import com.vladsch.flexmark.ext.autolink.AutolinkExtension
import com.vladsch.flexmark.ext.anchorlink.AnchorLinkExtension
import com.vladsch.flexmark.ext.toc.TocExtension
+import com.google.common.hash.HashCode
+import com.google.common.hash.Hashing
+import com.google.common.io.Files
+import org.jsoup.Jsoup
+import org.jsoup.nodes.Element
buildscript {
repositories {
}
dependencies {
classpath "com.vladsch.flexmark:flexmark-all:0.62.0"
+ classpath "org.jsoup:jsoup:1.14.3"
}
}
testSourceDir = useClover ? cloverTestInstrDir : testDir
testClassesDir = useClover ? cloverTestClassesDir : "${jalviewDir}/${test_output_dir}"
- getdownWebsiteDir = string("${jalviewDir}/${getdown_website_dir}/${JAVA_VERSION}")
+ getdownChannelDir = string("${getdown_website_dir}/${propertiesChannelName}")
+ getdownAppBaseDir = string("${jalviewDir}/${getdownChannelDir}/${JAVA_VERSION}")
getdownArchiveDir = string("${jalviewDir}/${getdown_archive_dir}")
getdownFullArchiveDir = null
getdownTextLines = []
getdownLaunchJvl = null
+ getdownVersionLaunchJvl = null
buildDist = true
buildProperties = null
// the following values might be overridden by the CHANNEL switch
getdownDir = string("${getdownChannelName}/${JAVA_VERSION}")
getdownAppBase = string("${getdown_channel_base}/${getdownDir}")
- getdownArchiveAppBase = null
+ getdownArchiveAppBase = getdown_archive_base
getdownLauncher = string("${jalviewDir}/${getdown_lib_dir}/${getdown_launcher}")
getdownAppDistDir = getdown_app_dir_alt
getdownImagesDir = string("${jalviewDir}/${getdown_images_dir}")
install4jBackground = string("${install4j_images_dir}/${install4j_background}")
install4jBuildDir = "${install4j_build_dir}/${JAVA_VERSION}"
install4jCheckSums = true
+
+ applicationName = "${jalview_name}"
switch (CHANNEL) {
case "BUILD":
reportRsyncCommand = true
install4jSuffix = ""
install4jInstallerName = "${jalview_name} Installer"
- getdownArchiveAppBase = getdown_archive_base
break
case "ARCHIVE":
case "ARCHIVELOCAL":
getdownChannelName = string("archive/${JALVIEW_VERSION}")
getdownDir = string("${getdownChannelName}/${JAVA_VERSION}")
- getdownAppBase = file(getdownWebsiteDir).toURI().toString()
+ getdownAppBase = file(getdownAppBaseDir).toURI().toString()
if (!file("${ARCHIVEDIR}/${package_dir}").exists()) {
throw new GradleException("Must provide an ARCHIVEDIR value to produce an archive distribution")
} else {
case [ "LOCAL", "JALVIEWJS" ]:
JALVIEW_VERSION = "TEST"
- getdownAppBase = file(getdownWebsiteDir).toURI().toString()
+ getdownAppBase = file(getdownAppBaseDir).toURI().toString()
getdownArchiveAppBase = file("${jalviewDir}/${getdown_archive_dir}").toURI().toString()
getdownLauncher = string("${jalviewDir}/${getdown_lib_dir}/${getdown_launcher_local}")
install4jExtraScheme = "jalviewl"
}
JALVIEW_VERSION_UNDERSCORES = JALVIEW_VERSION.replaceAll("\\.", "_")
+ hugoDataJsonFile = file("${jalviewDir}/${hugo_build_dir}/${hugo_data_installers_dir}/installers-${JALVIEW_VERSION_UNDERSCORES}.json")
+ hugoArchiveMdFile = file("${jalviewDir}/${hugo_build_dir}/${hugo_version_archive_dir}/Version-${JALVIEW_VERSION_UNDERSCORES}/_index.md")
// override getdownAppBase if requested
if (findProperty("getdown_appbase_override") != null) {
// revert to LOCAL if empty string
if (string(getdown_appbase_override) == "") {
- getdownAppBase = file(getdownWebsiteDir).toURI().toString()
+ getdownAppBase = file(getdownAppBaseDir).toURI().toString()
getdownLauncher = string("${jalviewDir}/${getdown_lib_dir}/${getdown_launcher_local}")
} else if (string(getdown_appbase_override).startsWith("file://")) {
getdownAppBase = string(getdown_appbase_override)
jvlChannelName = jvlChannelName.replaceAll("[^\\w\\-]+", "_")
// install4j application and folder names
if (install4jSuffix == "") {
- install4jApplicationName = "${jalview_name}"
install4jBundleId = "${install4j_bundle_id}"
install4jWinApplicationId = install4j_release_win_application_id
} else {
- install4jApplicationName = "${jalview_name} ${install4jSuffix}"
+ applicationName = "${jalview_name} ${install4jSuffix}"
install4jBundleId = "${install4j_bundle_id}-" + install4jSuffix.toLowerCase()
// add int hash of install4jSuffix to the last part of the application_id
def id = install4j_release_win_application_id
}
// sanitise folder and id names
// install4jApplicationFolder = e.g. "Jalview Build"
- install4jApplicationFolder = install4jApplicationName
+ install4jApplicationFolder = applicationName
.replaceAll("[\"'~:/\\\\\\s]", "_") // replace all awkward filename chars " ' ~ : / \
.replaceAll("_+", "_") // collapse __
- install4jInternalId = install4jApplicationName
+ install4jInternalId = applicationName
.replaceAll(" ","_")
.replaceAll("[^\\w\\-\\.]", "_") // replace other non [alphanumeric,_,-,.]
.replaceAll("_+", "") // collapse __
//.replaceAll("_*-_*", "-") // collapse _-_
- install4jUnixApplicationFolder = install4jApplicationName
+ install4jUnixApplicationFolder = applicationName
.replaceAll(" ","_")
.replaceAll("[^\\w\\-\\.]", "_") // replace other non [alphanumeric,_,-,.]
.replaceAll("_+", "_") // collapse __
.toLowerCase()
getdownWrapperLink = install4jUnixApplicationFolder // e.g. "jalview_local"
- getdownAppDir = string("${getdownWebsiteDir}/${getdownAppDistDir}")
- //getdownJ11libDir = "${getdownWebsiteDir}/${getdown_j11lib_dir}"
- getdownResourceDir = string("${getdownWebsiteDir}/${getdown_resource_dir}")
- getdownInstallDir = string("${getdownWebsiteDir}/${getdown_install_dir}")
+ getdownAppDir = string("${getdownAppBaseDir}/${getdownAppDistDir}")
+ //getdownJ11libDir = "${getdownAppBaseDir}/${getdown_j11lib_dir}"
+ getdownResourceDir = string("${getdownAppBaseDir}/${getdown_resource_dir}")
+ getdownInstallDir = string("${getdownAppBaseDir}/${getdown_install_dir}")
getdownFilesDir = string("${jalviewDir}/${getdown_files_dir}/${JAVA_VERSION}/")
getdownFilesInstallDir = string("${getdownFilesDir}/${getdown_install_dir}")
/* compile without modules -- using classpath libraries
manifest {
attributes "Main-Class": main_class,
"Permissions": "all-permissions",
- "Application-Name": install4jApplicationName,
+ "Application-Name": applicationName,
"Codebase": application_codebase,
"Implementation-Version": JALVIEW_VERSION
}
}
manifest {
attributes "Implementation-Version": JALVIEW_VERSION,
- "Application-Name": install4jApplicationName
+ "Application-Name": applicationName
}
duplicatesStrategy "INCLUDE"
doFirst {
// clean the getdown website and files dir before creating getdown folders
- delete getdownWebsiteDir
+ delete getdownAppBaseDir
delete getdownFilesDir
copy {
copy {
from channelPropsFile
- into getdownWebsiteDir
+ into getdownAppBaseDir
}
getdownWebsiteResourceFilenames += file(channelPropsFile).getName()
}
props.put("getdown_txt_title", jalview_name)
- props.put("getdown_txt_ui.name", install4jApplicationName)
+ props.put("getdown_txt_ui.name", applicationName)
// start with appbase
getdownTextLines += "appbase = ${getdownAppBase}"
if (s.exists()) {
copy {
from s
- into "${getdownWebsiteDir}/${getdown_wrapper_script_dir}"
+ into "${getdownAppBaseDir}/${getdown_wrapper_script_dir}"
}
getdownTextLines += "resource = ${getdown_wrapper_script_dir}/${script}"
}
getdownTextLines += "jvmarg = -Dgetdownappbase=${getdownAppBase}"
}
- def getdownTxt = file("${getdownWebsiteDir}/getdown.txt")
+ def getdownTxt = file("${getdownAppBaseDir}/getdown.txt")
getdownTxt.write(getdownTextLines.join("\n"))
getdownLaunchJvl = getdown_launch_jvl_name + ( (jvlChannelName != null && jvlChannelName.length() > 0)?"-${jvlChannelName}":"" ) + ".jvl"
- def launchJvl = file("${getdownWebsiteDir}/${getdownLaunchJvl}")
+ def launchJvl = file("${getdownAppBaseDir}/${getdownLaunchJvl}")
launchJvl.write("appbase=${getdownAppBase}")
// files going into the getdown website dir: getdown-launcher.jar
copy {
from getdownLauncher
rename(file(getdownLauncher).getName(), getdown_launcher_new)
- into getdownWebsiteDir
+ into getdownAppBaseDir
}
// files going into the getdown website dir: getdown-launcher(-local).jar
if (file(getdownLauncher).getName() != getdown_launcher) {
rename(file(getdownLauncher).getName(), getdown_launcher)
}
- into getdownWebsiteDir
+ into getdownAppBaseDir
}
// files going into the getdown website dir: ./install dir and files
from getdownTxt
from launchJvl
from getdownLauncher
- from "${getdownWebsiteDir}/${getdown_build_properties}"
- from "${getdownWebsiteDir}/${channel_props}"
+ from "${getdownAppBaseDir}/${getdown_build_properties}"
+ from "${getdownAppBaseDir}/${channel_props}"
if (file(getdownLauncher).getName() != getdown_launcher) {
rename(file(getdownLauncher).getName(), getdown_launcher)
}
if (buildDist) {
inputs.dir("${jalviewDir}/${package_dir}")
}
- outputs.dir(getdownWebsiteDir)
+ outputs.dir(getdownAppBaseDir)
outputs.dir(getdownFilesDir)
}
classpath = files(getdownLauncher)
}
main = "com.threerings.getdown.tools.Digester"
- args getdownWebsiteDir
- inputs.dir(getdownWebsiteDir)
- outputs.file("${getdownWebsiteDir}/digest2.txt")
+ args getdownAppBaseDir
+ inputs.dir(getdownAppBaseDir)
+ outputs.file("${getdownAppBaseDir}/digest2.txt")
}
dependsOn getdownDigest
doLast {
if (reportRsyncCommand) {
- def fromDir = getdownWebsiteDir + (getdownWebsiteDir.endsWith('/')?'':'/')
+ def fromDir = getdownAppBaseDir + (getdownAppBaseDir.endsWith('/')?'':'/')
def toDir = "${getdown_rsync_dest}/${getdownDir}" + (getdownDir.endsWith('/')?'':'/')
println "LIKELY RSYNC COMMAND:"
println "mkdir -p '$toDir'\nrsync -avh --delete '$fromDir' '$toDir'"
def v = "v${JALVIEW_VERSION_UNDERSCORES}"
def vDir = "${getdownArchiveDir}/${v}"
getdownFullArchiveDir = "${vDir}/getdown"
- def vLaunchVersionJvl = "${vDir}/jalview-${v}.jvl"
+ getdownVersionLaunchJvl = "${vDir}/jalview-${v}.jvl"
+
def vAltDir = "alt_${v}"
def archiveImagesDir = "${jalviewDir}/${channel_properties_dir}/old/images"
doFirst {
- if (getdownArchiveAppBase == null) {
- throw new StopExecutionException("Cannot create getdownArchive for CHANNEL=${CHANNEL}")
- }
-
// cleanup old "old" dir
delete getdownArchiveDir
// the libdir
copy {
- from "${getdownWebsiteDir}/${getdownAppDistDir}"
+ from "${getdownAppBaseDir}/${getdownAppDistDir}"
into "${getdownFullArchiveDir}/${vAltDir}"
}
getdownArchiveTxt.write(getdownArchiveTextLines.join("\n"))
- def vLaunchJvl = file(vLaunchVersionJvl)
+ def vLaunchJvl = file(getdownVersionLaunchJvl)
vLaunchJvl.getParentFile().mkdirs()
vLaunchJvl.write("appbase=${getdownFullArchiveAppBase}\n")
def vLaunchJvlPath = vLaunchJvl.toPath().toAbsolutePath()
// files going into the getdown files dir: getdown.txt, getdown-launcher.jar, channel-launch.jvl, build_properties
copy {
from getdownLauncher
- from "${getdownWebsiteDir}/${getdownLaunchJvl}"
- from "${getdownWebsiteDir}/${getdown_launcher_new}"
- from "${getdownWebsiteDir}/${channel_props}"
+ from "${getdownAppBaseDir}/${getdownLaunchJvl}"
+ from "${getdownAppBaseDir}/${getdown_launcher_new}"
+ from "${getdownAppBaseDir}/${channel_props}"
if (file(getdownLauncher).getName() != getdown_launcher) {
rename(file(getdownLauncher).getName(), getdown_launcher)
}
clean {
doFirst {
- delete getdownWebsiteDir
+ delete getdownAppBaseDir
delete getdownFilesDir
delete getdownArchiveDir
}
task cleanInstallersDataFiles {
def installersOutputTxt = file("${jalviewDir}/${install4jBuildDir}/output.txt")
def installersSha256 = file("${jalviewDir}/${install4jBuildDir}/sha256sums")
- def VERSION_UNDERSCORES = JALVIEW_VERSION.replaceAll("\\.", "_")
- def installersJsonFile = file("${jalviewDir}/${install4jBuildDir}/installers-${VERSION_UNDERSCORES}.json")
+ def hugoDataJsonFile = file("${jalviewDir}/${install4jBuildDir}/installers-${JALVIEW_VERSION_UNDERSCORES}.json")
doFirst {
delete installersOutputTxt
delete installersSha256
- delete installersJsonFile
+ delete hugoDataJsonFile
}
}
variables = [
'JALVIEW_NAME': jalview_name,
- 'JALVIEW_APPLICATION_NAME': install4jApplicationName,
+ 'JALVIEW_APPLICATION_NAME': applicationName,
'JALVIEW_DIR': "../..",
'OSX_KEYSTORE': OSX_KEYSTORE,
'OSX_APPLEID': OSX_APPLEID,
'WRAPPER_SCRIPT_BIN_DIR': getdown_wrapper_script_dir,
'INSTALLER_NAME': install4jInstallerName,
'INSTALL4J_UTILS_DIR': install4j_utils_dir,
- 'GETDOWN_WEBSITE_DIR': getdown_website_dir,
+ 'GETDOWN_CHANNEL_DIR': getdownChannelDir,
'GETDOWN_FILES_DIR': getdown_files_dir,
'GETDOWN_RESOURCE_DIR': getdown_resource_dir,
'GETDOWN_DIST_DIR': getdownAppDistDir,
}
//verbose=true
- inputs.dir(getdownWebsiteDir)
+ inputs.dir(getdownAppBaseDir)
inputs.file(install4jConfFile)
inputs.file("${install4jDir}/${install4j_info_plist_file_associations}")
inputs.dir(macosJavaVMDir)
outputs.dir("${jalviewDir}/${install4j_build_dir}/${JAVA_VERSION}")
}
-def writeInstallersJsonFile(File installersOutputTxt, File installersSha256, File installersJsonFile) {
- if (!installersOutputTxt.exists()) {
- throw new GradleException("Required input file '${installersOutputTxt.getPath()}' doesn't exist.")
- return null;
- }
- if (install4jCheckSums && (!installersSha256)) {
- throw new GradleException("Required input file '${installersSha256.getPath()}' doesn't exist.")
- return null;
- }
- def hash = ["channel":getdownChannelName,"date":getDate("yyyy-MM-dd HH:mm:ss")]
- def idHash = [:]
- installersOutputTxt.readLines().each { def line ->
- if (line.startsWith("#")) {
- return;
- }
- line.replaceAll("\n","")
- def vals = line.split("\t")
- def filename = vals[3]
- def filesize = file(filename).length()
- filename = filename.replaceAll(/^.*\//, "")
- hash[vals[0]] = [ "id" : vals[0], "os" : vals[1], "name" : vals[2], "file" : filename, "filesize" : filesize ]
- idHash."${filename}" = vals[0]
- }
- if (install4jCheckSums) {
- installersSha256.readLines().each { def line ->
+def getDataHash(File myFile) {
+ HashCode hash = Files.asByteSource(myFile).hash(Hashing.sha256())
+ return myFile.exists()
+ ? [
+ "file" : myFile.getName(),
+ "filesize" : myFile.length(),
+ "sha256" : hash.toString()
+ ]
+ : null
+}
+
+def writeDataJsonFile(File installersOutputTxt, File installersSha256, File dataJsonFile) {
+ def hash = [
+ "channel" : getdownChannelName,
+ "date" : getDate("yyyy-MM-dd HH:mm:ss"),
+ "git-commit" : "${gitHash} [${gitBranch}]",
+ "version" : JALVIEW_VERSION
+ ]
+ // install4j installer files
+ if (installersOutputTxt.exists()) {
+ def idHash = [:]
+ installersOutputTxt.readLines().each { def line ->
if (line.startsWith("#")) {
return;
}
line.replaceAll("\n","")
- def vals = line.split(/\s+\*?/)
- def filename = vals[1]
- def innerHash = (hash.(idHash."${filename}"))."sha256" = vals[0]
+ def vals = line.split("\t")
+ def filename = vals[3]
+ def filesize = file(filename).length()
+ filename = filename.replaceAll(/^.*\//, "")
+ hash[vals[0]] = [ "id" : vals[0], "os" : vals[1], "name" : vals[2], "file" : filename, "filesize" : filesize ]
+ idHash."${filename}" = vals[0]
+ }
+ if (install4jCheckSums && installersSha256.exists()) {
+ installersSha256.readLines().each { def line ->
+ if (line.startsWith("#")) {
+ return;
+ }
+ line.replaceAll("\n","")
+ def vals = line.split(/\s+\*?/)
+ def filename = vals[1]
+ def innerHash = (hash.(idHash."${filename}"))."sha256" = vals[0]
+ }
}
}
- return installersJsonFile.write(new JsonBuilder(hash).toPrettyString())
-}
-
-
-/*
-ALSO COMPILE AND ADD IN TO THE JSON FILE INFO FOR EXECUTABLE JAR, VERSION JVL FILE, SOURCE TAR FILE
-*/
-
-
-
-
-
-
-task makeInstallersJsonFile {
- dependsOn installerFiles
- def installersOutputTxt = file("${jalviewDir}/${install4jBuildDir}/output.txt")
- def installersSha256 = file("${jalviewDir}/${install4jBuildDir}/sha256sums")
- def VERSION_UNDERSCORES = JALVIEW_VERSION.replaceAll("\\.", "_")
- def installersJsonFile = file("${jalviewDir}/${install4jBuildDir}/installers-${VERSION_UNDERSCORES}.json")
-
- inputs.file(installersOutputTxt)
- if (install4jCheckSums) {
- inputs.file(installersSha256)
- }
- outputs.file(installersJsonFile)
-
- doFirst {
- writeInstallersJsonFile(installersOutputTxt, installersSha256, installersJsonFile)
+ [
+ "JAR": shadowJar.archiveFile, // executable JAR
+ "JVL": getdownVersionLaunchJvl, // version JVL
+ "SOURCE": sourceDist.archiveFile // source TGZ
+ ].each { key, value ->
+ def file = file(value)
+ if (file.exists()) {
+ def fileHash = getDataHash(file)
+ if (fileHash != null) {
+ hash."${key}" = fileHash;
+ }
+ }
}
+ return dataJsonFile.write(new JsonBuilder(hash).toPrettyString())
}
task staticMakeInstallersJsonFile {
if (output == null || sha256 == null || json == null) {
throw new GradleException("Must provide paths to all of output.txt, sha256sums, and output.json with '-Pi4j_output=... -Pi4j_sha256=... -Pi4j_json=...")
}
- writeInstallersJsonFile(file(output), file(sha256), file(json))
+ writeDataJsonFile(file(output), file(sha256), file(json))
}
}
task installers {
dependsOn installerFiles
- dependsOn makeInstallersJsonFile
}
exclude ("utils/InstallAnywhere")
exclude (getdown_files_dir)
- exclude (getdown_website_dir)
+ // getdown_website_dir and getdown_archive_dir moved to build/website/docroot/getdown
+ //exclude (getdown_website_dir)
+ //exclude (getdown_archive_dir)
// exluding these as not using jars as modules yet
exclude ("${j11modDir}/**/*.jar")
}
}
+task dataInstallersJson {
+ group "website"
+ description "Create the installers-VERSION.json data file for installer files created"
+
+ mustRunAfter installers
+ mustRunAfter shadowJar
+ mustRunAfter sourceDist
+ mustRunAfter getdownArchive
+
+ def installersOutputTxt = file("${jalviewDir}/${install4jBuildDir}/output.txt")
+ def installersSha256 = file("${jalviewDir}/${install4jBuildDir}/sha256sums")
+
+ if (installersOutputTxt.exists()) {
+ inputs.file(installersOutputTxt)
+ }
+ if (install4jCheckSums && installersSha256.exists()) {
+ inputs.file(installersSha256)
+ }
+ [
+ shadowJar.archiveFile, // executable JAR
+ getdownVersionLaunchJvl, // version JVL
+ sourceDist.archiveFile // source TGZ
+ ].each { fileName ->
+ if (file(fileName).exists()) {
+ inputs.file(fileName)
+ }
+ }
+
+ outputs.file(hugoDataJsonFile)
+
+ doFirst {
+ writeDataJsonFile(installersOutputTxt, installersSha256, hugoDataJsonFile)
+ }
+}
+
+def hugoTemplateSubstitutions(String input) {
+ def output = input
+ output = output.replaceAll("__DATE__", getDate("yyyy-MM-dd"))
+ output = output.replaceAll("__CHANNEL__", propertiesChannelName)
+ output = output.replaceAll("__APPLICATION_NAME__", applicationName)
+ output = output.replaceAll("__GIT_HASH__", gitHash)
+ output = output.replaceAll("__GIT_BRANCH__", gitBranch)
+ output = output.replaceAll("__VERSION__", JALVIEW_VERSION)
+ output = output.replaceAll("__JAVA_VERSION__", JAVA_VERSION)
+ output = output.replaceAll("__VERSION_UNDERSCORES__", JALVIEW_VERSION_UNDERSCORES)
+ return output
+}
+
+def ulToList(Element ul, int indent) {
+ def list = ""
+ ul.children().each { e ->
+ if (e.tagName().toLowerCase() == "ul") {
+ list = list.stripTrailing() + "\n"
+ list += ulToList(e, indent+1)
+ } else if (e.tagName().toLowerCase() == "li") {
+ def issues = []
+ def issuesText = ""
+ def mdItem = " " * indent + "- "
+ e.childNodes().any {n ->
+ if (n.nodeName().equals("#comment")) {
+ mdItem += "{{<comment>}}${n.getData()}{{</comment>}} "
+ issuesText = n.getData().trim()
+ issues = n.getData().trim().split(/[,\s]+/).findAll { it.startsWith("JAL-") }
+ return true
+ }
+ }
+ def safeText = issuesText.replaceAll('"', '\"')
+ def joinedIssues = issues.join(",")
+ def issuesLink = (issues.size() > 0) ?
+ " {{< jal issue=\"${joinedIssues}\" alt=\"${safeText}\" >}}"
+ : ""
+ def addedIssues = false
+ e.childNodes().each { node ->
+ if (node.nodeName().toLowerCase() == "ul") {
+ // add issues link before sub list if it's last
+ if (node.nextSibling() == null) {
+ mdItem += "${issuesLink}"
+ addedIssues = true
+ }
+ mdItem = mdItem.stripTrailing() + "\n"
+ mdItem += ulToList(node, indent+1)
+ } else if (node.nodeName() == "#text") {
+ mdItem += node.text()
+ } else if (node.nodeName().toLowerCase() == "strong") {
+ mdItem += "**${node.text()}**"
+ } else if (node.nodeName().toLowerCase() == "em") {
+ // if (true || (node.text().length() > 50 && node.text().count(" ") > 10) || (!node.nextSibling().text().startsWith("\\s*\\n"))) {
+ mdItem += "*${node.text()}*"
+ // } else {
+ // mdItem += "### "+node.text()
+ // }
+ } else if (node.nodeName().toLowerCase() == "br") {
+ mdItem += "<br/>\n"
+ } else if (node.nodeName().toLowerCase() == "a") {
+ mdItem += "[${node.text()}](${node.attr('href')})"
+ }
+ }
+ if (!addedIssues) {
+ mdItem += issuesLink
+ }
+ list += mdItem.stripTrailing()+"\n"
+ } else if (e.tagName().toLowerCase() == "div") {
+ e.children().each { eee ->
+ list += ulToList(eee, indent)
+ }
+ } else if (e.tagName().toLowerCase() == "strong") {
+ list += "**${e.text()}**"
+ } else if (e.tagName().toLowerCase() == "em") {
+ if (e.text().length() > 50 && e.text().count(" ") > 20) {
+ list += "*${e.text()}*"
+ } else {
+ list += "\n\n### ${e.text()}\n\n"
+ }
+ }
+ }
+ return list
+}
+
+task hugoTemplates {
+ group "website"
+ description "Create partially populated md pages for hugo website build"
+
+ def hugoTemplatesDir = file("${jalviewDir}/${hugo_templates_dir}")
+ def hugoBuildDir = "${jalviewDir}/${hugo_build_dir}"
+ def templateFiles = fileTree(dir: hugoTemplatesDir)
+
+ doFirst {
+ // specific release template for version archive
+ def summary = "${applicationName} ${JALVIEW_VERSION}"
+ def changes = ""
+ def oldDate = null
+ if (CHANNEL == "RELEASE") {
+ def releasesHtmlFile = file("${helpSourceDir}/${releases_html}")
+ //HTMLPARSE
+ def html = releasesHtmlFile.text
+ def doc = Jsoup.parse(html)
+ def table = doc.select("table").first()
+ def headings = table.select("tr").first().select("th").collect { it.text() }
+ def releaseRow = null
+ def trs = table.select("tr")
+ trs.any { tr ->
+ def tds = tr.select("td")
+ if (tds.size() == 0)
+ return false
+ def releaseTd = tds.first()
+ if (releaseTd.text().startsWith("${JALVIEW_VERSION} ")) {
+ releaseRow = tr
+ return true
+ }
+ }
+
+ if (releaseRow != null && headings != null && headings.size() == 3) {
+ def releaseTd = releaseRow.select("td").first()
+ def spaceIndex = releaseTd.text().indexOf(" ")
+ if (spaceIndex >= 0) {
+ oldDate = new Date().parse("dd/MM/yyyy", releaseTd.text().substring(spaceIndex+1))
+ }
+ def releaseCells = releaseRow.select("td")
+ if (releaseCells.size() == 3) {
+ def title1 = headings[1]
+ def title2 = headings[2]
+
+ def lastDotIndex = JALVIEW_VERSION.lastIndexOf(".")
+ if (lastDotIndex > 0) {
+ try {
+ def patchRelease = JALVIEW_VERSION.substring(lastDotIndex+1) as Integer
+ def patchReleaseString = null
+ if (patchRelease == 0) {
+ patchReleaseString = "first minor"
+ } else if (patchRelease == 1) {
+ patchReleaseString = "first patch"
+ } else if (patchRelease == 2) {
+ patchReleaseString = "second patch"
+ } else if (patchRelease == 3) {
+ patchReleaseString = "third patch"
+ } else if (patchRelease == 4) {
+ patchReleaseString = "fourth patch"
+ } else if (patchRelease == 5) {
+ patchReleaseString = "fifth patch"
+ } else if (patchRelease == 6) {
+ patchReleaseString = "sixth patch"
+ } else if (patchRelease == 7) {
+ patchReleaseString = "seventh patch"
+ } else if (patchRelease > 13 && (patchRelease % 10 == 1)) {
+ patchReleaseString += "st"
+ } else if (patchRelease > 13 && (patchRelease % 10 == 2)) {
+ patchReleaseString += "nd"
+ } else if (patchRelease > 13 && (patchRelease % 10 == 3)) {
+ patchReleaseString += "rd"
+ } else if (patchRelease != null) {
+ patchReleaseString += "th"
+ }
+ summary += (patchReleaseString != null) ? " is the ${patchReleaseString} release in the ${JALVIEW_VERSION.substring(0,lastDotIndex)} series." : ""
+ } catch(Exception e) {
+ summary = ""
+ }
+ }
+
+ [1,2].each { col ->
+ def colChanges = ""
+ if (headings[col] != null && headings[col].size() > 0) {
+ releaseCells[col].children().each { e ->
+ if (e.tagName().toLowerCase() == "ul" || e.tagName().toLowerCase() == "div") {
+ if (colChanges != "") {
+ colChanges = colChanges.stripTrailing() + "\n"
+ }
+ colChanges += ulToList(e, 0)
+ } else if (e.tagName().toLowerCase() == "em") {
+ colChanges += "\n\n### ${e.text()}\n\n"
+ }
+ }
+ }
+ if (colChanges != "") {
+ def className = headings[col].replaceAll(" ","_").toLowerCase().replaceAll("[^_a-z]","")
+ changes += "<div class=\"${className}\">\n\n## ${headings[col]}\n\n${colChanges}\n</div>\n\n"
+ }
+ }
+
+ if (changes != "") {
+ changes = "<div class=\"release_notes\">\n\n${changes}\n\n</div>"
+ }
+ }
+ }
+ }
+
+ templateFiles.each{ templateFile ->
+ def newFileName = string(hugoTemplateSubstitutions(templateFile.getName()))
+ def relPath = hugoTemplatesDir.toPath().relativize(templateFile.toPath()).getParent()
+ def newRelPathName = hugoTemplateSubstitutions( relPath.toString() )
+
+ def outPathName = string("${hugoBuildDir}/$newRelPathName")
+
+ copy {
+ from templateFile
+ rename(templateFile.getName(), newFileName)
+ into outPathName
+ }
+
+ def newFile = file("${outPathName}/${newFileName}".toString())
+ def content = newFile.text
+ // summary in version archive release pages only appears from 2.10.2b2 onwards
+ if (oldDate.format("yyyy") as Integer >= 2019 || JALVIEW_VERSION.startsWith("2.10")) {
+ def summaryFile = file("${jalviewDir}/${whatsnew_dir}/whatsnew-${JALVIEW_VERSION_UNDERSCORES}.md")
+ if (summaryFile.exists()) {
+ summary = summaryFile.text
+ } else {
+ summary = ""
+ }
+ content = content.replaceAll("__SUMMARY__", summary)
+ } else {
+ content = content.replaceAll("__SUMMARY__", "")
+ }
+ content = content.replaceAll("__CHANGES__", changes)
+ if (oldDate != null) {
+ if (oldDate[java.util.Calendar.YEAR] < 90) {
+ oldDate[java.util.Calendar.YEAR] += 2000
+ }
+ content = content.replaceAll("__DATE__", oldDate.format("yyyy-MM-dd"))
+ }
+ newFile.text = hugoTemplateSubstitutions(content)
+ }
+ }
+
+ inputs.dir(hugoTemplatesDir)
+ inputs.property("JALVIEW_VERSION", { JALVIEW_VERSION })
+ inputs.property("CHANNEL", { CHANNEL })
+}
+
task helppages {
dependsOn copyHelp