}
}
-def hugoTemplateSubstitutions(String input) {
+def hugoTemplateSubstitutions(String input, Map extras=null) {
+ def replacements = [
+ DATE: getDate("yyyy-MM-dd"),
+ CHANNEL: propertiesChannelName,
+ APPLICATION_NAME: applicationName,
+ GIT_HASH: gitHash,
+ GIT_BRANCH: gitBranch,
+ VERSION: JALVIEW_VERSION,
+ JAVA_VERSION: JAVA_VERSION,
+ VERSION_UNDERSCORES: JALVIEW_VERSION_UNDERSCORES
+ ]
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### ${e.text()}\n\n"
- }
+ if (extras != null) {
+ extras.each{ k, v ->
+ output = output.replaceAll("__${k}__", ((v == null)?"":v))
}
}
- return list
+ replacements.each{ k, v ->
+ output = output.replaceAll("__${k}__", ((v == null)?"":v))
+ }
+ return output
}
task hugoTemplates {
def hugoTemplatesDir = file("${jalviewDir}/${hugo_templates_dir}")
def hugoBuildDir = "${jalviewDir}/${hugo_build_dir}"
def templateFiles = fileTree(dir: hugoTemplatesDir)
+ def releaseMdFile = file("${jalviewDir}/${releases_dir}/release-${JALVIEW_VERSION_UNDERSCORES}.md")
+ def whatsnewMdFile = file("${jalviewDir}/${whatsnew_dir}/whatsnew-${JALVIEW_VERSION_UNDERSCORES}.md")
+ def releaseTemplateFile = file("${jalviewDir}/${releases_template}")
+ def releasesTemplateFile = file("${jalviewDir}/${releases_template}")
+ def whatsnewTemplateFile = file("${jalviewDir}/${whatsnew_template}")
doFirst {
// specific release template for version archive
- def summary = "${applicationName} ${JALVIEW_VERSION}"
def changes = ""
- def oldDate = null
+ def whatsnew = null
+ def givenDate = null
+ def givenChannel = null
+ def givenVersion = null
if (CHANNEL == "RELEASE") {
def releasesHtmlFile = file("${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 = ""
- }
+ //MD_PARSE
+ if (releaseMdFile.exists()) {
+ def inFrontMatter = false
+ def itemComment = null
+ def firstLine = true
+ releaseMdFile.eachLine { line ->
+ if (line.matches("---")) {
+ def prev = inFrontMatter
+ inFrontMatter = firstLine
+ if (inFrontMatter != prev)
+ return
}
-
- [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 (inFrontMatter) {
+ def m = null
+ if (m = line =~ /^date:\s*([0-9\-]+)/) {
+ givenDate = new Date().parse("yyyy-MM-dd", m[0][1])
+ } else if (m = line =~ /^channel:\s*(\S+)/) {
+ givenChannel = m[0][1]
+ } else if (m = line =~ /^version:\s*(\S+)/) {
+ givenVersion = m[0][1]
}
+ } else {
+ changes += line+"\n"
}
+ firstLine = false
+ }
+ if (givenVersion != null && givenVersion != JALVIEW_VERSION) {
+ throw new GradleException("'version' header (${givenVersion}) found in ${releaseMdFile} does not match JALVIEW_VERSION (${JALVIEW_VERSION})")
+ }
+ if (whatsnewMdFile.exists()) {
+ whatsnew = whatsnewMdFile.text
+ }
+ def content = releaseMdFile.text
+ }
+ }
- if (changes != "") {
- changes = "<div class=\"release_notes\">\n\n${changes}\n\n</div>"
+ def changesHugo = null
+ if (changes != null) {
+ changesHugo = '<div class="release_notes">\n\n'
+ def inSection = false
+ changes.eachLine { line ->
+ def m = null
+ if (m = line =~ /^##([^#].*)$/) {
+ if (inSection) {
+ changesHugo += "</div>\n\n"
+ }
+ def section = m[0][1].trim()
+ section = section.toLowerCase()
+ section = section.replaceAll(/ +/, "_")
+ section = section.replaceAll(/[^a-z0-9_\-]/, "")
+ changesHugo += "<div class=\"${section}\">\n\n"
+ inSection = true
+ } else if (m = line =~ /^(\s*-\s*)<!--([^>]+)-->(.*)/) {
+ def comment = m[0][2].trim()
+ if (comment != "") {
+ comment = comment.replaceAll('"', """)
+ def issuekeys = []
+ comment.eachMatch(/JAL-\d+/) { jal -> issuekeys += jal }
+ def newline = m[0][1]
+ if (comment.trim() != "")
+ newline += "{{<comment>}}${comment}{{</comment>}} "
+ newline += m[0][3].trim()
+ if (issuekeys.size() > 0)
+ newline += " {{< jal issue=\"${issuekeys.join(",")}\" alt=\"${comment}\" >}}"
+ line = newline
}
}
+ changesHugo += line+"\n"
+ }
+ if (inSection) {
+ changesHugo += "\n</div>\n\n"
}
+ changesHugo += '</div>'
}
templateFiles.each{ templateFile ->
def newRelPathName = hugoTemplateSubstitutions( relPath.toString() )
def outPathName = string("${hugoBuildDir}/$newRelPathName")
-
+
copy {
from templateFile
rename(templateFile.getName(), newFileName)
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)
+ newFile.text = hugoTemplateSubstitutions(content,
+ [
+ WHATSNEW: whatsnew,
+ CHANGES: changesHugo,
+ DATE: givenDate.format("yyyy-MM-dd")
+ ]
+ )
}
+
}
inputs.dir(hugoTemplatesDir)
+ inputs.file(releaseTemplateFile)
+ inputs.file(releasesTemplateFile)
+ inputs.file(whatsnewTemplateFile)
inputs.property("JALVIEW_VERSION", { JALVIEW_VERSION })
inputs.property("CHANNEL", { CHANNEL })
}
--- /dev/null
+<html>
+<!--
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ -->
+<head>
+<title>What's new ?</title>
+</head>
+<body>
+ <p>
+ <strong>Welcome to Jalview Version $$Version-Rel$$ !!</strong><br/>
+ </p>
+ <p>
+__WHATSNEW__
+ </p>
+ <p>
+ This release series provides support for two popular 3D
+ structure visualisation tools, new features for discovery of 3D
+ structures, improved platform integration and a new command line
+ tool allowing Jalview to be more easily called from scripts.</p>
+
+ <p>
+ <strong>View predicted protein structures via 3D-Beacons</strong> <br>
+ Jalview 2.11.2's <a href="features/structurechooser.html">Structure
+ Chooser includes a client for the 3D-Beacons Network</a>. Launched in
+ 2021, the 3D-Beacons network (<a
+ href="https://www.ebi.ac.uk/pdbe/pdbe-kb/3dbeacons/">www.ebi.ac.uk/pdbe/pdbe-kb/3dbeacons/</a>)
+ provides a central point for the retrieval of predicted and observed
+ 3D structures for sequences in Uniprot, including homology models
+ from Swiss-model and deep learning based predictions from the EBI's
+ Alphafold database (Orengo et al. 2020, <a
+ href="https://doi.org/10.12688/f1000research.20559.1">doi:10.12688/f1000research.20559.1</a>).<br>
+ </p>
+
+ <p>
+ <strong>Support for viewing structures with ChimeraX and
+ Pymol</strong><br> Jalview's 3D structure viewer system has been
+ re-architected to allow easier integration of external structure
+ viewers, and takes advantage of the strucViz2 Chimera communications
+ library developed by Scooter Morris (<a
+ href="https://doi.org/10.1093/bioinformatics/btm329">doi:10.1093/bioinformatics/btm329</a>).<br /> <br />
+ The <a href="features/preferences.html#structure">Structures
+ Preferences tab</a> provides new options allowing ChimeraX and
+ Pymol to be used for visualising external 3D structures. Views
+ from all structure viewers are saved in Jalview Projects, allowing
+ them to be shared with others using Jalview 2.11.2 or later,
+ providing they have the same viewer installed and configured to be
+ used with Jalview.<br/><br/>Jalview
+ 2.11.2 has been tested with <strong>Pymol 2.5.0 (community)</strong> and <strong>2.5.2
+ (incentive)</strong>. For <strong>ChimeraX, we recommend using v1.3 or later</strong>.
+ </p>
+ <p>Other highlights include:</p>
+ <ul>
+ <li>Import of annotated DNA and RNA loci via GenBank and EMBL
+ style flatfile</li>
+ <li><strong>Easier configuration of <a
+ href="features/preferences.html#startup">Jalview's memory
+ allocation</a></strong></li>
+ <li>Scripts for <a href="features/commandline.html">running
+ Jalview via the command line</a> on macOS, Linux/Unix and Windows.
+ </li>
+ </ul>
+
+
+ <p>
+ For the full details, see <a
+ href="releases.html#Jalview.2.11.2.1">the Jalview 2.11.2.1
+ release notes</a>.
+ </p>
+ <p>
+ <strong>Known Issues</strong> <br />The following known issues will
+ be addressed in a minor patch release.
+
+ <ul>
+ <li>Display of RESNUM sequence features are not suppressed when
+ structures associated with a sequence are viewed with an external
+ viewer (Regression from 2.11.1 series)</li>
+ </ul>
+ <p></p>
+</body>
+</html>
--- /dev/null
+
+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 })
+}
+
git://source.jalview.org / jalview.git / commitdiff