X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=build.gradle;h=535f3b9f4b6961c63a270958b813eb93cdc67e1c;hb=54dfce251873f378d86ae2c937c6dadd32226671;hp=52c0385b6459302c6a85d1971d40debe3b003e26;hpb=6f830d8a3d9347f9cf31b41f0b05a33ec74bc0b8;p=jalview.git

diff --git a/build.gradle b/build.gradle
index 52c0385..535f3b9 100644
--- a/build.gradle
+++ b/build.gradle
@@ -1274,16 +1274,14 @@ task helppages  {
 
 def jalviewjsBuildDir
 def jalviewjsSiteDir
-def jalviewjsTransferSiteJsDir
+def jalviewjsTransferSiteJSDir
 def jalviewjsTransferSiteLibDir
-def jalviewjsTransferSiteCoreDir
 task jalviewjsSitePath {
   def relativeBuildDir = file(jalviewDirAbsolutePath).toPath().relativize(buildDir.toPath())
   jalviewjsBuildDir = "${relativeBuildDir}/jalviewjs"
   jalviewjsSiteDir = "${jalviewjsBuildDir}/${jalviewjs_site_dir}"
-  jalviewjsTransferSiteJsDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_js"
+  jalviewjsTransferSiteJSDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_js"
   jalviewjsTransferSiteLibDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_lib"
-  jalviewjsTransferSiteCoreDir = "${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_core"
 }
 
 def eclipseWorkspace
@@ -1331,9 +1329,8 @@ task jalviewjsSetEclipseWorkspace {
     println("ECLIPSE WORKSPACE: "+eclipseWorkspace.getPath())
   }
 
-  //inputs.property(propKey, eclipseWsDir) // eclipseWsDir only gets set once this task runs, so will be out-of-date
+  inputs.property(propKey, eclipseWsDir)
   outputs.file(propsFileName)
-  outputs.upToDateWhen { eclipseWorkspace.exists() }
 }
 
 
@@ -1497,14 +1494,14 @@ task jalviewjsCreateJ2sSettings(type: WriteProperties) {
     if (val != null) {
       if (prop == siteDirProperty) {
         if (!(val.startsWith('/') || val.startsWith("file://") )) {
-          val = "${jalviewDir}/${jalviewjsTransferSiteJsDir}/${val}"
+          val = "${jalviewDir}/${jalviewjsTransferSiteJSDir}/${val}"
         }
         setSiteDir = true
       }
       property(prop,val)
     }
     if (!setSiteDir) { // default site location, don't override specifically set property
-      property(siteDirProperty,"${jalviewDir}/${jalviewjsTransferSiteJsDir}")
+      property(siteDirProperty,"${jalviewDir}/${jalviewjsTransferSiteJSDir}")
     }
   }
   inputs.properties(j2s_props)
@@ -1537,26 +1534,6 @@ task jalviewjsSyncLib (type: Sync) {
   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
   def inputFiles = fileTree(dir: "${jalviewDir}/${resourceDir}")
@@ -1620,8 +1597,7 @@ task jalviewjsProjectImport(type: Exec) {
   dependsOn jalviewjsEclipsePaths
   dependsOn jalviewjsEclipseSetup
 
-  //def projdir = eclipseWorkspace.getPath()+"/.metadata/.plugins/org.eclipse.core.resources/.projects/jalview/org.eclipse.jdt.core"
-  def projdir = eclipseWorkspace.getPath()+"/.metadata/.plugins/org.eclipse.core.resources/.projects/jalview"
+  def projdir = eclipseWorkspace.getPath()+"/.metadata/.plugins/org.eclipse.core.resources/.projects/jalview/org.eclipse.jdt.core"
   executable(eclipseBinary)
   args(["-nosplash", "--launcher.suppressErrors", "-application", "com.seeq.eclipse.importprojects.headlessimport", "-data", eclipseWorkspace.getPath(), "-import", jalviewDirAbsolutePath])
   if (eclipseDebug) {
@@ -1630,9 +1606,7 @@ task jalviewjsProjectImport(type: Exec) {
   args += [ "--launcher.appendVmargs", "-vmargs", "-Dorg.eclipse.equinox.p2.reconciler.dropins.directory=${jalviewDirAbsolutePath}/${jalviewjsBuildDir}/${jalviewjs_eclipse_tmp_dropins_dir}" ]
 
   inputs.file("${jalviewDir}/.project")
-  outputs.upToDateWhen { 
-    file(projdir).exists()
-  }
+  outputs.upToDateWhen { file(projdir).exists() }
 }
 
 task jalviewjsTranspile(type: Exec) {
@@ -1653,7 +1627,7 @@ task jalviewjsTranspile(type: Exec) {
     stdout = new ByteArrayOutputStream()
     stderr = new ByteArrayOutputStream()
 
-    def logOutFileName = "${jalviewDirAbsolutePath}/${jalviewjsBuildDir}/${jalviewjs_j2s_transpile_stdout}"
+    def logOutFileName = "${jalviewDirAbsolutePath}/${jalviewjsBuildDir}/${jalviewjs_j2s_stdout}"
     def logOutFile = file(logOutFileName)
     logOutFile.createNewFile()
     logOutFile.text = """ROOT: ${jalviewjs_eclipse_root}
@@ -1695,25 +1669,25 @@ DEBUG: ${eclipseDebug}
   doLast {
     if (stdout.toString().contains("Error processing ")) {
       // j2s did not complete transpile
-      throw new GradleException("Error during transpilation:\n${stderr}\nSee eclipse transpile log file '${jalviewDir}/${jalviewjsBuildDir}/${jalviewjs_j2s_transpile_stdout}'")
+      throw new GradleException("Error during transpilation:\n${stderr}\nSee eclipse transpile log file '${jalviewDir}/${jalviewjsBuildDir}/${jalviewjs_j2s_stdout}'")
     }
   }
 
   inputs.dir("${jalviewDir}/${sourceDir}")
-  outputs.dir("${jalviewDir}/${jalviewjsTransferSiteJsDir}")
-  outputs.upToDateWhen( { file("${jalviewDir}/${jalviewjsTransferSiteJsDir}${jalviewjs_server_resource}").exists() } )
+  outputs.dir("${jalviewDir}/${jalviewjsTransferSiteJSDir}")
+  outputs.upToDateWhen( { file("${jalviewDir}/${jalviewjsTransferSiteJSDir}${jalviewjs_server_resource}").exists() } )
 }
 
-// this Copy version of TransferSiteJs will delete anything else in the target dir
-task jalviewjsCopyTransferSiteJs(type: Copy) {
+// this Copy version of TransferSite will delete anything else in the target dir
+task jalviewjsCopyTransferSite(type: Copy) {
   dependsOn jalviewjsTranspile
-  from "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
+  from "${jalviewDir}/${jalviewjsTransferSiteJSDir}"
   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) {
-  from "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
+task jalviewjsSyncTransferSite(type: Sync) {
+  from "${jalviewDir}/${jalviewjsTransferSiteJSDir}"
   include "**/*.*"
   into "${jalviewDir}/${jalviewjsSiteDir}"
   preserve {
@@ -1721,15 +1695,15 @@ task jalviewjsSyncTransferSiteJs(type: Sync) {
   }
 }
 
-jalviewjsSyncLib.mustRunAfter jalviewjsCopyTransferSiteJs
-jalviewjsSyncResources.mustRunAfter jalviewjsCopyTransferSiteJs
-jalviewjsSyncSiteResources.mustRunAfter jalviewjsCopyTransferSiteJs
-jalviewjsSyncBuildProperties.mustRunAfter jalviewjsCopyTransferSiteJs
+jalviewjsSyncLib.mustRunAfter jalviewjsCopyTransferSite
+jalviewjsSyncResources.mustRunAfter jalviewjsCopyTransferSite
+jalviewjsSyncSiteResources.mustRunAfter jalviewjsCopyTransferSite
+jalviewjsSyncBuildProperties.mustRunAfter jalviewjsCopyTransferSite
 
-jalviewjsSyncLib.mustRunAfter jalviewjsSyncTransferSiteJs
-jalviewjsSyncResources.mustRunAfter jalviewjsSyncTransferSiteJs
-jalviewjsSyncSiteResources.mustRunAfter jalviewjsSyncTransferSiteJs
-jalviewjsSyncBuildProperties.mustRunAfter jalviewjsSyncTransferSiteJs
+jalviewjsSyncLib.mustRunAfter jalviewjsSyncTransferSite
+jalviewjsSyncResources.mustRunAfter jalviewjsSyncTransferSite
+jalviewjsSyncSiteResources.mustRunAfter jalviewjsSyncTransferSite
+jalviewjsSyncBuildProperties.mustRunAfter jalviewjsSyncTransferSite
 
 task jalviewjsPrepareSite {
   group "JalviewJS"
@@ -1738,21 +1712,18 @@ task jalviewjsPrepareSite {
   dependsOn jalviewjsSyncResources
   dependsOn jalviewjsSyncSiteResources
   dependsOn jalviewjsSyncBuildProperties
-  dependsOn jalviewjsSyncCore
 }
 
 task jalviewjsBuildSite {
   group "JalviewJS"
   description "Builds the whole website including transpiled code"
-  dependsOn jalviewjsCopyTransferSiteJs
+  dependsOn jalviewjsCopyTransferSite
   dependsOn jalviewjsPrepareSite
 }
 
 task cleanJalviewjsSite {
   doFirst {
-    delete "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
-    delete "${jalviewDir}/${jalviewjsTransferSiteLibDir}"
-    delete "${jalviewDir}/${jalviewjsTransferSiteCoreDir}"
+    delete "${jalviewDir}/${jalviewjsTransferSiteJSDir}"
     delete "${jalviewDir}/${jalviewjsSiteDir}"
   }
 }
@@ -1840,12 +1811,12 @@ task jalviewjs {
 }
 
 
-task jalviewjsIDE_CopyTransferSiteJs(type: Copy) {
-  from "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
+task jalviewjsIDE_CopyTransferSite(type: Copy) {
+  from "${jalviewDir}/${jalviewjsTransferSiteJSDir}"
   into "${jalviewDir}/${jalviewjsSiteDir}"
 }
 
-task jalviewjsIDE_j2sFile {
+task jalviewjsIDE_j2s {
   group "00 JalviewJS in Eclipse"
   description "Creates the .j2s file"
   dependsOn jalviewjsCreateJ2sSettings
@@ -1854,7 +1825,7 @@ task jalviewjsIDE_j2sFile {
 task jalviewjsIDE_AssembleSite {
   group "00 JalviewJS in Eclipse"
   description "Assembles the Eclipse transpiled site and unzips supporting zipfiles"
-  dependsOn jalviewjsIDE_CopyTransferSiteJs
+  dependsOn jalviewjsIDE_CopyTransferSite
   dependsOn jalviewjsPrepareSite
 }
 
@@ -1873,153 +1844,11 @@ task jalviewjsIDE_Server {
 // buildship runs this at import
 task eclipseSynchronizationTask {
   dependsOn eclipseSetup
-  dependsOn jalviewjsIDE_j2sFile
+  dependsOn jalviewjsIDE_j2s
 }
 
 // buildship runs this at build time
 task eclipseAutoBuildTask {
-  dependsOn jalviewjsSyncTransferSiteJs
+  dependsOn jalviewjsSyncTransferSite
   dependsOn jalviewjsPrepareSite
 }
-
-
-
-
-
-
-
-
-// closure
-
-def jalviewjsCallCore(FileCollection list, String prefixFile, String suffixFile, String jsfile, String zjsfile, File logOutFile, Boolean logOutConsole) {
-
-  def stdout = new ByteArrayOutputStream()
-  def stderr = new ByteArrayOutputStream()
-
-  def coreFile = file(jsfile)
-  def msg = ""
-  msg = "Generating ${jsfile}"
-  println(msg)
-  logOutFile.createNewFile()
-  logOutFile.append(msg+"\n")
-
-  def coreTop = file(prefixFile)
-  def coreBottom = file(suffixFile)
-  coreFile.getParentFile().mkdirs()
-  coreFile.createNewFile()
-  coreFile.write( coreTop.text )
-  list.each {
-    f ->
-    if (f.exists()) {
-      def t = f.text
-      t.replaceAll("Clazz\\.","Clazz_")
-      t.replaceAll("Class__","Clazz._")
-      coreFile.append( t )
-    } else {
-      msg = "...file "+f.getPath()+" does not exist, skipping"
-      println(msg)
-      logOutFile.append(msg+"\n")
-    }
-  }
-  coreFile.append( coreBottom.text )
-
-  msg = "Generating ${zjsfile}"
-  println(msg)
-  logOutFile.append(msg+"\n")
-  def logOutFOS = new FileOutputStream(logOutFile, true) // true == append
-  def logErrFOS = logOutFOS
-
-  javaexec {
-    classpath = files(["${jalviewDir}/tools/closure_compiler.jar"])
-    args = [ "--js", jsfile, "--js_output_file", zjsfile ]
-
-    msg = "\nRunning '"+commandLine.join(' ')+"'\n"
-    println(msg)
-    logOutFile.append(msg+"\n")
-
-    if (logOutConsole) {
-      standardOutput = new org.apache.tools.ant.util.TeeOutputStream(
-        new org.apache.tools.ant.util.TeeOutputStream(
-          logOutFOS,
-          stdout),
-        standardOutput)
-        errorOutput = new org.apache.tools.ant.util.TeeOutputStream(
-          new org.apache.tools.ant.util.TeeOutputStream(
-            logErrFOS,
-            stderr),
-          errorOutput)
-    } else {
-      standardOutput = new org.apache.tools.ant.util.TeeOutputStream(
-        logOutFOS,
-        stdout)
-        errorOutput = new org.apache.tools.ant.util.TeeOutputStream(
-          logErrFOS,
-          stderr)
-    }
-  }
-  msg = "--"
-  println(msg)
-  logOutFile.append(msg+"\n")
-}
-
-
-
-task jalviewjsBuildAllCores {
-  group "JalviewJS"
-  description "Build the core js lib closures"
-
-  dependsOn jalviewjsSitePath
-  dependsOn jalviewjsTransferUnzipLib
-  dependsOn jalviewjsTranspile
-
-  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 = "${jsDir}/core/corebottom2.js"
-
-  inputs.file prefixFile
-  inputs.file suffixFile
-
-  def classlists = []
-  fileTree(dir: "${jalviewDir}/${jalviewjs_classlists_dir}", include: "*.txt").each {
-    file ->
-    def name = file.getName() - ".txt"
-
-    def filelist = []
-    file.eachLine {
-      line ->
-      filelist += line
-    }
-    def list = fileTree(dir: j2sDir, includes: filelist)
-
-    def coreFileName = "core${name}.js"
-    def jsfile = "${outputDir}/${coreFileName}"
-    def coreZFileName = "core${name}.z.js"
-    def zjsfile = "${outputDir}/${coreZFileName}"
-
-    classlists += [
-      'jsfile': jsfile,
-      'zjsfile': zjsfile,
-      'list': list
-    ]
-
-    inputs.file(file)
-    inputs.files(list)
-    outputs.file(jsfile)
-    outputs.file(zjsfile)
-  } 
-
-
-  doFirst {
-    def logOutFile = file("${jalviewDirAbsolutePath}/${jalviewjsBuildDir}/${jalviewjs_j2s_closure_stdout}")
-    logOutFile.getParentFile().mkdirs()
-    logOutFile.createNewFile()
-    logOutFile.write(getDate("yyyy-MM-dd HH:mm:ss")+" jalviewjsBuildAllCores\n----\n")
-
-    classlists.each {
-      jalviewjsCallCore(it.list, prefixFile, suffixFile, it.jsfile, it.zjsfile, logOutFile, jalviewjs_j2s_to_console.equals("true"))
-    }
-  }
-
-}