X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=utils%2Finstall4j%2Finstall4j_template.install4j;h=d1c85e966edd26e270e8068cd20366a619e022ff;hb=refs%2Fheads%2Fbug%2FJAL-247autoIdWidthSeqMarker;hp=a006a234b52a6889f82bafaae0dbae32269d4bff;hpb=07df1587079d0e87b9913464e453cd585cf4b0f1;p=jalview.git

diff --git a/utils/install4j/install4j_template.install4j b/utils/install4j/install4j_template.install4j
index a006a23..d1c85e9 100644
--- a/utils/install4j/install4j_template.install4j
+++ b/utils/install4j/install4j_template.install4j
@@ -1,17 +1,23 @@
 <?xml version="1.0" encoding="UTF-8"?>
-<install4j version="7.0.9" transformSequenceNumber="7">
-  <directoryPresets config="../../../../../buildtools/jre/openjdk-java_vm/macos-jdk8u202-b08-jre" />
-  <application name="Jalview" distributionSourceDir="" applicationId="6595-2347-1923-0725" mediaDir="../../build/install4j" mediaFilePattern="${compiler:sys.shortName}_${compiler:sys.platform}_${compiler:sys.version}" compression="6" lzmaCompression="true" pack200Compression="false" excludeSignedFromPacking="true" commonExternalFiles="false" createMd5Sums="true" shrinkRuntime="true" shortName="Jalview" publisher="University of Dundee" publisherWeb="http://www.jalview.org/" version="$$VERSION$$" allPathsRelative="true" backupOnSave="false" autoSave="false" convertDotsToUnderscores="true" macSignature="????" macVolumeId="5aac4968c304f65" javaMinVersion="9999999999" javaMaxVersion="15" allowBetaVM="true" jdkMode="jdk" jdkName="JDK 11.0">
+<install4j version="7.0.11" transformSequenceNumber="7">
+  <directoryPresets config="." />
+  <application name="Jalview" distributionSourceDir="" applicationId="6595-2347-1923-0725" mediaDir="../../build/install4j" mediaFilePattern="${compiler:sys.shortName}_${compiler:sys.platform}_${compiler:sys.version}" compression="6" lzmaCompression="true" pack200Compression="false" excludeSignedFromPacking="true" commonExternalFiles="false" createMd5Sums="true" shrinkRuntime="true" shortName="Jalview" publisher="University of Dundee" publisherWeb="http://www.jalview.org/" version="$$VERSION$$" allPathsRelative="true" backupOnSave="false" autoSave="false" convertDotsToUnderscores="true" macSignature="????" macVolumeId="5aac4968c304f65" javaMinVersion="9999999999" javaMaxVersion="" allowBetaVM="true" jdkMode="jdk" jdkName="JDK 11.0">
     <languages skipLanguageSelection="false" languageSelectionInPrincipalLanguage="false">
       <principalLanguage id="en" customLocalizationFile="" />
       <additionalLanguages />
     </languages>
     <searchSequence>
-      <directory location="java_vm" />
+      <directory location="${compiler:JRE_DIR}" />
+      <registry />
+      <envVar name="JAVA_HOME" />
     </searchSequence>
-    <variables />
+    <variables>
+      <variable name="OSX_KEYSTORE" value="" description="" category="" />
+      <variable name="JSIGN_SH" value="" description="" category="" />
+      <variable name="JRE_DIR" value="jre" description="The folder under the app folder that the JRE will be either copied or unpacked into" category="" />
+    </variables>
     <mergedProjects />
-    <codeSigning macEnabled="false" macPkcs12File="" windowsEnabled="false" windowsKeySource="pkcs12" windowsPvkFile="" windowsSpcFile="" windowsPkcs12File="" windowsPkcs11Library="" windowsPkcs11Slot="">
+    <codeSigning macEnabled="true" macPkcs12File="${compiler:OSX_KEYSTORE}" windowsEnabled="false" windowsKeySource="pkcs12" windowsPvkFile="" windowsSpcFile="" windowsPkcs12File="" windowsPkcs11Library="" windowsPkcs11Slot="">
       <windowsKeystoreIdentifier issuer="" serial="" subject="" />
       <windowsPkcs11Identifier issuer="" serial="" subject="" />
     </codeSigning>
@@ -21,29 +27,41 @@
       <fileset name="Full file set" id="734" customizedId="" />
       <fileset name="Mac OS X JRE" id="880" customizedId="" />
       <fileset name="Windows JRE" id="882" customizedId="" />
+      <fileset name="Jalview application" id="1873" customizedId="" />
+      <fileset name="MacOS Old Jalview Uninstaller" id="2105" customizedId="" />
     </filesets>
     <roots>
       <root id="735" fileset="734" location="" />
       <root id="881" fileset="880" location="" />
       <root id="883" fileset="882" location="" />
+      <root id="1874" fileset="1873" location="" />
+      <root id="2106" fileset="2105" location="" />
     </roots>
     <mountPoints>
       <mountPoint id="454" root="" location="" mode="755" />
       <mountPoint id="736" root="735" location="" mode="755" />
       <mountPoint id="884" root="881" location="" mode="755" />
       <mountPoint id="885" root="883" location="" mode="755" />
+      <mountPoint id="1875" root="1874" location="" mode="755" />
+      <mountPoint id="2107" root="2106" location="" mode="755" />
     </mountPoints>
     <entries>
-      <dirEntry mountPoint="454" file="../../getdown/files/$$JAVA_VERSION$$" overwriteMode="4" shared="false" fileMode="644" uninstallMode="0" overrideFileMode="false" overrideOverwriteMode="true" overrideUninstallMode="true" entryMode="direct" subDirectory="files" excludeSuffixes="" dirMode="755" overrideDirMode="false">
+      <dirEntry mountPoint="454" file="../../getdown/files/$$JAVA_VERSION$$" overwriteMode="4" shared="false" fileMode="644" uninstallMode="2" overrideFileMode="false" overrideOverwriteMode="true" overrideUninstallMode="true" entryMode="direct" subDirectory="files" excludeSuffixes="" dirMode="755" overrideDirMode="false">
         <exclude />
       </dirEntry>
-      <dirEntry mountPoint="736" file="../../getdown/website/$$JAVA_VERSION$$" overwriteMode="4" shared="false" fileMode="644" uninstallMode="0" overrideFileMode="false" overrideOverwriteMode="true" overrideUninstallMode="true" entryMode="direct" subDirectory="files" excludeSuffixes="" dirMode="755" overrideDirMode="false">
+      <dirEntry mountPoint="736" file="../../getdown/website/$$JAVA_VERSION$$" overwriteMode="4" shared="false" fileMode="644" uninstallMode="2" overrideFileMode="false" overrideOverwriteMode="true" overrideUninstallMode="true" entryMode="direct" subDirectory="files" excludeSuffixes="" dirMode="755" overrideDirMode="false">
         <exclude />
       </dirEntry>
-      <dirEntry mountPoint="884" file="$$MACOS_JAVA_VM_DIR$$" overwriteMode="4" shared="false" fileMode="755" uninstallMode="0" overrideFileMode="true" overrideOverwriteMode="false" overrideUninstallMode="true" entryMode="subdir" subDirectory="java_vm" excludeSuffixes="" dirMode="755" overrideDirMode="false">
+      <dirEntry mountPoint="884" file="$$MACOS_JAVA_VM_DIR$$" overwriteMode="4" shared="false" fileMode="755" uninstallMode="0" overrideFileMode="true" overrideOverwriteMode="false" overrideUninstallMode="true" entryMode="subdir" subDirectory="${compiler:JRE_DIR}" excludeSuffixes="" dirMode="755" overrideDirMode="false">
         <exclude />
       </dirEntry>
-      <dirEntry mountPoint="885" file="$$WINDOWS_JAVA_VM_DIR$$" overwriteMode="4" shared="false" fileMode="755" uninstallMode="0" overrideFileMode="true" overrideOverwriteMode="false" overrideUninstallMode="true" entryMode="subdir" subDirectory="java_vm" excludeSuffixes="" dirMode="755" overrideDirMode="false">
+      <dirEntry mountPoint="885" file="$$WINDOWS_JAVA_VM_DIR$$" overwriteMode="4" shared="false" fileMode="755" uninstallMode="0" overrideFileMode="true" overrideOverwriteMode="false" overrideUninstallMode="true" entryMode="subdir" subDirectory="${compiler:JRE_DIR}" excludeSuffixes="" dirMode="755" overrideDirMode="false">
+        <exclude />
+      </dirEntry>
+      <dirEntry mountPoint="1875" file="../../getdown/website/$$JAVA_VERSION$$/$$GETDOWN_DIST_DIR$$" overwriteMode="1" shared="false" fileMode="644" uninstallMode="2" overrideFileMode="true" overrideOverwriteMode="true" overrideUninstallMode="true" entryMode="subdir" subDirectory="$$GETDOWN_DIST_DIR$$" excludeSuffixes="" dirMode="755" overrideDirMode="true">
+        <exclude />
+      </dirEntry>
+      <dirEntry mountPoint="2107" file="Uninstall Old Jalview.app" overwriteMode="4" shared="false" fileMode="755" uninstallMode="0" overrideFileMode="true" overrideOverwriteMode="false" overrideUninstallMode="false" entryMode="subdir" subDirectory="Uninstall Old Jalview.app" excludeSuffixes="" dirMode="755" overrideDirMode="true">
         <exclude />
       </dirEntry>
     </entries>
@@ -76,12 +94,26 @@
         </include>
         <dependencies />
       </component>
+      <component name="jalview" id="1881" customizedId="" displayDescription="false" hideHelpButton="false" selected="true" changeable="true" downloadable="false" hidden="false">
+        <description />
+        <include all="false">
+          <entry location=".i4j_fileset_1873" fileType="regular" />
+        </include>
+        <dependencies />
+      </component>
+      <component name="macos_old_jalview_uninstaller" id="2110" customizedId="" displayDescription="false" hideHelpButton="false" selected="true" changeable="true" downloadable="false" hidden="false">
+        <description />
+        <include all="false">
+          <entry location=".i4j_fileset_2105" fileType="regular" />
+        </include>
+        <dependencies />
+      </component>
     </components>
   </files>
   <launchers>
-    <launcher name="Offline Jalview Launcher" id="737" customizedId="" external="false" excludeFromMenu="false" unixMode="755" unixAutoStart="true" menuName="${compiler:sys.shortName}-${compiler:sys.version}" icnsFile="../../resources/images/jalview_logos.icns" customMacBundleIdentifier="false" macBundleIdentifier="" swtApp="false" fileset="734" macBundleBinary="JavaApplicationStub" addMacEntitlements="false" macEntitlementsFile="" useCustomMacosExecutableName="true" customMacosExecutableName="${compiler:sys.shortName}" useJavaMinVersionOverride="false" javaMinVersionOverride="" useJavaMaxVersionOverride="false" javaMaxVersionOverride="" checkUpdater="false" updateExecutionMode="unattendedProgress" unattendedUpdateTitle="${i18n:updater.WindowTitle(&quot;${compiler:sys.fullName}&quot;)}">
-      <executable name="Jalview" type="1" iconSet="true" iconFile="../../resources/images/jalview_logos.ico" executableDir="." redirectStderr="true" stderrFile="error.log" stderrMode="overwrite" redirectStdout="true" stdoutFile="output.log" stdoutMode="overwrite" failOnStderrOutput="true" executableMode="1" changeWorkingDirectory="true" workingDirectory="." singleInstance="true" serviceStartType="2" serviceDependencies="" serviceDescription="" jreLocation="" executionLevel="asInvoker" checkConsoleParameter="true" globalSingleInstance="false" singleInstanceActivate="true" dpiAware="java9+">
-        <versionInfo include="false" fileVersion="" fileDescription="" legalCopyright="" internalName="" productName="" />
+    <launcher name="Offline Jalview Launcher" id="737" customizedId="" external="false" excludeFromMenu="false" unixMode="755" unixAutoStart="true" menuName="${compiler:sys.shortName}" icnsFile="../../resources/images/jalview_logos.icns" customMacBundleIdentifier="true" macBundleIdentifier="$$MACOS_BUNDLE_ID$$" swtApp="false" fileset="734" macBundleBinary="JavaApplicationStub" addMacEntitlements="false" macEntitlementsFile="" useCustomMacosExecutableName="true" customMacosExecutableName="${compiler:sys.shortName}" useJavaMinVersionOverride="false" javaMinVersionOverride="" useJavaMaxVersionOverride="false" javaMaxVersionOverride="" checkUpdater="false" updateExecutionMode="unattendedProgress" unattendedUpdateTitle="${i18n:updater.WindowTitle(&quot;${compiler:sys.fullName}&quot;)}">
+      <executable name="${compiler:sys.shortName}" type="1" iconSet="true" iconFile="../../resources/images/jalview_logos.ico" executableDir="." redirectStderr="true" stderrFile="error.log" stderrMode="overwrite" redirectStdout="true" stdoutFile="output.log" stdoutMode="overwrite" failOnStderrOutput="true" executableMode="1" changeWorkingDirectory="true" workingDirectory="." singleInstance="true" serviceStartType="2" serviceDependencies="" serviceDescription="" jreLocation="" executionLevel="asInvoker" checkConsoleParameter="true" globalSingleInstance="false" singleInstanceActivate="true" dpiAware="java9+">
+        <versionInfo include="true" fileVersion="" fileDescription="${compiler:sys.shortName}" legalCopyright="$$COPYRIGHT_MESSAGE$$" internalName="${compiler:sys.shortName}" productName="${compiler:sys.shortName}" />
       </executable>
       <splashScreen show="false" width="640" height="480" bitmapFile="../../resources/images/jalview_logo_background_fade-640x480.png" textOverlay="true">
         <text>
@@ -89,10 +121,10 @@
           <versionLine x="85" y="109" text="version ${compiler:sys.version}" fontSize="8" fontColor="0,0,0" bold="false" />
         </text>
       </splashScreen>
-      <java mainClass="com.threerings.getdown.launcher.GetdownApp" mainMode="1" vmParameters="" arguments="." allowVMPassthroughParameters="true" preferredVM="" bundleRuntime="true">
+      <java mainClass="com.threerings.getdown.launcher.GetdownApp" mainMode="1" vmParameters="" arguments=". jalview" allowVMPassthroughParameters="true" preferredVM="" bundleRuntime="true">
         <classPath>
-          <archive location="dist/getdown-launcher.jar" failOnError="true" />
-          <archive location="dist/commons-compress-1.18.jar" failOnError="true" />
+          <archive location="getdown-launcher.jar" failOnError="true" />
+          <scanDirectory location="$$GETDOWN_INSTALL_DIR$$" failOnError="false" />
         </classPath>
         <modulePath />
         <nativeLibraryDirectories />
@@ -106,16 +138,16 @@
       <customScript mode="1" file="">
         <content />
       </customScript>
-      <infoPlist mode="1" file="">
+      <infoPlist mode="2" file="$$INSTALL4JINFOPLISTFILEASSOCIATIONS$$">
         <content />
       </infoPlist>
       <iconImageFiles>
-        <file path="../../resources/images/Jalview_Logo.png" />
+        <file path="../../resources/images/JalviewLogo_Huge.png" />
       </iconImageFiles>
     </launcher>
-    <launcher name="Network Jalview Launcher" id="1402" customizedId="" external="false" excludeFromMenu="false" unixMode="755" unixAutoStart="true" menuName="${compiler:sys.shortName}-${compiler:sys.version}" icnsFile="../../resources/images/jalview_logos.icns" customMacBundleIdentifier="false" macBundleIdentifier="" swtApp="false" fileset="" macBundleBinary="JavaApplicationStub" addMacEntitlements="false" macEntitlementsFile="" useCustomMacosExecutableName="true" customMacosExecutableName="${compiler:sys.shortName}" useJavaMinVersionOverride="false" javaMinVersionOverride="" useJavaMaxVersionOverride="false" javaMaxVersionOverride="" checkUpdater="false" updateExecutionMode="unattendedProgress" unattendedUpdateTitle="${i18n:updater.WindowTitle(&quot;${compiler:sys.fullName}&quot;)}">
+    <launcher name="Network Jalview Launcher" id="1402" customizedId="" external="false" excludeFromMenu="false" unixMode="755" unixAutoStart="true" menuName="${compiler:sys.shortName}" icnsFile="../../resources/images/jalview_logos.icns" customMacBundleIdentifier="true" macBundleIdentifier="$$MACOS_BUNDLE_ID$$" swtApp="false" fileset="" macBundleBinary="JavaApplicationStub" addMacEntitlements="false" macEntitlementsFile="" useCustomMacosExecutableName="true" customMacosExecutableName="${compiler:sys.shortName}" useJavaMinVersionOverride="false" javaMinVersionOverride="" useJavaMaxVersionOverride="false" javaMaxVersionOverride="" checkUpdater="false" updateExecutionMode="unattendedProgress" unattendedUpdateTitle="${i18n:updater.WindowTitle(&quot;${compiler:sys.fullName}&quot;)}">
       <executable name="Jalview" type="1" iconSet="true" iconFile="../../resources/images/jalview_logos.ico" executableDir="." redirectStderr="true" stderrFile="error.log" stderrMode="overwrite" redirectStdout="true" stdoutFile="output.log" stdoutMode="overwrite" failOnStderrOutput="true" executableMode="1" changeWorkingDirectory="true" workingDirectory="." singleInstance="true" serviceStartType="2" serviceDependencies="" serviceDescription="" jreLocation="" executionLevel="asInvoker" checkConsoleParameter="true" globalSingleInstance="false" singleInstanceActivate="true" dpiAware="java9+">
-        <versionInfo include="false" fileVersion="" fileDescription="" legalCopyright="" internalName="" productName="" />
+        <versionInfo include="true" fileVersion="" fileDescription="${compiler:sys.shortName}" legalCopyright="$$COPYRIGHT_MESSAGE$$" internalName="${compiler:sys.shortName}" productName="${compiler:sys.shortName}" />
       </executable>
       <splashScreen show="false" width="640" height="480" bitmapFile="../../resources/images/jalview_logo_background_fade-640x480.png" textOverlay="true">
         <text>
@@ -123,10 +155,43 @@
           <versionLine x="85" y="109" text="version ${compiler:sys.version}" fontSize="8" fontColor="0,0,0" bold="false" />
         </text>
       </splashScreen>
-      <java mainClass="com.threerings.getdown.launcher.GetdownApp" mainMode="1" vmParameters="" arguments="." allowVMPassthroughParameters="true" preferredVM="" bundleRuntime="true">
+      <java mainClass="com.threerings.getdown.launcher.GetdownApp" mainMode="1" vmParameters="" arguments=". jalview" allowVMPassthroughParameters="true" preferredVM="" bundleRuntime="true">
         <classPath>
-          <archive location="dist/getdown-launcher.jar" failOnError="true" />
-          <archive location="dist/commons-compress-1.18.jar" failOnError="true" />
+          <archive location="getdown-launcher.jar" failOnError="true" />
+          <scanDirectory location="$$GETDOWN_INSTALL_DIR$$" failOnError="false" />
+        </classPath>
+        <modulePath />
+        <nativeLibraryDirectories />
+        <vmOptions />
+      </java>
+      <includedFiles />
+      <unextractableFiles />
+      <vmOptionsFile mode="template" overwriteMode="0" fileMode="644">
+        <content />
+      </vmOptionsFile>
+      <customScript mode="1" file="">
+        <content />
+      </customScript>
+      <infoPlist mode="2" file="$$INSTALL4JINFOPLISTFILEASSOCIATIONS$$">
+        <content />
+      </infoPlist>
+      <iconImageFiles>
+        <file path="../../resources/images/JalviewLogo_Huge.png" />
+      </iconImageFiles>
+    </launcher>
+    <launcher name="Jalview package" id="1876" customizedId="" external="false" excludeFromMenu="false" unixMode="755" unixAutoStart="true" menuName="${compiler:sys.shortName} $$VERSION$$" icnsFile="" customMacBundleIdentifier="false" macBundleIdentifier="" swtApp="false" fileset="1873" macBundleBinary="JavaApplicationStub" addMacEntitlements="false" macEntitlementsFile="" useCustomMacosExecutableName="false" customMacosExecutableName="" useJavaMinVersionOverride="false" javaMinVersionOverride="" useJavaMaxVersionOverride="false" javaMaxVersionOverride="" checkUpdater="false" updateExecutionMode="unattendedProgress" unattendedUpdateTitle="${i18n:updater.WindowTitle(&quot;${compiler:sys.fullName}&quot;)}">
+      <executable name="${compiler:sys.shortName}" type="1" iconSet="true" iconFile="" executableDir="" redirectStderr="false" stderrFile="error.log" stderrMode="overwrite" redirectStdout="false" stdoutFile="output.log" stdoutMode="overwrite" failOnStderrOutput="false" executableMode="1" changeWorkingDirectory="false" workingDirectory="." singleInstance="true" serviceStartType="2" serviceDependencies="" serviceDescription="" jreLocation="" executionLevel="asInvoker" checkConsoleParameter="false" globalSingleInstance="false" singleInstanceActivate="true" dpiAware="java9+">
+        <versionInfo include="false" fileVersion="" fileDescription="" legalCopyright="" internalName="" productName="" />
+      </executable>
+      <splashScreen show="false" width="0" height="0" bitmapFile="" textOverlay="false">
+        <text>
+          <statusLine x="20" y="20" text="" fontSize="8" fontColor="0,0,0" bold="false" />
+          <versionLine x="20" y="40" text="version ${compiler:sys.version}" fontSize="8" fontColor="0,0,0" bold="false" />
+        </text>
+      </splashScreen>
+      <java mainClass="jalview.bin.Launcher" mainMode="1" vmParameters="" arguments="" allowVMPassthroughParameters="true" preferredVM="" bundleRuntime="true">
+        <classPath>
+          <scanDirectory location="$$GETDOWN_DIST_DIR$$" failOnError="false" />
         </classPath>
         <modulePath />
         <nativeLibraryDirectories />
@@ -144,11 +209,11 @@
         <content />
       </infoPlist>
       <iconImageFiles>
-        <file path="../../resources/images/Jalview_Logo.png" />
+        <file path="../../resources/images/JalviewLogo_Huge.png" />
       </iconImageFiles>
     </launcher>
   </launchers>
-  <installerGui installerType="1" addOnAppId="" suggestPreviousLocations="true" autoUpdateDescriptorUrl="" useAutoUpdateBaseUrl="false" autoUpdateBaseUrl="">
+  <installerGui installerType="1" addOnAppId="" suggestPreviousLocations="true" autoUpdateDescriptorUrl="https://www.jalview.org/install4j/updates.xml" useAutoUpdateBaseUrl="false" autoUpdateBaseUrl="">
     <staticMembers script="" />
     <customCode />
     <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
@@ -230,9 +295,6 @@
                     <void property="enabledTitleText">
                       <boolean>false</boolean>
                     </void>
-                    <void property="labelText">
-                      <string>install4j</string>
-                    </void>
                   </object>
                 </java>
               </serializedBean>
@@ -265,7 +327,11 @@
               <action name="" id="22" customizedId="" beanClass="com.install4j.runtime.beans.actions.misc.RequestPrivilegesAction" enabled="true" commentSet="false" comment="" actionElevationType="none" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
-                    <object class="com.install4j.runtime.beans.actions.misc.RequestPrivilegesAction" />
+                    <object class="com.install4j.runtime.beans.actions.misc.RequestPrivilegesAction">
+                      <void property="obtainIfAdminWin">
+                        <boolean>false</boolean>
+                      </void>
+                    </object>
                   </java>
                 </serializedBean>
                 <condition />
@@ -480,17 +546,17 @@ return console.askOkCancel(message, true);
                 <initScript />
                 <visibilityScript />
                 <externalParametrizationPropertyNames>
-                  <propertyName>suggestAppDir</propertyName>
-                  <propertyName>validateApplicationId</propertyName>
-                  <propertyName>existingDirWarning</propertyName>
+                  <propertyName>allowSpacesOnUnix</propertyName>
+                  <propertyName>checkFreeSpace</propertyName>
                   <propertyName>checkWritable</propertyName>
+                  <propertyName>existingDirWarning</propertyName>
                   <propertyName>manualEntryAllowed</propertyName>
-                  <propertyName>checkFreeSpace</propertyName>
-                  <propertyName>showRequiredDiskSpace</propertyName>
                   <propertyName>showFreeDiskSpace</propertyName>
-                  <propertyName>allowSpacesOnUnix</propertyName>
-                  <propertyName>validationScript</propertyName>
+                  <propertyName>showRequiredDiskSpace</propertyName>
                   <propertyName>standardValidation</propertyName>
+                  <propertyName>suggestAppDir</propertyName>
+                  <propertyName>validateApplicationId</propertyName>
+                  <propertyName>validationScript</propertyName>
                 </externalParametrizationPropertyNames>
               </formComponent>
             </formComponents>
@@ -540,6 +606,55 @@ return console.askOkCancel(message, true);
               </formComponent>
             </formComponents>
           </screen>
+          <screen name="" id="1692" customizedId="" beanClass="com.install4j.runtime.beans.screens.FileAssociationsScreen" enabled="true" commentSet="false" comment="" actionElevationType="inherit" styleId="" rollbackBarrier="false" rollbackBarrierExitCode="0" backButton="2" finishScreen="false" wizardIndexChangeType="unchanged" wizardIndexKey="">
+            <serializedBean>
+              <java class="java.beans.XMLDecoder">
+                <object class="com.install4j.runtime.beans.screens.FileAssociationsScreen" />
+              </java>
+            </serializedBean>
+            <styleOverrides />
+            <condition />
+            <validation />
+            <preActivation />
+            <postActivation />
+            <actions />
+            <formComponents>
+              <formComponent name="" id="1693" customizedId="" beanClass="com.install4j.runtime.beans.formcomponents.MultilineLabelComponent" enabled="true" commentSet="false" comment="" insetTop="" insetLeft="" insetBottom="" insetRight="" resetInitOnPrevious="false" useExternalParametrization="false" externalParametrizationName="" externalParametrizationMode="all">
+                <serializedBean>
+                  <java class="java.beans.XMLDecoder">
+                    <object class="com.install4j.runtime.beans.formcomponents.MultilineLabelComponent">
+                      <void property="labelText">
+                        <string>${i18n:SelectAssociationsLabel}</string>
+                      </void>
+                    </object>
+                  </java>
+                </serializedBean>
+                <initScript />
+                <visibilityScript />
+                <externalParametrizationPropertyNames />
+              </formComponent>
+              <formComponent name="" id="1694" customizedId="" beanClass="com.install4j.runtime.beans.formcomponents.FileAssociationsComponent" enabled="true" commentSet="false" comment="" insetTop="" insetLeft="" insetBottom="" insetRight="" resetInitOnPrevious="false" useExternalParametrization="true" externalParametrizationName="File Associations" externalParametrizationMode="include">
+                <serializedBean>
+                  <java class="java.beans.XMLDecoder">
+                    <object class="com.install4j.runtime.beans.formcomponents.FileAssociationsComponent">
+                      <void property="fillVertical">
+                        <boolean>true</boolean>
+                      </void>
+                      <void property="showSelectionButtons">
+                        <boolean>true</boolean>
+                      </void>
+                    </object>
+                  </java>
+                </serializedBean>
+                <initScript />
+                <visibilityScript />
+                <externalParametrizationPropertyNames>
+                  <propertyName>showSelectionButtons</propertyName>
+                  <propertyName>selectionButtonPosition</propertyName>
+                </externalParametrizationPropertyNames>
+              </formComponent>
+            </formComponents>
+          </screen>
           <screen name="" id="15" customizedId="" beanClass="com.install4j.runtime.beans.screens.InstallationScreen" enabled="true" commentSet="false" comment="" actionElevationType="inherit" styleId="" rollbackBarrier="true" rollbackBarrierExitCode="0" backButton="2" finishScreen="false" wizardIndexChangeType="unchanged" wizardIndexKey="">
             <serializedBean>
               <java class="java.beans.XMLDecoder">
@@ -648,62 +763,92 @@ return console.askOkCancel(message, true);
             <preActivation />
             <postActivation />
             <actions>
-              <action name="" id="573" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.CreateDesktopLinkAction" enabled="false" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+              <action name="" id="2012" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.CreateStartMenuEntryAction" enabled="true" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
-                    <object class="com.install4j.runtime.beans.actions.desktop.CreateDesktopLinkAction">
-                      <void property="name">
-                        <string>${compiler:sys.fullName}</string>
+                    <object class="com.install4j.runtime.beans.actions.desktop.CreateStartMenuEntryAction">
+                      <void property="allUsers">
+                        <boolean>false</boolean>
+                      </void>
+                      <void property="entryName">
+                        <string>${compiler:sys.shortName}</string>
+                      </void>
+                      <void property="file">
+                        <object class="java.io.File">
+                          <string>${compiler:sys.shortName}</string>
+                        </object>
+                      </void>
+                      <void property="icon">
+                        <object class="com.install4j.api.beans.ExternalFile">
+                          <string>../../resources/images/jalview_logos.ico</string>
+                        </object>
+                      </void>
+                      <void property="unixIconFile">
+                        <object class="com.install4j.api.beans.ExternalFile">
+                          <string>../../resources/images/JalviewLogo_Huge.png</string>
+                        </object>
                       </void>
                     </object>
                   </java>
                 </serializedBean>
-                <condition>context.getBooleanVariable("createDesktopLinkAction")</condition>
+                <condition>!context.getBooleanVariable("sys.programGroupDisabled")</condition>
               </action>
-              <action name="" id="575" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.AddStartupItemAction" enabled="false" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+              <action name="" id="573" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.CreateDesktopLinkAction" enabled="true" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="Could not make desktop link">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
-                    <object class="com.install4j.runtime.beans.actions.desktop.AddStartupItemAction" />
+                    <object class="com.install4j.runtime.beans.actions.desktop.CreateDesktopLinkAction">
+                      <void property="allUsers">
+                        <boolean>false</boolean>
+                      </void>
+                      <void property="description">
+                        <string>${compiler:sys.shortName}</string>
+                      </void>
+                      <void property="file">
+                        <object class="java.io.File">
+                          <string>${compiler:sys.shortName}</string>
+                        </object>
+                      </void>
+                      <void property="name">
+                        <string>${compiler:sys.fullName}</string>
+                      </void>
+                      <void property="unixIconFile">
+                        <object class="com.install4j.api.beans.ExternalFile">
+                          <string>../../resources/images/JalviewLogo_Huge.png</string>
+                        </object>
+                      </void>
+                      <void property="winIconFile">
+                        <object class="com.install4j.api.beans.ExternalFile">
+                          <string>../../resources/images/jalview_logos.ico</string>
+                        </object>
+                      </void>
+                    </object>
                   </java>
                 </serializedBean>
-                <condition />
+                <condition>context.getBooleanVariable("createDesktopLinkAction")</condition>
               </action>
-              <action name="" id="576" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.AddToDockAction" enabled="false" commentSet="false" comment="" actionElevationType="none" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+              <action name="" id="576" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.AddToDockAction" enabled="true" commentSet="false" comment="" actionElevationType="none" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
-                    <object class="com.install4j.runtime.beans.actions.desktop.AddToDockAction" />
+                    <object class="com.install4j.runtime.beans.actions.desktop.AddToDockAction">
+                      <void property="executable">
+                        <object class="java.io.File">
+                          <string>Jalview.app</string>
+                        </object>
+                      </void>
+                    </object>
                   </java>
                 </serializedBean>
                 <condition>context.getBooleanVariable("addToDockAction")</condition>
               </action>
-              <action name="" id="578" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.CreateFileAssociationAction" enabled="true" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+              <action name="EXTENSIONS_REPLACED_BY_GRADLE" id="1691" customizedId="EXTENSIONS" beanClass="com.install4j.runtime.beans.actions.desktop.CreateFileAssociationAction" enabled="true" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
                     <object class="com.install4j.runtime.beans.actions.desktop.CreateFileAssociationAction">
                       <void property="description">
-                        <string>Jalview Project File</string>
+                        <string>This action, identified by its name "EXTENSIONS_REPLACED_BY_GRADLE", will be replaced by gradle with the contents of file 'file_associations_auto_install4j.xml'.</string>
                       </void>
                       <void property="extension">
-                        <string>jvp</string>
-                      </void>
-                      <void property="launcherId">
-                        <string>121</string>
-                      </void>
-                      <void property="macIconFile">
-                        <object class="com.install4j.api.beans.ExternalFile">
-                          <string>../../resources/images/file.png</string>
-                        </object>
-                      </void>
-                      <void property="macRole">
-                        <object class="java.lang.Enum" method="valueOf">
-                          <class>com.install4j.runtime.beans.actions.desktop.MacAssociationRole</class>
-                          <string>EDITOR</string>
-                        </object>
-                      </void>
-                      <void property="windowsIconFile">
-                        <object class="com.install4j.api.beans.ExternalFile">
-                          <string>../../resources/images/file.png</string>
-                        </object>
+                        <string>extensions_to_be_replaced_by_gradle</string>
                       </void>
                     </object>
                   </java>
@@ -770,7 +915,7 @@ return console.askOkCancel(message, true);
           </screen>
         </screens>
       </application>
-      <application name="" id="uninstaller" customizedId="" beanClass="com.install4j.runtime.beans.applications.UninstallerApplication" enabled="true" commentSet="false" comment="" actionElevationType="none" styleId="41" fileset="" customIcnsFile="" customIcoFile="" macEntitlementsFile="" automaticLauncherIntegration="false" launchMode="startupFirstWindow" launchInNewProcess="true" launchSchedule="updateSchedule" allLaunchers="true">
+      <application name="" id="uninstaller" customizedId="" beanClass="com.install4j.runtime.beans.applications.UninstallerApplication" enabled="true" commentSet="false" comment="" actionElevationType="none" styleId="35" fileset="" customIcnsFile="" customIcoFile="" macEntitlementsFile="" automaticLauncherIntegration="false" launchMode="startupFirstWindow" launchInNewProcess="true" launchSchedule="updateSchedule" allLaunchers="true">
         <serializedBean>
           <java class="java.beans.XMLDecoder">
             <object class="com.install4j.runtime.beans.applications.UninstallerApplication">
@@ -879,7 +1024,7 @@ return console.askOkCancel(message, true);
           </screen>
         </startup>
         <screens>
-          <screen name="" id="24" customizedId="" beanClass="com.install4j.runtime.beans.screens.UninstallWelcomeScreen" enabled="true" commentSet="false" comment="" actionElevationType="inherit" styleId="41" rollbackBarrier="false" rollbackBarrierExitCode="0" backButton="2" finishScreen="false" wizardIndexChangeType="unchanged" wizardIndexKey="">
+          <screen name="" id="24" customizedId="" beanClass="com.install4j.runtime.beans.screens.UninstallWelcomeScreen" enabled="true" commentSet="false" comment="" actionElevationType="inherit" styleId="" rollbackBarrier="false" rollbackBarrierExitCode="0" backButton="2" finishScreen="false" wizardIndexChangeType="unchanged" wizardIndexKey="">
             <serializedBean>
               <java class="java.beans.XMLDecoder">
                 <object class="com.install4j.runtime.beans.screens.UninstallWelcomeScreen" />
@@ -963,7 +1108,190 @@ return console.askYesNo(message, true);
                 </serializedBean>
                 <condition />
               </action>
-              <action name="" id="660" customizedId="" beanClass="com.install4j.runtime.beans.actions.control.SetProgressAction" enabled="true" commentSet="false" comment="" actionElevationType="none" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+              <action name="" id="660" customizedId="" beanClass="com.install4j.runtime.beans.actions.control.SetProgressAction" enabled="false" commentSet="false" comment="" actionElevationType="none" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+                <serializedBean>
+                  <java class="java.beans.XMLDecoder">
+                    <object class="com.install4j.runtime.beans.actions.control.SetProgressAction">
+                      <void property="percentValue">
+                        <int>95</int>
+                      </void>
+                    </object>
+                  </java>
+                </serializedBean>
+                <condition />
+              </action>
+              <action name="" id="1525" customizedId="" beanClass="com.install4j.runtime.beans.actions.files.DeleteFileAction" enabled="true" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+                <serializedBean>
+                  <java class="java.beans.XMLDecoder">
+                    <object class="com.install4j.runtime.beans.actions.files.DeleteFileAction">
+                      <void property="files">
+                        <array class="java.io.File" length="31">
+                          <void index="0">
+                            <object class="java.io.File">
+                              <string>jre</string>
+                            </object>
+                          </void>
+                          <void index="1">
+                            <object class="java.io.File">
+                              <string>jre.jar</string>
+                            </object>
+                          </void>
+                          <void index="2">
+                            <object class="java.io.File">
+                              <string>.install4j</string>
+                            </object>
+                          </void>
+                          <void index="3">
+                            <object class="java.io.File">
+                              <string>$$GETDOWN_DIST_DIR$$</string>
+                            </object>
+                          </void>
+                          <void index="4">
+                            <object class="java.io.File">
+                              <string>$$GETDOWN_ALT_DIR$$</string>
+                            </object>
+                          </void>
+                          <void index="5">
+                            <object class="java.io.File">
+                              <string>$$GETDOWN_RESOURCE_DIR$$</string>
+                            </object>
+                          </void>
+                          <void index="6">
+                            <object class="java.io.File">
+                              <string>getdown-launcher.jar</string>
+                            </object>
+                          </void>
+                          <void index="7">
+                            <object class="java.io.File">
+                              <string>getdown-launcher-old.jar</string>
+                            </object>
+                          </void>
+                          <void index="8">
+                            <object class="java.io.File">
+                              <string>getdown-launcher-new.jar</string>
+                            </object>
+                          </void>
+                          <void index="9">
+                            <object class="java.io.File">
+                              <string>*.jarv</string>
+                            </object>
+                          </void>
+                          <void index="10">
+                            <object class="java.io.File">
+                              <string>gettingdown.lock</string>
+                            </object>
+                          </void>
+                          <void index="11">
+                            <object class="java.io.File">
+                              <string>*.log</string>
+                            </object>
+                          </void>
+                          <void index="12">
+                            <object class="java.io.File">
+                              <string>*.txt</string>
+                            </object>
+                          </void>
+                          <void index="13">
+                            <object class="java.io.File">
+                              <string>*_new</string>
+                            </object>
+                          </void>
+                          <void index="14">
+                            <object class="java.io.File">
+                              <string>digest.txt</string>
+                            </object>
+                          </void>
+                          <void index="15">
+                            <object class="java.io.File">
+                              <string>digest2.txt</string>
+                            </object>
+                          </void>
+                          <void index="16">
+                            <object class="java.io.File">
+                              <string>getdown-launcher.jarv</string>
+                            </object>
+                          </void>
+                          <void index="17">
+                            <object class="java.io.File">
+                              <string>getdown-launcher-new.jarv</string>
+                            </object>
+                          </void>
+                          <void index="18">
+                            <object class="java.io.File">
+                              <string>channel_launch.jvl</string>
+                            </object>
+                          </void>
+                          <void index="19">
+                            <object class="java.io.File">
+                              <string>launcher.log</string>
+                            </object>
+                          </void>
+                          <void index="20">
+                            <object class="java.io.File">
+                              <string>proxy.txt</string>
+                            </object>
+                          </void>
+                          <void index="21">
+                            <object class="java.io.File">
+                              <string>META-INF</string>
+                            </object>
+                          </void>
+                          <void index="22">
+                            <object class="java.io.File">
+                              <string>install/getdown-launcher.jar</string>
+                            </object>
+                          </void>
+                          <void index="23">
+                            <object class="java.io.File">
+                              <string>install/getdown.txt</string>
+                            </object>
+                          </void>
+                          <void index="24">
+                            <object class="java.io.File">
+                              <string>install/build_properties</string>
+                            </object>
+                          </void>
+                          <void index="25">
+                            <object class="java.io.File">
+                              <string>build_properties</string>
+                            </object>
+                          </void>
+                          <void index="26">
+                            <object class="java.io.File">
+                              <string>install</string>
+                            </object>
+                          </void>
+                          <void index="27">
+                            <object class="java.io.File">
+                              <string>dist</string>
+                            </object>
+                          </void>
+                          <void index="28">
+                            <object class="java.io.File">
+                              <string>release</string>
+                            </object>
+                          </void>
+                          <void index="29">
+                            <object class="java.io.File">
+                              <string>alt</string>
+                            </object>
+                          </void>
+                          <void index="30">
+                            <object class="java.io.File">
+                              <string>resource</string>
+                            </object>
+                          </void>
+                        </array>
+                      </void>
+                      <void property="recursive">
+                        <boolean>true</boolean>
+                      </void>
+                    </object>
+                  </java>
+                </serializedBean>
+                <condition />
+              </action>
+              <action name="" id="1791" customizedId="" beanClass="com.install4j.runtime.beans.actions.control.SetProgressAction" enabled="true" commentSet="false" comment="" actionElevationType="none" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
                     <object class="com.install4j.runtime.beans.actions.control.SetProgressAction">
@@ -1100,9 +1428,6 @@ return console.askYesNo(message, true);
                       <void property="enabledTitleText">
                         <boolean>false</boolean>
                       </void>
-                      <void property="labelText">
-                        <string>install4j</string>
-                      </void>
                     </object>
                   </java>
                 </serializedBean>
@@ -1284,7 +1609,7 @@ return console.askYesNo(message, true);
               <group name="" id="49" customizedId="" beanClass="com.install4j.runtime.beans.groups.VerticalFormComponentGroup" enabled="true" commentSet="false" comment="" actionElevationType="inherit" useExternalParametrization="true" externalParametrizationName="Customize title bar" externalParametrizationMode="include">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
-                    <object class="com.install4j.runtime.beans.groups.VerticalFormComponentGroup">
+                    <object class="com.install4j.runtime.beans.groups.VerticalFormComponentGroup" id="VerticalFormComponentGroup0">
                       <void property="backgroundColor">
                         <object class="java.awt.Color">
                           <int>255</int>
@@ -1314,19 +1639,21 @@ return console.askYesNo(message, true);
                           <string>icon:${installer:sys.installerApplicationMode}_header.png</string>
                         </object>
                       </void>
+                      <void id="Integer0" property="cellSpacing" />
+                      <void id="Integer1" property="borderWidth" />
                       <void property="imageInsets">
                         <object class="java.awt.Insets">
-                          <int>0</int>
+                          <object idref="Integer0" />
                           <int>5</int>
-                          <int>1</int>
-                          <int>1</int>
+                          <object idref="Integer1" />
+                          <object idref="Integer1" />
                         </object>
                       </void>
                       <void property="insets">
                         <object class="java.awt.Insets">
-                          <int>0</int>
+                          <object idref="Integer0" />
                           <int>20</int>
-                          <int>0</int>
+                          <object idref="Integer0" />
                           <int>10</int>
                         </object>
                       </void>
@@ -1408,16 +1735,17 @@ return console.askYesNo(message, true);
               <group name="" id="53" customizedId="" beanClass="com.install4j.runtime.beans.groups.HorizontalFormComponentGroup" enabled="true" commentSet="false" comment="" actionElevationType="inherit" useExternalParametrization="false" externalParametrizationName="" externalParametrizationMode="all">
                 <serializedBean>
                   <java class="java.beans.XMLDecoder">
-                    <object class="com.install4j.runtime.beans.groups.HorizontalFormComponentGroup">
+                    <object class="com.install4j.runtime.beans.groups.HorizontalFormComponentGroup" id="HorizontalFormComponentGroup0">
                       <void property="alignFirstLabel">
                         <boolean>false</boolean>
                       </void>
+                      <void id="Integer0" property="cellSpacing" />
                       <void property="insets">
                         <object class="java.awt.Insets">
                           <int>3</int>
-                          <int>5</int>
+                          <object idref="Integer0" />
                           <int>8</int>
-                          <int>5</int>
+                          <object idref="Integer0" />
                         </object>
                       </void>
                     </object>
@@ -1504,20 +1832,24 @@ return console.askYesNo(message, true);
     </styles>
   </installerGui>
   <mediaSets>
-    <linuxDeb name="Linux Deb Archive" id="153" customizedId="" mediaFileName="" installDir="/opt/${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" overwriteNeverAsConfigFiles="false" dependencies="" bzip="true" description="Jalview Desktop" maintainerEmail="help@jalview.org" architectureSet="false" architecture="">
+    <linuxDeb name="Jalview .deb Package" id="153" customizedId="" mediaFileName="jalview-$$VERSION$$" installDir="/opt/${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" overwriteNeverAsConfigFiles="false" dependencies="openjdk-8-jre" bzip="true" description="Jalview Desktop" maintainerEmail="help@jalview.org" architectureSet="false" architecture="">
       <excludedComponents>
+        <component id="1031" />
         <component id="1155" />
         <component id="1156" />
         <component id="1276" />
+        <component id="2110" />
       </excludedComponents>
       <includedDownloadableComponents />
       <excludedLaunchers>
+        <launcher id="737" />
         <launcher id="1402" />
       </excludedLaunchers>
       <excludedBeans />
       <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
       <exclude>
         <entry location=".i4j_fileset_" fileType="regular" />
+        <entry location=".i4j_fileset_734" fileType="regular" />
         <entry location=".i4j_fileset_880" fileType="regular" />
         <entry location=".i4j_fileset_882" fileType="regular" />
       </exclude>
@@ -1539,20 +1871,24 @@ return console.askYesNo(message, true);
         <content />
       </postUninstallScript>
     </linuxDeb>
-    <linuxRPM name="Linux RPM" id="570" customizedId="" mediaFileName="" installDir="/opt/${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" overwriteNeverAsConfigFiles="false" dependencies="" os="linux" arch="i386">
+    <linuxRPM name="Jalview RPM Package" id="570" customizedId="" mediaFileName="jalview-$$VERSION$$" installDir="/opt/${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" overwriteNeverAsConfigFiles="false" dependencies="java-1.8.0-openjdk" os="linux" arch="noarch">
       <excludedComponents>
+        <component id="1031" />
         <component id="1155" />
         <component id="1156" />
         <component id="1276" />
+        <component id="2110" />
       </excludedComponents>
       <includedDownloadableComponents />
       <excludedLaunchers>
+        <launcher id="737" />
         <launcher id="1402" />
       </excludedLaunchers>
       <excludedBeans />
       <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
       <exclude>
         <entry location=".i4j_fileset_" fileType="regular" />
+        <entry location=".i4j_fileset_734" fileType="regular" />
         <entry location=".i4j_fileset_880" fileType="regular" />
         <entry location=".i4j_fileset_882" fileType="regular" />
       </exclude>
@@ -1574,10 +1910,13 @@ return console.askYesNo(message, true);
         <content />
       </postUninstallScript>
     </linuxRPM>
-    <windows name="Offline Windows" id="743" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_${compiler:sys.version}" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="64" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="" manualJREEntry="false" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="" contentFilesType="1" verifyIntegrity="true">
+    <windows name="Offline Windows x64 Installer" id="743" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="64" runPostProcessor="true" postProcessor="${compiler:JSIGN_SH} $EXECUTABLE" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="$$WINDOWS_JAVA_VM_TGZ$$" manualJREEntry="true" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="~/AppData/Local" contentFilesType="1" verifyIntegrity="true">
       <excludedComponents>
         <component id="1155" />
+        <component id="1156" />
         <component id="1276" />
+        <component id="1881" />
+        <component id="2110" />
       </excludedComponents>
       <includedDownloadableComponents />
       <excludedLaunchers>
@@ -1588,6 +1927,8 @@ return console.askYesNo(message, true);
       <exclude>
         <entry location=".i4j_fileset_" fileType="regular" />
         <entry location=".i4j_fileset_880" fileType="regular" />
+        <entry location=".i4j_fileset_882" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
       </exclude>
       <variables />
       <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
@@ -1595,10 +1936,34 @@ return console.askYesNo(message, true);
         <customAttributes />
       </autoUpdate>
     </windows>
-    <macosArchive name="Offline macOS Single Bundle Archive" id="878" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}-app_${compiler:sys.version}" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" archiveType="dmg" volumeName="${compiler:sys.shortName} Installer" launcherId="737">
+    <windows name="Network Windows x64 Installer" id="1862" customizedId="" mediaFileName="${compiler:sys.shortName}-NETWORK_${compiler:sys.platform}_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="64" runPostProcessor="true" postProcessor="${compiler:JSIGN_SH} $EXECUTABLE" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="$$WINDOWS_JAVA_VM_TGZ$$" manualJREEntry="true" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="~/AppData/Local" contentFilesType="1" verifyIntegrity="true">
+      <excludedComponents>
+        <component id="1031" />
+        <component id="1155" />
+        <component id="1156" />
+        <component id="1881" />
+        <component id="2110" />
+      </excludedComponents>
+      <includedDownloadableComponents />
+      <excludedLaunchers />
+      <excludedBeans />
+      <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
+      <exclude>
+        <entry location=".i4j_fileset_734" fileType="regular" />
+        <entry location=".i4j_fileset_880" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
+      </exclude>
+      <variables />
+      <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
+        <commentFiles />
+        <customAttributes />
+      </autoUpdate>
+    </windows>
+    <macosArchive name="Offline macOS Disk Image" id="878" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}-app_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" archiveType="dmg" volumeName="${compiler:sys.shortName} Installer" launcherId="737">
       <excludedComponents>
         <component id="1156" />
         <component id="1276" />
+        <component id="1881" />
       </excludedComponents>
       <includedDownloadableComponents />
       <excludedBeans />
@@ -1606,6 +1971,7 @@ return console.askYesNo(message, true);
       <exclude>
         <entry location=".i4j_fileset_" fileType="regular" />
         <entry location=".i4j_fileset_882" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
       </exclude>
       <variables />
       <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
@@ -1616,62 +1982,159 @@ return console.askYesNo(message, true);
         <symlink name="&quot; &quot;" target="/Applications" />
         <file name=".background/jalview_dmg_background.png" file="./jalview_dmg_background.png" />
         <file name=".DS_Store" file="./DS_Store" />
-        <symlink name="Jalview.app/Contents/Resources/app/java_vm/Contents/MacOS/libjli.dylib" target="../Home/lib/jli/libjli.dylib" />
+        <symlink name="Jalview.app/Contents/Resources/app/${compiler:JRE_DIR}/Contents/MacOS/libjli.dylib" target="../Home/lib/jli/libjli.dylib" />
+        <file name="Jalview.app/Contents/Resources/Jalview-File.icns" file="./Jalview-File.icns" />
+        <file name="Jalview.app/Contents/Resources/Jalview-Version-Locator.icns" file="Jalview-Version-Locator.icns" />
+        <symlink name="Uninstall Old Jalview (optional).app" target="Jalview.app/Contents/Resources/app/Uninstall Old Jalview.app" />
       </topLevelFiles>
     </macosArchive>
-    <windows name="Network Windows" id="1272" customizedId="" mediaFileName="${compiler:sys.shortName}-NETWORK_${compiler:sys.platform}_${compiler:sys.version}" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="64" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="" manualJREEntry="false" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="" contentFilesType="1" verifyIntegrity="true">
+    <macosArchive name="Network macOS Disk Image" id="1274" customizedId="" mediaFileName="${compiler:sys.shortName}-NETWORK_${compiler:sys.platform}-app_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" archiveType="dmg" volumeName="${compiler:sys.shortName} Installer" launcherId="1402">
       <excludedComponents>
         <component id="1031" />
+        <component id="1156" />
+        <component id="1881" />
+      </excludedComponents>
+      <includedDownloadableComponents />
+      <excludedBeans />
+      <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
+      <exclude>
+        <entry location=".i4j_fileset_734" fileType="regular" />
+        <entry location=".i4j_fileset_882" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
+      </exclude>
+      <variables />
+      <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
+        <commentFiles />
+        <customAttributes />
+      </autoUpdate>
+      <topLevelFiles>
+        <symlink name="&quot; &quot;" target="/Applications" />
+        <file name=".background/jalview_dmg_background.png" file="./jalview_dmg_background.png" />
+        <file name=".DS_Store" file="./DS_Store" />
+        <symlink name="Jalview.app/Contents/Resources/app/${compiler:JRE_DIR}/Contents/MacOS/libjli.dylib" target="../Home/lib/jli/libjli.dylib" />
+        <file name="Jalview.app/Contents/Resources/Jalview-Version-Locator.icns" file="Jalview-Version-Locator.icns" />
+        <file name="Jalview.app/Contents/Resources/Jalview-File.icns" file="Jalview-File.icns" />
+        <symlink name="Uninstall Old Jalview (optional).app" target="Jalview.app/Contents/Resources/app/Uninstall Old Jalview.app" />
+      </topLevelFiles>
+    </macosArchive>
+    <unixInstaller name="Offline Unix Shell Installer" id="1595" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_installer_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="" manualJREEntry="false" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="~/opt/" contentFilesType="1">
+      <excludedComponents>
         <component id="1155" />
+        <component id="1156" />
+        <component id="1276" />
+        <component id="1881" />
+        <component id="2110" />
       </excludedComponents>
       <includedDownloadableComponents />
       <excludedLaunchers>
-        <launcher id="737" />
+        <launcher id="1402" />
       </excludedLaunchers>
       <excludedBeans />
       <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
       <exclude>
+        <entry location=".i4j_fileset_" fileType="regular" />
+        <entry location=".i4j_fileset_880" fileType="regular" />
+        <entry location=".i4j_fileset_882" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
+      </exclude>
+      <variables />
+      <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
+        <commentFiles />
+        <customAttributes />
+      </autoUpdate>
+      <installerScript mode="1" file="">
+        <content />
+      </installerScript>
+    </unixInstaller>
+    <unixInstaller name="Network Unix Shell Installer" id="1867" customizedId="" mediaFileName="${compiler:sys.shortName}-NETWORK_${compiler:sys.platform}_installer_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="" manualJREEntry="false" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="~/opt/" contentFilesType="1">
+      <excludedComponents>
+        <component id="1031" />
+        <component id="1155" />
+        <component id="1156" />
+        <component id="1881" />
+        <component id="2110" />
+      </excludedComponents>
+      <includedDownloadableComponents />
+      <excludedLaunchers />
+      <excludedBeans />
+      <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
+      <exclude>
         <entry location=".i4j_fileset_734" fileType="regular" />
         <entry location=".i4j_fileset_880" fileType="regular" />
+        <entry location=".i4j_fileset_882" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
       </exclude>
       <variables />
       <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
         <commentFiles />
         <customAttributes />
       </autoUpdate>
-    </windows>
-    <macosArchive name="Network macOS Single Bundle Archive" id="1274" customizedId="" mediaFileName="${compiler:sys.shortName}-NETWORK_${compiler:sys.platform}-app_${compiler:sys.version}" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" archiveType="dmg" volumeName="${compiler:sys.shortName} Installer" launcherId="1402">
+      <installerScript mode="1" file="">
+        <content />
+      </installerScript>
+    </unixInstaller>
+    <unixArchive name="Offline Unix .tar.gz Archive" id="1596" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_archive_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false">
+      <excludedComponents>
+        <component id="1155" />
+        <component id="1156" />
+        <component id="1276" />
+        <component id="1881" />
+        <component id="2110" />
+      </excludedComponents>
+      <includedDownloadableComponents />
+      <excludedLaunchers>
+        <launcher id="1402" />
+      </excludedLaunchers>
+      <excludedBeans />
+      <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
+      <exclude>
+        <entry location=".i4j_fileset_" fileType="regular" />
+        <entry location=".i4j_fileset_880" fileType="regular" />
+        <entry location=".i4j_fileset_882" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
+      </exclude>
+      <variables />
+      <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
+        <commentFiles />
+        <customAttributes />
+      </autoUpdate>
+    </unixArchive>
+    <unixArchive name="Network Unix .tar.gz Archive" id="1871" customizedId="" mediaFileName="${compiler:sys.shortName}-NETWORK_${compiler:sys.platform}_archive_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false">
       <excludedComponents>
         <component id="1031" />
+        <component id="1155" />
         <component id="1156" />
+        <component id="1881" />
+        <component id="2110" />
       </excludedComponents>
       <includedDownloadableComponents />
+      <excludedLaunchers />
       <excludedBeans />
       <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
       <exclude>
         <entry location=".i4j_fileset_734" fileType="regular" />
+        <entry location=".i4j_fileset_880" fileType="regular" />
         <entry location=".i4j_fileset_882" fileType="regular" />
+        <entry location=".i4j_fileset_1873" fileType="regular" />
       </exclude>
       <variables />
       <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
         <commentFiles />
         <customAttributes />
       </autoUpdate>
-      <topLevelFiles>
-        <symlink name="&quot; &quot;" target="/Applications" />
-        <file name=".background/jalview_dmg_background.png" file="./jalview_dmg_background.png" />
-        <file name=".DS_Store" file="./DS_Store" />
-        <symlink name="Jalview.app/Contents/Resources/app/java_vm/Contents/MacOS/libjli.dylib" target="../Home/lib/jli/libjli.dylib" />
-      </topLevelFiles>
-    </macosArchive>
+    </unixArchive>
   </mediaSets>
-  <buildIds buildAll="false">
+  <buildIds buildAll="true">
     <mediaSet refId="153" />
     <mediaSet refId="570" />
     <mediaSet refId="743" />
     <mediaSet refId="878" />
-    <mediaSet refId="1272" />
     <mediaSet refId="1274" />
+    <mediaSet refId="1595" />
+    <mediaSet refId="1596" />
+    <mediaSet refId="1862" />
+    <mediaSet refId="1867" />
+    <mediaSet refId="1871" />
   </buildIds>
-  <buildOptions verbose="false" faster="false" disableSigning="true" disableJreBundling="true" debug="false" />
+  <buildOptions verbose="false" faster="false" disableSigning="false" disableJreBundling="false" debug="false" />
 </install4j>