipse_workspace"
}
}
+
task eclipseSetup {
dependsOn eclipseProject
dependsOn eclipseClasspath
dependsOn eclipseJdt
}
+
// this version (type: Copy) will delete anything in the eclipse dropins folder that isn't in fromDropinsDir
task jalviewjsEclipseCopyDropins(type: Copy) {
dependsOn jalviewjsEclipsePaths
into outputDir
}
+
// this eclipse -clean doesn't actually work
task jalviewjsCleanEclipse(type: Exec) {
dependsOn eclipseSetup
def inputByteStream = new ByteArrayInputStream(inputString.getBytes())
standardInput = inputByteStream
}
+
/* not really working yet
jalviewjsEclipseCopyDropins.finalizedBy jalviewjsCleanEclipse
*/
-def jalviewjsTransferSiteUnzipDir
+
+task jalviewjsTransferUnzipSwingJs {
+ dependsOn jalviewjsSitePath
+
+ def file_zip = "${jalviewDir}/${jalviewjs_swingjs_zip}"
+
+ doLast {
+ copy {
+ from zipTree(file_zip)
+ into "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}"
+ }
+ }
+
+ inputs.file file_zip
+ outputs.dir "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}"
+}
+
+
task jalviewjsTransferUnzipLib {
dependsOn jalviewjsSitePath
def zipFiles = fileTree(dir: "${jalviewDir}/${jalviewjs_libjs_dir}", include: "*.zip")
- zipFiles += "${jalviewDir}/${jalviewjs_swingjs_zip}"
doLast {
zipFiles.each { file_zip ->
outputs.dir "${jalviewDir}/${jalviewjsTransferSiteLibDir}"
}
+
+task jalviewjsTransferUnzipAllLibs {
+ dependsOn jalviewjsTransferUnzipSwingJs
+ dependsOn jalviewjsTransferUnzipLib
+}
+
+
task jalviewjsCreateJ2sSettings(type: WriteProperties) {
group "JalviewJS"
description "Create the .j2s file from the j2s.* properties"
outputs.file(outputFile)
}
+
task jalviewjsEclipseSetup {
dependsOn jalviewjsEclipseCopyDropins
dependsOn jalviewjsSetEclipseWorkspace
dependsOn jalviewjsCreateJ2sSettings
}
-task jalviewjsSyncLib (type: Sync) {
+
+task jalviewjsSyncAllLibs (type: Sync) {
dependsOn jalviewjsSitePath
- dependsOn jalviewjsTransferUnzipLib
+ dependsOn jalviewjsTransferUnzipAllLibs
def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteLibDir}")
+ inputFiles += fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}")
def outputDir = "${jalviewDir}/${jalviewjsSiteDir}"
from inputFiles
inputs.files inputFiles
}
-task jalviewjsSyncCore (type: Sync) {
- dependsOn jalviewjsSitePath
- dependsOn "jalviewjsBuildAllCores"
- def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteCoreDir}")
- def outputDir = "${jalviewDir}/${jalviewjsSiteDir}"
-
- from inputFiles
- into outputDir
- def outputFiles = []
- rename { filename ->
- outputFiles += "${outputDir}/${filename}"
- null
- }
- preserve {
- include "**"
- }
- outputs.files outputFiles
- inputs.files inputFiles
-}
task jalviewjsSyncResources (type: Sync) {
dependsOn jalviewjsSitePath
inputs.files inputFiles
}
+
task jalviewjsSyncSiteResources (type: Sync) {
dependsOn jalviewjsSitePath
def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjs_site_resource_dir}")
inputs.files inputFiles
}
+
task jalviewjsSyncBuildProperties (type: Sync) {
dependsOn jalviewjsSitePath
dependsOn createBuildProperties
inputs.files inputFiles
}
+
task jalviewjsProjectImport(type: Exec) {
dependsOn eclipseSetup
dependsOn jalviewjsEclipsePaths
}
}
+
task jalviewjsTranspile(type: Exec) {
dependsOn jalviewjsEclipseSetup
dependsOn jalviewjsProjectImport
outputs.upToDateWhen( { file("${jalviewDir}/${jalviewjsTransferSiteJsDir}${jalviewjs_server_resource}").exists() } )
}
+
+task jalviewjsNoTranspileSyncCore (type: Sync) {
+ dependsOn jalviewjsSitePath
+ dependsOn "jalviewjsNoTranspileBuildAllCores"
+ def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteCoreDir}")
+ def outputDir = "${jalviewDir}/${jalviewjsSiteDir}"
+
+ from inputFiles
+ into outputDir
+ def outputFiles = []
+ rename { filename ->
+ outputFiles += "${outputDir}/${filename}"
+ null
+ }
+ preserve {
+ include "**"
+ }
+ outputs.files outputFiles
+ inputs.files inputFiles
+}
+
+
+task jalviewjsSyncCore (type: Sync) {
+ dependsOn jalviewjsTranspile
+ dependsOn jalviewjsNoTranspileSyncCore
+ dependsOn "jalviewjsBuildAllCores"
+}
+
+
// this Copy version of TransferSiteJs will delete anything else in the target dir
task jalviewjsCopyTransferSiteJs(type: Copy) {
dependsOn jalviewjsTranspile
into "${jalviewDir}/${jalviewjsSiteDir}"
}
+
// this Sync version of TransferSite is used by buildship to keep the website automatically up to date when a file changes
-task jalviewjsSyncTransferSiteJs(type: Sync) {
+task jalviewjsNoTranspileSyncTransferSiteJs(type: Sync) {
from "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
include "**/*.*"
into "${jalviewDir}/${jalviewjsSiteDir}"
}
}
-jalviewjsSyncLib.mustRunAfter jalviewjsCopyTransferSiteJs
+jalviewjsSyncAllLibs.mustRunAfter jalviewjsCopyTransferSiteJs
jalviewjsSyncResources.mustRunAfter jalviewjsCopyTransferSiteJs
jalviewjsSyncSiteResources.mustRunAfter jalviewjsCopyTransferSiteJs
jalviewjsSyncBuildProperties.mustRunAfter jalviewjsCopyTransferSiteJs
-jalviewjsSyncLib.mustRunAfter jalviewjsSyncTransferSiteJs
-jalviewjsSyncResources.mustRunAfter jalviewjsSyncTransferSiteJs
-jalviewjsSyncSiteResources.mustRunAfter jalviewjsSyncTransferSiteJs
-jalviewjsSyncBuildProperties.mustRunAfter jalviewjsSyncTransferSiteJs
+jalviewjsSyncAllLibs.mustRunAfter jalviewjsNoTranspileSyncTransferSiteJs
+jalviewjsSyncResources.mustRunAfter jalviewjsNoTranspileSyncTransferSiteJs
+jalviewjsSyncSiteResources.mustRunAfter jalviewjsNoTranspileSyncTransferSiteJs
+jalviewjsSyncBuildProperties.mustRunAfter jalviewjsNoTranspileSyncTransferSiteJs
+
+
+task jalviewjsNoTranspilePrepareSite {
+ dependsOn jalviewjsSyncAllLibs
+ dependsOn jalviewjsSyncResources
+ dependsOn jalviewjsSyncSiteResources
+ dependsOn jalviewjsSyncBuildProperties
+ dependsOn jalviewjsNoTranspileSyncCore
+}
+
task jalviewjsPrepareSite {
group "JalviewJS"
description "Prepares the website folder including unzipping files and copying resources"
- dependsOn jalviewjsSyncLib
+ dependsOn jalviewjsSyncAllLibs
dependsOn jalviewjsSyncResources
dependsOn jalviewjsSyncSiteResources
dependsOn jalviewjsSyncBuildProperties
dependsOn jalviewjsSyncCore
}
+
task jalviewjsBuildSite {
group "JalviewJS"
description "Builds the whole website including transpiled code"
dependsOn jalviewjsPrepareSite
}
+
task cleanJalviewjsSite {
doFirst {
delete "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
delete "${jalviewDir}/${jalviewjsTransferSiteLibDir}"
+ delete "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}"
delete "${jalviewDir}/${jalviewjsTransferSiteCoreDir}"
delete "${jalviewDir}/${jalviewjsSiteDir}"
}
}
+
task jalviewjsSiteTar(type: Tar) {
group "JalviewJS"
description "Creates a tar.gz file for the website"
inputs.dir("${jalviewDir}/${jalviewjsSiteDir}")
}
+
task jalviewjsServer {
group "JalviewJS"
def filename = "jalviewjsTest.html"
outputs.upToDateWhen({false})
}
+
task cleanJalviewjsAll {
group "JalviewJS"
description "Delete all configuration and build artifacts to do with JalviewJS build"
outputs.upToDateWhen( { false } )
}
+
task jalviewjs {
group "JalviewJS"
description "Build the site"
}
+
task jalviewjsIDE_CopyTransferSiteJs(type: Copy) {
from "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
into "${jalviewDir}/${jalviewjsSiteDir}"
}
+
task jalviewjsIDE_j2sFile {
group "00 JalviewJS in Eclipse"
description "Creates the .j2s file"
dependsOn jalviewjsCreateJ2sSettings
}
+
task jalviewjsIDE_AssembleSite {
group "00 JalviewJS in Eclipse"
description "Assembles the Eclipse transpiled site and unzips supporting zipfiles"
dependsOn jalviewjsIDE_CopyTransferSiteJs
- dependsOn jalviewjsPrepareSite
+ dependsOn jalviewjsNoTranspilePrepareSite
}
+
task jalviewjsIDE_SiteClean {
group "00 JalviewJS in Eclipse"
description "Deletes the Eclipse transpiled site"
dependsOn cleanJalviewjsSite
}
+
task jalviewjsIDE_Server {
group "00 JalviewJS in Eclipse"
description "Starts a webserver on localhost to test the website"
dependsOn jalviewjsServer
}
+
// buildship runs this at import
task eclipseSynchronizationTask {
dependsOn eclipseSetup
dependsOn jalviewjsIDE_j2sFile
}
+
// buildship runs this at build time
task eclipseAutoBuildTask {
- dependsOn jalviewjsSyncTransferSiteJs
- dependsOn jalviewjsPrepareSite
+ dependsOn jalviewjsNoTranspileSyncTransferSiteJs
+ dependsOn jalviewjsNoTranspilePrepareSite
}
t.replaceAll("Class__","Clazz._")
coreFile.append( t )
} else {
- msg = "...file "+f.getPath()+" does not exist, skipping"
+ msg = "...file '"+f.getPath()+"' does not exist, skipping"
println(msg)
logOutFile.append(msg+"\n")
}
logOutFile.append(msg+"\n")
}
-task jalviewjsBuildJMolCore {
- dependsOn jalviewjsTranspile
- dependsOn jalviewjsTransferUnzipLib
- dependsOn jalviewjsSitePath
-
- def j2sDir = "${jalviewDir}/${jalviewjsTransferSiteJsDir}/${jalviewjs_j2s_subdir}"
- def jsDir = "${jalviewDir}/${jalviewjsTransferSiteLibDir}/${jalviewjs_js_subdir}"
- def outputDir = "${jalviewDir}/${jalviewjsTransferSiteCoreDir}/${jalviewjs_j2s_subdir}/core"
- def prefixFile = "${jsDir}/core/coretop2.js"
- def suffixFile = "${jsDir}/core/corebottom2.js"
-
- inputs.file prefixFile
- inputs.file suffixFile
-
-}
-
-task jalviewjsBuildStevesoftCore {
- dependsOn jalviewjsTranspile
- dependsOn jalviewjsTransferUnzipLib
+task jalviewjsNoTranspileBuildAllCores {
dependsOn jalviewjsSitePath
+ dependsOn jalviewjsTransferUnzipSwingJs
def j2sDir = "${jalviewDir}/${jalviewjsTransferSiteJsDir}/${jalviewjs_j2s_subdir}"
- def jsDir = "${jalviewDir}/${jalviewjsTransferSiteLibDir}/${jalviewjs_js_subdir}"
+ def jsDir = "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}/${jalviewjs_js_subdir}"
def outputDir = "${jalviewDir}/${jalviewjsTransferSiteCoreDir}/${jalviewjs_j2s_subdir}/core"
def prefixFile = "${jsDir}/core/coretop2.js"
def suffixFile = "${jsDir}/core/corebottom2.js"
inputs.file prefixFile
inputs.file suffixFile
+ def classlistFiles = []
+ // add the classlists found int the jalviewjs_classlists_dir
+ fileTree(dir: "${jalviewDir}/${jalviewjs_classlists_dir}", include: "*.txt").each {
+ file ->
+ def name = file.getName() - ".txt"
+ classlistFiles += [
+ 'file': file,
+ 'name': name
+ ]
+ }
-}
-
-task jalviewjsBuildClasslistCores {
- group "JalviewJS"
- description "Build the core js lib closures listed in the classlists dir"
+ // _jmol and _jalview cores. Add any other peculiar classlist.txt files here
+ classlistFiles += [ 'file': file("${jalviewDir}/${jalviewjs_classlist_jmol}"), 'name': "_jvjmol" ]
+ classlistFiles += [ 'file': file("${jalviewDir}/${jalviewjs_classlist_jalview}"), 'name': "_jalview" ]
- dependsOn jalviewjsSitePath
- dependsOn jalviewjsTransferUnzipLib
- dependsOn jalviewjsTranspile
+ def classlists = []
- def j2sDir = "${jalviewDir}/${jalviewjsTransferSiteJsDir}/${jalviewjs_j2s_subdir}"
- def jsDir = "${jalviewDir}/${jalviewjsTransferSiteLibDir}/${jalviewjs_js_subdir}"
- def outputDir = "${jalviewDir}/${jalviewjsTransferSiteCoreDir}/${jalviewjs_j2s_subdir}/core"
- def prefixFile = "${jsDir}/core/coretop2.js"
- def suffixFile = "${jsDir}/core/corebottom2.js"
+ classlistFiles.each {
+ hash ->
- inputs.file prefixFile
- inputs.file suffixFile
-
- def classlists = []
- fileTree(dir: "${jalviewDir}/${jalviewjs_classlists_dir}", include: "*.txt").each {
- file ->
- def name = file.getName() - ".txt"
+ def file = hash['file']
+ if (! file.exists()) {
+ println("...classlist file '"+file.getPath()+"' does not exist, skipping")
+ return false // this is a "continue" in groovy .each closure
+ }
+ def name = hash['name']
+ if (name == null) {
+ name = file.getName() - ".txt"
+ }
def filelist = []
file.eachLine {
line ->
- filelist += line
+ filelist += line
}
def list = fileTree(dir: j2sDir, includes: filelist)
- def coreFileName = "core${name}.js"
- def jsfile = "${outputDir}/${coreFileName}"
- def coreZFileName = "core${name}.z.js"
- def zjsfile = "${outputDir}/${coreZFileName}"
+ def jsfile = "${outputDir}/core${name}.js"
+ def zjsfile = "${outputDir}/core${name}.z.js"
classlists += [
- 'jsfile': jsfile,
- 'zjsfile': zjsfile,
- 'list': list
+ 'jsfile': jsfile,
+ 'zjsfile': zjsfile,
+ 'list': list
]
inputs.file(file)
inputs.files(list)
outputs.file(jsfile)
outputs.file(zjsfile)
- }
-
+ }
+
+ // _stevesoft core. add any cores without a classlist here (and the inputs and outputs)
+ def stevesoftClasslist = [
+ 'jsfile': "${outputDir}/core_stevesoft.js",
+ 'zjsfile': "${outputDir}/core_stevesoft.z.js",
+ 'list': fileTree(dir: j2sDir, include: "com/stevesoft/pat/**/*.js")
+ ]
+ classlists += stevesoftClasslist
+ inputs.files(stevesoftClasslist['list'])
+ outputs.file(stevesoftClasslist['jsfile'])
+ outputs.file(stevesoftClasslist['zjsfile'])
doFirst {
def logOutFile = file("${jalviewDirAbsolutePath}/${jalviewjsBuildDir}/${jalviewjs_j2s_closure_stdout}")
logOutFile.getParentFile().mkdirs()
logOutFile.createNewFile()
- logOutFile.write(getDate("yyyy-MM-dd HH:mm:ss")+" jalviewjsBuildAllCores\n----\n")
+ logOutFile.write(getDate("yyyy-MM-dd HH:mm:ss")+" jalviewjsNoTranspileBuildAllCores\n----\n")
classlists.each {
jalviewjsCallCore(it.list, prefixFile, suffixFile, it.jsfile, it.zjsfile, logOutFile, jalviewjs_j2s_to_console.equals("true"))
}
+
+jalviewjsNoTranspileBuildAllCores.mustRunAfter jalviewjsTranspile
+
+
task jalviewjsBuildAllCores {
- dependsOn jalviewjsBuildJMolCore
- dependsOn jalviewjsBuildStevesoftCore
- dependsOn jalviewjsBuildClasslistCores
+ group "JalviewJS"
+ description "Build the core js lib closures listed in the classlists dir"
+ dependsOn jalviewjsTranspile
+ dependsOn jalviewjsNoTranspileBuildAllCores
}
+
+task jalviewjsIDE_BuildAllCores {
+ group "00 JalviewJS in Eclipse"
+ description "Build the core js lib closures listed in the classlists dir"
+ dependsOn jalviewjsNoTranspileBuildAllCores
+}
+
+
task jalviewjsPublishCoreTemplate {
dependsOn jalviewjsBuildAllCores
}
-java/applet/Applet.js
+jalview/analysis/AAFrequency.js
+jalview/analysis/AlignSeq.js
+jalview/analysis/AlignmentAnnotationUtils.js
+jalview/analysis/AlignmentUtils.js
+jalview/analysis/AlignmentSorter.js
+jalview/analysis/AnnotationSorter.js
+jalview/analysis/Conservation.js
+jalview/analysis/CrossRef.js
+jalview/analysis/NJTree.js
+jalview/analysis/SeqsetUtils.js
+jalview/analysis/SequenceIdMatcher.js
+jalview/analysis/TreeBuilder.js
+jalview/analysis/TreeModel.js
+jalview/analysis/scoremodels/DistanceScoreModel.js
+jalview/analysis/scoremodels/FeatureDistanceModel.js
+jalview/analysis/scoremodels/PIDModel.js
+jalview/analysis/scoremodels/ScoreMatrix.js
+jalview/analysis/scoremodels/ScoreModels.js
+jalview/analysis/scoremodels/SimilarityParams.js
+jalview/analysis/scoremodels/SimilarityScoreModel.js
+jalview/api/AlignCalcManagerI.js
+jalview/api/AlignCalcWorkerI.js
+jalview/api/AlignViewControllerGuiI.js
+jalview/api/AlignViewControllerI.js
+jalview/api/AlignFrameI.js
+jalview/api/AlignViewportI.js
+jalview/api/AlignmentViewPanel.js
+jalview/api/BuildDetailsI.js
+jalview/api/FeatureColourI.js
+jalview/api/FeatureRenderer.js
+jalview/api/FeaturesDisplayedI.js
+jalview/api/JalviewApp.js
+jalview/api/OOMHandlerI.js
+jalview/api/SequenceRenderer.js
+jalview/api/StructureSelectionManagerProvider.js
+jalview/api/ViewStyleI.js
+jalview/api/analysis/PairwiseScoreModelI.js
+jalview/api/analysis/ScoreModelI.js
+jalview/api/analysis/SimilarityParamsI.js
+jalview/bin/AppletParams.js
+jalview/bin/ApplicationSingletonProvider.js
+jalview/bin/ArgsParser.js
+jalview/bin/BuildDetails.js
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+
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java/applet/AppletContext.js
java/applet/AppletStub.js
java/applet/JSApplet.js
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java/awt/AWTEvent.js
java/awt/AWTEventMulticaster.js
java/awt/AWTKeyStroke.js
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java/awt/BasicStroke.js
java/awt/BorderLayout.js
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java/awt/Color.js
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java/awt/Component.js
java/awt/ComponentOrientation.js
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java/awt/Container.js
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java/awt/Cursor.js
java/awt/DefaultFocusTraversalPolicy.js
java/awt/DefaultKeyboardFocusManager.js
java/awt/Dialog.js
java/awt/Dimension.js
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java/awt/dnd/peer/DropTargetPeer.js
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java/awt/event/ActionListener.js
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java/awt/event/AdjustmentListener.js
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java/awt/event/ComponentAdapter.js
java/awt/event/ComponentEvent.js
java/awt/event/ComponentListener.js
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java/awt/event/ContainerListener.js
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java/awt/event/FocusEvent.js
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java/awt/event/HierarchyBoundsListener.js
java/awt/event/InvocationEvent.js
java/awt/event/ItemEvent.js
java/awt/event/ItemListener.js
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java/awt/event/KeyListener.js
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java/awt/event/MouseEvent.js
java/awt/event/MouseListener.js
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java/awt/event/MouseMotionListener.js
java/awt/event/MouseWheelListener.js
java/awt/event/TextListener.js
java/awt/event/WindowFocusListener.js
java/awt/event/WindowListener.js
java/awt/event/WindowStateListener.js
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java/awt/font/FontRenderContext.js
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java/awt/geom/AffineTransform.js
java/awt/geom/Dimension2D.js
java/awt/geom/Path2D.js
java/awt/geom/PathIterator.js
java/awt/geom/Point2D.js
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java/awt/geom/Rectangle2D.js
java/awt/geom/RectangularShape.js
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java/awt/image/ImageObserver.js
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java/awt/peer/ComponentPeer.js
java/awt/peer/ContainerPeer.js
java/awt/peer/FramePeer.js
java/awt/peer/KeyboardFocusManagerPeer.js
java/awt/peer/LightweightPeer.js
java/awt/peer/WindowPeer.js
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java/beans/ChangeListenerMap.js
java/beans/PropertyChangeEvent.js
java/beans/PropertyChangeListener.js
java/beans/PropertyChangeSupport.js
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java/lang/AbstractStringBuilder.js
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java/lang/Class.js
java/lang/Enum.js
java/lang/Iterable.js
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java/lang/StringBuffer.js
java/lang/StringBuilder.js
java/lang/Thread.js
java/lang/ThreadGroup.js
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java/math/RoundingMode.js
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java/net/URLStreamHandlerFactory.js
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java/text/CharacterIterator.js
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java/text/DecimalFormat.js
java/text/DecimalFormatSymbols.js
java/text/DigitList.js
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java/text/Format.js
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java/text/NumberFormat.js
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java/util/AbstractCollection.js
java/util/AbstractList.js
java/util/AbstractMap.js
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java/util/AbstractSequentialList.js
java/util/AbstractSet.js
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java/util/ArrayList.js
java/util/Arrays.js
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java/util/Collection.js
java/util/Collections.js
java/util/Comparator.js
java/util/Deque.js
java/util/Dictionary.js
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java/util/Enumeration.js
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java/util/EventObject.js
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java/util/HashMap.js
java/util/HashSet.js
java/util/Hashtable.js
java/util/LinkedHashMap.js
java/util/LinkedList.js
java/util/List.js
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java/util/ListResourceBundle.js
java/util/Locale.js
java/util/Map.js
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java/util/Queue.js
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java/util/RandomAccess.js
java/util/ResourceBundle.js
java/util/Set.js
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java/util/TimSort.js
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java/util/Vector.js
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javajs/api/JSFunction.js
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javajs/util/AjaxURLConnection.js
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javajs/util/AjaxURLStreamHandlerFactory.js
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javajs/util/JSThread.js
javajs/util/Lst.js
javajs/util/PT.js
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javajs/util/SB.js
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javax/swing/AbstractAction.js
javax/swing/AbstractButton.js
javax/swing/AbstractListModel.js
javax/swing/ActionMap.js
javax/swing/AncestorNotifier.js
javax/swing/ArrayTable.js
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javax/swing/BorderFactory.js
javax/swing/BoundedRangeModel.js
javax/swing/BoxLayout.js
javax/swing/ButtonModel.js
javax/swing/ClientPropertyKey.js
javax/swing/ComboBoxModel.js
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javax/swing/DefaultBoundedRangeModel.js
javax/swing/DefaultButtonModel.js
javax/swing/DefaultComboBoxModel.js
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javax/swing/DefaultSingleSelectionModel.js
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javax/swing/FocusManager.js
javax/swing/InternalFrameFocusTraversalPolicy.js
javax/swing/LayoutComparator.js
javax/swing/JCheckBoxMenuItem.js
javax/swing/JComboBox.js
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javax/swing/JLabel.js
javax/swing/JLayeredPane.js
javax/swing/JMenu.js
javax/swing/JMenuItem.js
javax/swing/JPanel.js
javax/swing/JPopupMenu.js
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javax/swing/JScrollBar.js
javax/swing/JScrollPane.js
javax/swing/JSeparator.js
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git://source.jalview.org / jalview.git / commitdiff