}
jalviewjsTransferSiteLibDir = string("${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_lib")
jalviewjsTransferSiteSwingJsDir = string("${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_swingjs")
+ jalviewjsTransferSiteMergeDir = string("${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_merge")
jalviewjsTransferSiteCoreDir = string("${jalviewjsBuildDir}/tmp/${jalviewjs_site_dir}_core")
jalviewjsJalviewCoreHtmlFile = string("")
jalviewjsJalviewCoreName = string(jalviewjs_core_name)
dependsOn getdownImagesProcess
}
-task getdownWebsite() {
+task getdownWebsiteBuild() {
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"
+ description = "Create the getdown minimal app folder, and website folder for this version of jalview. Website folder also used for offline app installer. No digest is created."
dependsOn getdownImages
if (buildDist) {
from s
into "${getdownAppBaseDir}/${getdown_wrapper_script_dir}"
}
- getdownTextLines += "resource = ${getdown_wrapper_script_dir}/${script}"
+ getdownTextLines += "xresource = ${getdown_wrapper_script_dir}/${script}"
}
}
task getdownDigest(type: JavaExec) {
group = "distribution"
description = "Digest the getdown website folder"
- dependsOn getdownWebsite
+
+ dependsOn getdownWebsiteBuild
+
doFirst {
classpath = files(getdownLauncher)
}
}
}
+task getdownWebsite {
+ group = "distribution"
+ description = "A task to create the whole getdown channel website dir including digest file"
+
+ dependsOn getdownWebsiteBuild
+ dependsOn getdownDigest
+}
task getdownArchiveBuild() {
group = "distribution"
description = "Put files in the archive dir to go on the website"
- dependsOn getdownWebsite
+ dependsOn getdownWebsiteBuild
def v = "v${JALVIEW_VERSION_UNDERSCORES}"
def vDir = "${getdownArchiveDir}/${v}"
into project.name
def EXCLUDE_FILES=[
+ "dist/*",
"build/*",
"bin/*",
"test-output/",
copy {
from zipTree(file_zip)
into "${jalviewDir}/${jalviewjsTransferSiteLibDir}"
+
+ // rename files in jsmol/j2s/... to swingjs/j2s/...
+ if (file_zip.getName().startsWith("Jmol-j2s-site")) {
+ eachFile { fcd ->
+ // jsmol/... -> swingjs/...
+ def relPathSegments = fcd.relativePath.getSegments()
+ if (relPathSegments[0] == "jsmol") {
+ def newRelPathSegments = relPathSegments
+ newRelPathSegments[0] = "swingjs"
+ fcd.relativePath = new RelativePath(true, newRelPathSegments)
+ }
+ }
+ }
+
+ // The following replace() is needed due to a mismatch in Jmol calls to
+ // colorPtToFFRGB$javajs_util_T3d when only colorPtToFFRGB$javajs_util_T3 is defined
+ // in the SwingJS.zip (github or the one distributed with JSmol)
+ if (file_zip.getName().startsWith("Jmol-SwingJS")) {
+ filter { line ->
+ def l = ""
+ while(!line.equals(l)) {
+ line = line.replace('colorPtToFFRGB$javajs_util_T3d', 'colorPtToFFRGB$javajs_util_T3')
+ l = line
+ }
+ return line
+ }
+ }
}
}
}
}
-
-
task jalviewjsCreateJ2sSettings(type: WriteProperties) {
group "JalviewJS"
description "Create the alternative j2s file from the j2s.* properties"
task jalviewjsSyncAllLibs (type: Sync) {
dependsOn jalviewjsTransferUnzipAllLibs
- def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteLibDir}")
+ def inputFiles = []
+ inputFiles += fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteLibDir}")
inputFiles += fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}")
def outputDir = "${jalviewDir}/${jalviewjsSiteDir}"
}
+task jalviewjsTranserSiteMergeLibDirs (type: Sync) {
+ dependsOn jalviewjsTransferUnzipAllLibs
+ dependsOn jalviewjsTransferUnzipSwingJs
+ dependsOn jalviewjsTranspile
+
+ def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteLibDir}")
+ // merge swingjs lib last
+ inputFiles += fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}")
+
+ def outputDir = "${jalviewDir}/${jalviewjsTransferSiteMergeDir}"
+
+ from inputFiles
+ into outputDir
+ def outputFiles = []
+ rename { filename ->
+ outputFiles += "${outputDir}/${filename}"
+ null
+ }
+
+ exclude "**/*.html"
+ exclude "**/*.htm"
+
+ // should this be exclude really ? No, swingjs dir should be transferred last (and overwrite)
+ duplicatesStrategy "INCLUDE"
+
+ outputs.files outputFiles
+ inputs.files inputFiles
+}
+
+
+task jalviewjsTranserSiteMergeSwingDir (type: Sync) {
+ dependsOn jalviewjsTransferUnzipAllLibs
+ dependsOn jalviewjsTransferUnzipSwingJs
+ dependsOn jalviewjsTranspile
+
+ // merge jalview files very last
+ def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteJsDir}")
+
+ def outputDir = "${jalviewDir}/${jalviewjsTransferSiteMergeDir}"
+
+ from inputFiles
+ into outputDir
+ def outputFiles = []
+ rename { filename ->
+ outputFiles += "${outputDir}/${filename}"
+ null
+ }
+ preserve {
+ include "**"
+ }
+
+ // should this be exclude really ? No, jalview dir should be transferred last (and overwrite)
+ duplicatesStrategy "INCLUDE"
+
+ outputs.files outputFiles
+ inputs.files inputFiles
+}
+
+
+task jalviewjsTranserSiteMergeDirs {
+ dependsOn jalviewjsTranserSiteMergeLibDirs
+ dependsOn jalviewjsTranserSiteMergeSwingDir
+}
+
+
def jalviewjsCallCore(String name, FileCollection list, String prefixFile, String suffixFile, String jsfile, String zjsfile, File logOutFile, Boolean logOutConsole) {
def stdout = new ByteArrayOutputStream()
def coreTop = file(prefixFile)
def coreBottom = file(suffixFile)
+ def missingFiles = []
coreFile.getParentFile().mkdirs()
coreFile.createNewFile()
coreFile.write( coreTop.getText("UTF-8") )
msg = "...file '"+f.getPath()+"' does not exist, skipping"
println(msg)
logOutFile.append(msg+"\n")
+ missingFiles += f
}
}
coreFile.append( coreBottom.getText("UTF-8") )
}
}
msg = "--"
+ if (missingFiles.size() > 0) {
+ msg += "\n!!! These files were listed but missing:\n"
+ missingFiles.each { file -> msg += "!!! " + file.getPath() + "\n" }
+ msg = "--"
+ }
println(msg)
logOutFile.append(msg+"\n")
}
task jalviewjsBuildAllCores {
group "JalviewJS"
description "Build the core js lib closures listed in the classlists dir"
- dependsOn jalviewjsTranspile
- dependsOn jalviewjsTransferUnzipSwingJs
+ dependsOn jalviewjsTranserSiteMergeDirs
- def j2sDir = "${jalviewDir}/${jalviewjsTransferSiteJsDir}/${jalviewjs_j2s_subdir}"
- def swingJ2sDir = "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}/${jalviewjs_j2s_subdir}"
- def libJ2sDir = "${jalviewDir}/${jalviewjsTransferSiteLibDir}/${jalviewjs_j2s_subdir}"
- def jsDir = "${jalviewDir}/${jalviewjsTransferSiteSwingJsDir}/${jalviewjs_js_subdir}"
+ def j2sDir = "${jalviewDir}/${jalviewjsTransferSiteMergeDir}/${jalviewjs_j2s_subdir}"
+ def swingJ2sDir = "${jalviewDir}/${jalviewjsTransferSiteMergeDir}/${jalviewjs_j2s_subdir}"
+ def libJ2sDir = "${jalviewDir}/${jalviewjsTransferSiteMergeDir}/${jalviewjs_j2s_subdir}"
+ def jsDir = "${jalviewDir}/${jalviewjsTransferSiteMergeDir}/${jalviewjs_js_subdir}"
def outputDir = "${jalviewDir}/${jalviewjsTransferSiteCoreDir}/${jalviewjs_j2s_subdir}/core"
def prefixFile = "${jsDir}/core/coretop2.js"
def suffixFile = "${jsDir}/core/corebottom2.js"
outputs.file(zjsfile)
}
- // _stevesoft core. add any cores without a classlist here (and the inputs and outputs)
- def stevesoftClasslistName = "_stevesoft"
- def stevesoftClasslist = [
- 'jsfile': "${outputDir}/core${stevesoftClasslistName}.js",
- 'zjsfile': "${outputDir}/core${stevesoftClasslistName}.z.js",
- 'list': fileTree(dir: j2sDir, include: "com/stevesoft/pat/**/*.js"),
- 'name': stevesoftClasslistName
- ]
- jalviewjsCoreClasslists += stevesoftClasslist
- inputs.files(stevesoftClasslist['list'])
- outputs.file(stevesoftClasslist['jsfile'])
- outputs.file(stevesoftClasslist['zjsfile'])
-
// _all core
def allClasslistName = "_all"
def allJsFiles = fileTree(dir: j2sDir, include: "**/*.js")
task jalviewjsPublishCoreTemplates {
dependsOn jalviewjsBuildAllCores
+
def inputFileName = "${jalviewDir}/${j2s_coretemplate_html}"
def inputFile = file(inputFileName)
def outputDir = "${jalviewDir}/${jalviewjsTransferSiteCoreDir}"
task jalviewjsSyncCore (type: Sync) {
dependsOn jalviewjsBuildAllCores
dependsOn jalviewjsPublishCoreTemplates
+
def inputFiles = fileTree(dir: "${jalviewDir}/${jalviewjsTransferSiteCoreDir}")
def outputDir = "${jalviewDir}/${jalviewjsSiteDir}"
// this Copy version of TransferSiteJs will delete anything else in the target dir
+task jalviewjsCopyTransferSiteMergeDir(type: Copy) {
+ dependsOn jalviewjsTranserSiteMergeDirs
+
+ from "${jalviewDir}/${jalviewjsTransferSiteMergeDir}"
+ into "${jalviewDir}/${jalviewjsSiteDir}"
+}
+
+
+// this Copy version of TransferSiteJs will delete anything else in the target dir
task jalviewjsCopyTransferSiteJs(type: Copy) {
dependsOn jalviewjsTranspile
+
from "${jalviewDir}/${jalviewjsTransferSiteJsDir}"
into "${jalviewDir}/${jalviewjsSiteDir}"
}
task jalviewjsPrepareSite {
group "JalviewJS"
description "Prepares the website folder including unzipping files and copying resources"
- dependsOn jalviewjsSyncAllLibs
+ //dependsOn jalviewjsSyncAllLibs // now using jalviewjsCopyTransferSiteMergeDir
dependsOn jalviewjsSyncResources
dependsOn jalviewjsSyncSiteResources
dependsOn jalviewjsSyncBuildProperties
task jalviewjsBuildSite {
group "JalviewJS"
description "Builds the whole website including transpiled code"
- dependsOn jalviewjsCopyTransferSiteJs
+ dependsOn jalviewjsCopyTransferSiteMergeDir
dependsOn jalviewjsPrepareSite
}
git://source.jalview.org / jalview.git / blobdiff