outputs.files(install4jConf)
doLast {
+ // include file associations in installer
def installerFileAssociationsXml = file("$install4jDir/$install4jInstallerFileAssociations").text
ant.replaceregexp(
byline: false,
flags: "s",
match: '<action name="EXTENSIONS_REPLACED_BY_GRADLE".*?</action>',
- //match: '<action.*?EXTENSIONS_REPLACED_BY_GRADLE.*?</action>',
replace: installerFileAssociationsXml,
file: install4jConf
)
+ /*
+ // include uninstaller applescript app files in dmg
+ def installerDMGUninstallerXml = file("$install4jDir/$install4jDMGUninstallerAppFiles").text
+ ant.replaceregexp(
+ byline: false,
+ flags: "s",
+ match: '<file name="UNINSTALL_OLD_JALVIEW_APP_REPLACED_IN_GRADLE" file=.*?>',
+ replace: installerDMGUninstallerXml,
+ file: install4jConf
+ )
+ */
}
}
import com.sun.management.OperatingSystemMXBean;
import java.lang.management.ManagementFactory;
+import jalview.bin.MemorySetting;
import com.threerings.getdown.util.*;
// avoid ambiguity with java.util.Base64 which we can't use as it's 1.8+
jvmmempc = config.getInt(appPrefix + "jvmmempc", jvmmempc);
}
if (0 <= jvmmempc && jvmmempc <= 100) {
- final Object o = ManagementFactory.getOperatingSystemMXBean();
-
- try {
- if (o instanceof OperatingSystemMXBean) {
- final OperatingSystemMXBean osb = (OperatingSystemMXBean) o;
- long physicalMem = osb.getTotalPhysicalMemorySize();
- long requestedMem = physicalMem*jvmmempc/100;
- String[] maxMemHeapArg = new String[]{"-Xmx"+Long.toString(requestedMem)};
- // remove other max heap size arg
- ARG: for (int i = 0; i < _jvmargs.size(); i++) {
- if (_jvmargs.get(i) instanceof java.lang.String && _jvmargs.get(i).startsWith("-Xmx")) {
- _jvmargs.remove(i);
- }
- }
- addAll(maxMemHeapArg, _jvmargs);
+
+ long maxMemLong = -1;
+
+ try
+ {
+ maxMemLong = MemorySetting.memPercent(jvmmempc);
+ } catch (Exception e)
+ {
+ e.printStackTrace();
+ } catch (Throwable t)
+ {
+ t.printStackTrace();
+ }
- }
- }
- catch (NoClassDefFoundError e) {
- // com.sun.management.OperatingSystemMXBean doesn't exist in this JVM
- System.out.println("No com.sun.management.OperatingSystemMXBean. Cannot use 'jvmmempc'.");
+ if (maxMemLong > 0)
+ {
+
+ String[] maxMemHeapArg = new String[]{"-Xmx"+Long.toString(maxMemLong)};
+ // remove other max heap size arg
+ ARG: for (int i = 0; i < _jvmargs.size(); i++) {
+ if (_jvmargs.get(i) instanceof java.lang.String && _jvmargs.get(i).startsWith("-Xmx")) {
+ _jvmargs.remove(i);
+ }
}
+ addAll(maxMemHeapArg, _jvmargs);
+
+ }
+
} else if (jvmmempc != -1) {
System.out.println("'jvmmempc' value must be in range 0 to 100 (read as '"+Integer.toString(jvmmempc)+"')");
}
--- /dev/null
+package jalview.bin;
+
+import java.lang.management.ManagementFactory;
+import java.lang.management.OperatingSystemMXBean;
+
+public class MemorySetting
+{
+ public static final long leaveFreeMinMemory = 536870912; // 0.5 GB
+
+ public static final long applicationMinMemory = 536870912; // 0.5 GB
+
+ protected static long getPhysicalMemory()
+ {
+ final OperatingSystemMXBean o = ManagementFactory
+ .getOperatingSystemMXBean();
+
+ try
+ {
+ if (o instanceof com.sun.management.OperatingSystemMXBean)
+ {
+ final com.sun.management.OperatingSystemMXBean osb = (com.sun.management.OperatingSystemMXBean) o;
+ return osb.getTotalPhysicalMemorySize();
+ }
+ } catch (NoClassDefFoundError e)
+ {
+ // com.sun.management.OperatingSystemMXBean doesn't exist in this JVM
+ System.out.println("No com.sun.management.OperatingSystemMXBean");
+ }
+
+ // We didn't get a com.sun.management.OperatingSystemMXBean.
+ return -1;
+ }
+
+ public static long memPercent(int percent)
+ {
+ long memPercent = -1;
+
+ long physicalMem = getPhysicalMemory();
+ if (physicalMem > applicationMinMemory)
+ {
+ // try and set at least applicationMinMemory and thereafter ensure
+ // leaveFreeMinMemory is left for the OS
+ memPercent = Math.max(applicationMinMemory,
+ physicalMem - Math.max(physicalMem * (100 - percent) / 100,
+ leaveFreeMinMemory));
+ }
+
+ return memPercent;
+ }
+
+}
getdown_channel_base = http://www.jalview.org/getdown/jalview
getdown_channel_name = TEST
getdown_txt_allow_offline = true
-getdown_txt_jvmmempc = 95
+getdown_txt_jalview.jvmmempc = 90
getdown_txt_multi_jvmarg = -Dgetdownappdir="%APPDIR%"
getdown_txt_strict_comments = true
getdown_txt_title = Jalview
install4jTemplate = install4j_template.install4j
install4jInfoPlistFileAssociations = file_associations_auto-Info_plist.xml
install4jInstallerFileAssociations = file_associations_auto-install4j.xml
+install4jDMGUninstallerAppFiles = uninstall_old_jalview_files.xml
install4jBuildDir = build/install4j
-install4jMediaTypes = windows,macosArchive,linuxRPM,linuxDeb,unixArchive
install4jMediaTypes = windows,macosArchive,linuxRPM,linuxDeb,unixArchive,unixInstaller
install4jFaster = false
label.append_to_filename_tooltip = %n in the text will be replaced by the backup number. The text will appear after the filename. See the summary box above.
label.index_digits = Number of digits to use for the backup number (%n)
label.summary_of_backups_scheme = Summary of backup scheme
+label.scheme_examples = Scheme examples
label.increment_index = Increase appended text numbers - newest file has largest number.
label.reverse_roll = "Roll" appended text numbers - newest backup file is always number 1.
label.keep_files = Deleting old backup files
label.keep_all_backup_files = Do not delete old backup files
label.keep_only_this_number_of_backup_files = Keep only this number of most recent backup files
-label.autodelete_old_backup_files = Autodelete old backup files:
+label.autodelete_old_backup_files = Auto-delete old backup files:
label.always_ask = Always ask
label.auto_delete = Automatically delete
label.filename = filename
label.configure_feature_tooltip = Click to configure variable colour or filters
label.schemes = Schemes
label.customise = Customise
+label.custom = Custom
label.default = Default
label.single_file = Single backup
label.keep_all_versions = Keep all versions
label.rolled_backups = Rolled backup files
+label.customise_description = Select Customise, make changes, and click on OK to save your own custom scheme
+label.custom_description = Your own saved scheme
+label.default_description = Keep the last three versions of the file
+label.single_file_description = Keep the last version of the file
+label.keep_all_versions_description = Keep all previous versions of the file
+label.rolled_backups_description = Keep the last nine versions of the file from _bak.1 (newest) to _bak.9 (oldest)
+label.cancel_changes_description = Cancel changes made to your last saved Custom scheme
label.previously_saved_scheme = Previously saved scheme
label.no_backup_files = NO BACKUP FILES
label.include_backup_files = Include backup files
label.append_to_filename_tooltip = %n en el texto será reemplazado por el número de respaldo. El texto será después del nombre del archivo. Vea el cuadro de resumen arriba.
label.index_digits = Número de dígitos a utilizar para el número de respaldo.
label.summary_of_backups_scheme = Resumen del esquema de copias de seguridad
+label.scheme_examples = Ejemplos de esquema
label.increment_index = Aumente los números de texto adjuntos: el archivo más nuevo tiene el número más grande
label.reverse_roll = Ciclos de texto adjuntos: el respaldo más reciente es siempre el número 1
label.keep_files = Borrando los respaldos antiguos
label.configuration = Configuración
label.configure_feature_tooltip = Haga clic para configurar el color o los filtros
label.schemes = Esquemas
-label.customise = Personalizado
+label.customise = Personalizar
+label.custom = Personal
label.default = Defecto
label.single_file = Solo uno respaldo
label.keep_all_versions = Mantener todas las versiones
label.rolled_backups = Ciclos respaldos
+# TODO: Translate these _description s
+label.customise_description = Seleccione Personalizar, haga cambios y haga clic en OK para guardar su propio esquema personalizado
+label.custom_description = Tu propio esquema guardado
+label.default_description = Conserve las últimas tres versiones del archivo
+label.single_file_description = Conserve la última versión del archivo
+label.keep_all_versions_description = Mantener todas las versiones anteriores del archivo
+label.rolled_backups_description = Mantenga las últimas nueve versiones del archivo desde _bak.1 (más reciente) a _bak.9 (más antigua)
+label.cancel_changes_description = Cancelar los cambios realizados en su último esquema personalizado guardado
label.previously_saved_scheme = Esquema previamente guardado
label.no_backup_files = NO ARCHIVOS DE RESPALDOS
label.include_backup_files = Incluir archivos de respaldos
JalviewTaskbar.setTaskbar(this);
} catch (Exception e)
{
- e.printStackTrace();
+ System.out.println("Cannot set Taskbar");
+ // e.printStackTrace();
} catch (Throwable t)
{
- t.printStackTrace();
+ System.out.println("Cannot set Taskbar");
+ // t.printStackTrace();
}
desktop.setVisible(true);
}
} catch (Exception e)
{
- e.printStackTrace();
+ System.out.println("Unable to setIconImage()");
}
}
}
package jalview.bin;
import java.io.File;
+import java.io.IOException;
import java.lang.management.ManagementFactory;
-import java.lang.management.OperatingSystemMXBean;
import java.util.ArrayList;
public class Launcher
private final static String startClass = "jalview.bin.Jalview";
- private final static int maxHeapSizePerCent = 95;
+ private final static int maxHeapSizePerCent = 90;
+
+ private final static String maxHeapSizePerCentProperty = "jvmmempc";
private final static String dockIconPath = "JalviewLogo_Huge.png";
ArrayList<String> command = new ArrayList<>();
command.add(javaBin);
+ String memSetting = null;
+
boolean isAMac = System.getProperty("os.name").indexOf("Mac") > -1;
for (String jvmArg : ManagementFactory.getRuntimeMXBean()
// add memory setting if not specified
boolean memSet = false;
boolean dockIcon = false;
+ boolean dockName = false;
ARG: for (int i = 0; i < command.size(); i++)
{
String arg = command.get(i);
if (arg.startsWith("-Xmx"))
{
+ memSetting = arg;
memSet = true;
}
else if (arg.startsWith("-Xdock:icon"))
{
dockIcon = true;
}
+ else if (arg.startsWith("-Xdock:name"))
+ {
+ dockName = true;
+ }
}
if (!memSet)
{
long maxMemLong = -1;
- long physicalMem = getPhysicalMemory();
- if (physicalMem > 0)
+ int percent = maxHeapSizePerCent;
+ String jvmmempc = System.getProperty(maxHeapSizePerCentProperty);
+ try
+ {
+ if (jvmmempc != null)
+ {
+ int trypercent = Integer.parseInt(jvmmempc);
+ if (0 < trypercent && trypercent <= 100)
+ {
+ percent = trypercent;
+ }
+ else
+ {
+ System.out.println("Property '" + maxHeapSizePerCentProperty
+ + "' should be in range 1..100");
+ }
+ }
+ } catch (Exception e)
+ {
+ System.out.println("Error parsing " + maxHeapSizePerCentProperty
+ + " '" + jvmmempc + "'");
+ }
+
+ try
{
- maxMemLong = physicalMem * maxHeapSizePerCent / 100;
+ maxMemLong = MemorySetting.memPercent(percent);
+ } catch (Exception e)
+ {
+ e.printStackTrace();
+ } catch (Throwable t)
+ {
+ t.printStackTrace();
}
+
if (maxMemLong > 0)
{
- command.add("-Xmx" + Long.toString(maxMemLong));
+ memSetting = "-Xmx" + Long.toString(maxMemLong);
+ command.add(memSetting);
}
}
- if (!dockIcon && isAMac)
+ if (isAMac)
{
- command.add("-Xdock:icon=" + dockIconPath);
- // -Xdock:name=... doesn't actually work :(
- // Leaving it in in case it gets fixed
- command.add("-Xdock:name=" + "Jalview");
+ if (!dockIcon)
+ {
+ command.add("-Xdock:icon=" + dockIconPath);
+ }
+ if (!dockName)
+ {
+ // -Xdock:name=... doesn't actually work :(
+ // Leaving it in in case it gets fixed
+ command.add("-Xdock:name=" + "Jalview");
+ }
}
command.add(startClass);
final ProcessBuilder builder = new ProcessBuilder(command);
- System.out.println("COMMAND: " + String.join(" ", builder.command()));
+ // System.out.println("COMMAND: " + String.join(" ", builder.command()));
+ System.out.println("Running " + startClass + " with "
+ + (memSetting == null ? "no memSetting" : memSetting));
try
{
builder.inheritIO();
Process process = builder.start();
process.waitFor();
- } catch (Exception e)
+ } catch (IOException e)
{
- e.printStackTrace();
- }
- // System.exit(0);
-
- }
-
- public static long getPhysicalMemory()
- {
- final OperatingSystemMXBean o = ManagementFactory
- .getOperatingSystemMXBean();
-
- try
- {
- if (o instanceof com.sun.management.OperatingSystemMXBean)
+ if (e.getMessage().toLowerCase().contains("memory"))
+ {
+ System.out.println("Caught a memory exception: " + e.getMessage());
+ // Probably the "Cannot allocate memory" error, try without the memory setting
+ ArrayList<String> commandNoMem = new ArrayList<>();
+ for (int i = 0; i < command.size(); i++)
+ {
+ if (!command.get(i).startsWith("-Xmx"))
+ {
+ commandNoMem.add(command.get(i));
+ }
+ }
+ final ProcessBuilder builderNoMem = new ProcessBuilder(
+ commandNoMem);
+ System.out.println("NO MEM COMMAND: "
+ + String.join(" ", builderNoMem.command()));
+ try
+ {
+ builderNoMem.inheritIO();
+ Process processNoMem = builderNoMem.start();
+ processNoMem.waitFor();
+ } catch (Exception ex)
+ {
+ ex.printStackTrace();
+ }
+ }
+ else
{
- final com.sun.management.OperatingSystemMXBean osb = (com.sun.management.OperatingSystemMXBean) o;
- return osb.getTotalPhysicalMemorySize();
+ e.printStackTrace();
}
- } catch (NoClassDefFoundError e)
+ } catch (Exception e)
{
- // com.sun.management.OperatingSystemMXBean doesn't exist in this JVM
- System.out.println("No com.sun.management.OperatingSystemMXBean");
+ e.printStackTrace();
}
+ // System.exit(0);
- // We didn't get a com.sun.management.OperatingSystemMXBean.
- return -1;
}
}
--- /dev/null
+package jalview.bin;
+
+import java.lang.management.ManagementFactory;
+import java.lang.management.OperatingSystemMXBean;
+
+public class MemorySetting
+{
+ public static final long leaveFreeMinMemory = 536870912; // 0.5 GB
+
+ public static final long applicationMinMemory = 536870912; // 0.5 GB
+
+ protected static long getPhysicalMemory()
+ {
+ final OperatingSystemMXBean o = ManagementFactory
+ .getOperatingSystemMXBean();
+
+ try
+ {
+ if (o instanceof com.sun.management.OperatingSystemMXBean)
+ {
+ final com.sun.management.OperatingSystemMXBean osb = (com.sun.management.OperatingSystemMXBean) o;
+ return osb.getTotalPhysicalMemorySize();
+ }
+ } catch (NoClassDefFoundError e)
+ {
+ // com.sun.management.OperatingSystemMXBean doesn't exist in this JVM
+ System.out.println("No com.sun.management.OperatingSystemMXBean");
+ }
+
+ // We didn't get a com.sun.management.OperatingSystemMXBean.
+ return -1;
+ }
+
+ public static long memPercent(int percent)
+ {
+ long memPercent = -1;
+
+ long physicalMem = getPhysicalMemory();
+ if (physicalMem > applicationMinMemory)
+ {
+ // try and set at least applicationMinMemory and thereafter ensure
+ // leaveFreeMinMemory is left for the OS
+ memPercent = Math.max(applicationMinMemory,
+ physicalMem - Math.max(physicalMem * (100 - percent) / 100,
+ leaveFreeMinMemory));
+ }
+
+ return memPercent;
+ }
+
+}
QuitEvent e, QuitResponse r)
{
boolean confirmQuit = jalview.bin.Cache
- .getDefault(jalviewDesktop.CONFIRM_KEYBOARD_QUIT,
+ .getDefault(
+ jalview.gui.Desktop.CONFIRM_KEYBOARD_QUIT,
true);
int n;
if (confirmQuit)
{
System.out.println(
"Exception when looking for About, Preferences, Quit Handlers");
- e.printStackTrace();
+ // e.printStackTrace();
} catch (Throwable t)
{
System.out.println(
"Throwable when looking for About, Preferences, Quit Handlers");
- t.printStackTrace();
+ // t.printStackTrace();
}
}
APQHandlers.setAPQHandlers(this);
} catch (Exception e)
{
- System.out.println("Exception when trying to set APQHandlers");
- e.printStackTrace();
+ System.out.println("Cannot set APQHandlers");
+ // e.printStackTrace();
} catch (Throwable t)
{
- System.out.println("Throwable when trying to set APQHandlers");
- t.printStackTrace();
+ System.out.println("Cannot set APQHandlers");
+ // t.printStackTrace();
}
{
String fileFormat = Cache.getProperty("DEFAULT_FILE_FORMAT");
JalviewFileChooser chooser = JalviewFileChooser
- .forRead(Cache.getProperty("LAST_DIRECTORY"), fileFormat, true);
+ .forRead(Cache.getProperty("LAST_DIRECTORY"), fileFormat, BackupFiles.getEnabled());
chooser.setFileView(new JalviewFileView());
chooser.setDialogTitle(
@Override
public void quit()
{
- //System.out.println("********** Desktop.quit()");
- //System.out.println(savingFiles.toString());
Dimension screen = Toolkit.getDefaultToolkit().getScreenSize();
jalview.bin.Cache.setProperty("SCREENGEOMETRY_WIDTH",
screen.width + "");
"Jalview Project (old)" };
JalviewFileChooser chooser = new JalviewFileChooser(
Cache.getProperty("LAST_DIRECTORY"), suffix, desc,
- "Jalview Project", true, true); // last two booleans: allFiles,
+ "Jalview Project", true, BackupFiles.getEnabled()); // last two booleans: allFiles,
// allowBackupFiles
chooser.setFileView(new JalviewFileView());
chooser.setDialogTitle(MessageManager.getString("label.restore_state"));
import jalview.api.AlignmentViewPanel;
import jalview.api.FeatureColourI;
+import jalview.bin.Cache;
import jalview.datamodel.GraphLine;
import jalview.datamodel.features.FeatureAttributes;
import jalview.datamodel.features.FeatureAttributes.Datatype;
private JPanel maxColour = new JPanel();
- private JComboBox<String> threshold = new JComboBox<>();
+ private JComboBox<Object> threshold = new JComboBox<>();
private JSlider slider = new JSlider();
/*
* choice of option for 'colour for no value'
*/
- private JComboBox<String> noValueCombo;
+ private JComboBox<Object> noValueCombo;
/*
* choice of what to colour by text (Label or attribute)
*/
- private JComboBox<String> colourByTextCombo;
+ private JComboBox<Object> colourByTextCombo;
/*
* choice of what to colour by range (Score or attribute)
*/
- private JComboBox<String> colourByRangeCombo;
+ private JComboBox<Object> colourByRangeCombo;
private JRadioButton andFilters;
* @param withRange
* @param withText
*/
- protected JComboBox<String> populateAttributesDropdown(
+ protected JComboBox<Object> populateAttributesDropdown(
List<String[]> attNames, boolean withRange, boolean withText)
{
List<String> displayAtts = new ArrayList<>();
tooltips.add(desc == null ? "" : desc);
}
- JComboBox<String> attCombo = JvSwingUtils
- .buildComboWithTooltips(displayAtts, tooltips);
-
+ // now convert String List to Object List for buildComboWithTooltips
+ List<Object> displayAttsObjects = new ArrayList<>(displayAtts);
+ JComboBox<Object> attCombo = JvSwingUtils
+ .buildComboWithTooltips(displayAttsObjects, tooltips);
+
return attCombo;
}
* drop-down choice of attribute, with description as a tooltip
* if we can obtain it
*/
- final JComboBox<String> attCombo = populateAttributesDropdown(attNames,
+ final JComboBox<Object> attCombo = populateAttributesDropdown(attNames,
true, true);
String filterBy = setSelectedAttribute(attCombo, filter);
* @param attCombo
* @param filter
*/
- private String setSelectedAttribute(JComboBox<String> attCombo,
+ private String setSelectedAttribute(JComboBox<Object> attCombo,
FeatureMatcherI filter)
{
String item = null;
* @param valueField
* @param filterIndex
*/
- protected boolean updateFilter(JComboBox<String> attCombo,
+ protected boolean updateFilter(JComboBox<Object> attCombo,
JComboBox<Condition> condCombo, JTextField valueField,
int filterIndex)
{
- String attName = (String) attCombo.getSelectedItem();
+ String attName;
+ try
+ {
+ attName = (String) attCombo.getSelectedItem();
+ } catch (Exception e)
+ {
+ Cache.log.error("Problem casting Combo box entry to String");
+ attName = attCombo.getSelectedItem().toString();
+ }
Condition cond = (Condition) condCombo.getSelectedItem();
String pattern = valueField.getText().trim();
* @param entries
* @param tooltips
*/
- public static JComboBox<String> buildComboWithTooltips(
- List<String> entries, List<String> tooltips)
+ public static JComboBox<Object> buildComboWithTooltips(
+ List<Object> entries, List<String> tooltips)
{
- JComboBox<String> combo = new JComboBox<>();
+ JComboBox<Object> combo = new JComboBox<>();
final ComboBoxTooltipRenderer renderer = new ComboBoxTooltipRenderer();
combo.setRenderer(renderer);
- for (String attName : entries)
+ for (Object attName : entries)
{
combo.addItem(attName);
}
import jalview.gui.Help.HelpId;
import jalview.gui.StructureViewer.ViewerType;
import jalview.io.BackupFiles;
+import jalview.io.BackupFilesPresetEntry;
import jalview.io.FileFormatI;
import jalview.io.JalviewFileChooser;
import jalview.io.JalviewFileView;
/*
* Save Backups settings
*/
- Cache.applicationProperties.setProperty(BackupFiles.CONFIRM_DELETE_OLD,
- Boolean.toString(backupfilesConfirmDelete.isSelected()));
Cache.applicationProperties.setProperty(BackupFiles.ENABLED,
Boolean.toString(enableBackupFiles.isSelected()));
- Cache.applicationProperties.setProperty(BackupFiles.NO_MAX,
- Boolean.toString(backupfilesKeepAll.isSelected()));
- Cache.applicationProperties.setProperty(BackupFiles.REVERSE_ORDER,
- Boolean.toString(suffixReverse.isSelected()));
- Cache.applicationProperties.setProperty(BackupFiles.SUFFIX,
- suffixTemplate.getText());
- Cache.applicationProperties.setProperty(BackupFiles.ROLL_MAX,
- Integer.toString(getSpinnerInt(backupfilesRollMaxSpinner, 4)));
- Cache.applicationProperties.setProperty(BackupFiles.SUFFIX_DIGITS,
- Integer.toString(getSpinnerInt(suffixDigitsSpinner, 3)));
- Cache.applicationProperties.setProperty(BackupFiles.NS+"_PRESET",
- Integer.toString(getComboIntStringKey(backupfilesPresetsCombo)));
+ int preset = getComboIntStringKey(backupfilesPresetsCombo);
+ Cache.applicationProperties.setProperty(BackupFiles.NS + "_PRESET", Integer.toString(preset));
+
+ if (preset == BackupFilesPresetEntry.BACKUPFILESSCHEMECUSTOM)
+ {
+ BackupFilesPresetEntry customBFPE = getBackupfilesCurrentEntry();
+ BackupFilesPresetEntry.backupfilesPresetEntriesValues.put(
+ BackupFilesPresetEntry.BACKUPFILESSCHEMECUSTOM, customBFPE);
+ Cache.applicationProperties
+ .setProperty(BackupFilesPresetEntry.CUSTOMCONFIG,
+ customBFPE.toString());
+ }
+
+ BackupFilesPresetEntry savedBFPE = BackupFilesPresetEntry.backupfilesPresetEntriesValues
+ .get(preset);
+ Cache.applicationProperties.setProperty(
+ BackupFilesPresetEntry.SAVEDCONFIG, savedBFPE.toString());
Cache.saveProperties();
Desktop.instance.doConfigureStructurePrefs();
package jalview.io;
-import jalview.bin.Cache;
-
import java.io.File;
public class BackupFilenameParts
String filename, String base, boolean extensionMatch)
{
BackupFilenameParts bfp = new BackupFilenameParts();
- String template = Cache.getDefault(BackupFiles.SUFFIX, null);
+ BackupFilesPresetEntry bfpe = BackupFilesPresetEntry
+ .getSavedBackupEntry();
+ String template = bfpe.suffix;
if (template == null)
{
return bfp;
int digits;
try
{
- digits = Integer
- .parseInt(Cache.getDefault(BackupFiles.SUFFIX_DIGITS, null));
+ digits = bfpe.digits;
} catch (Exception e)
{
return bfp;
* BackupFiles used for manipulating (naming rolling/deleting) backup/version files when an alignment or project file is saved.
* User configurable options are:
* BACKUPFILES_ENABLED - boolean flag as to whether to use this mechanism or act as before, including overwriting files as saved.
- * BACKUPFILES_SUFFIX - a template to insert after the file extension. Use '%n' to be replaced by a 0-led SUFFIX_DIGITS long integer.
- * BACKUPFILES_NO_MAX - flag to turn off setting a maximum number of backup files to keep.
- * BACKUPFILES_ROLL_MAX - the maximum number of backupfiles to keep for any one alignment or project file.
- * BACKUPFILES_SUFFIX_DIGITS - the number of digits to insert replace %n with (e.g. BACKUPFILES_SUFFIX_DIGITS = 3 would make "001", "002", etc)
- * BACKUPFILES_REVERSE_ORDER - if true then "logfile" style numbering and file rolling will occur. If false then ever-increasing version numbering will occur, but old files will still be deleted if there are more than ROLL_MAX backup files.
- * BACKUPFILES_CONFIRM_DELETE_OLD - if true then prompt/confirm with the user when deleting older backup/version files.
+ * The rest of the options are now saved as BACKUPFILES_PRESET, BACKUPFILES_SAVED and BACKUPFILES_CUSTOM
+ * (see BackupFilesPresetEntry)
*/
public class BackupFiles
public static final String ENABLED = NS + "_ENABLED";
- public static final String SUFFIX = NS + "_SUFFIX";
-
- public static final String NO_MAX = NS + "_NO_MAX";
-
- public static final String ROLL_MAX = NS + "_ROLL_MAX";
-
- public static final String SUFFIX_DIGITS = NS + "_SUFFIX_DIGITS";
-
public static final String NUM_PLACEHOLDER = "%n";
- public static final String REVERSE_ORDER = NS + "_REVERSE_ORDER";
-
- public static final String CONFIRM_DELETE_OLD = NS
- + "_CONFIRM_DELETE_OLD";
-
private static final String DEFAULT_TEMP_FILE = "jalview_temp_file_" + NS;
private static final String TEMP_FILE_EXT = ".tmp";
// REVERSE_ORDER
public BackupFiles(File file)
{
- this(file, ".bak" + NUM_PLACEHOLDER, false, 3, 3, false);
- }
-
- public BackupFiles(File file, String defaultSuffix, boolean defaultNoMax,
- int defaultMax, int defaultDigits, boolean defaultReverseOrder)
- {
classInit();
this.file = file;
- this.suffix = Cache.getDefault(SUFFIX, defaultSuffix);
- this.noMax = Cache.getDefault(NO_MAX, defaultNoMax);
- this.max = Cache.getDefault(ROLL_MAX, defaultMax);
- this.digits = Cache.getDefault(SUFFIX_DIGITS, defaultDigits);
- this.reverseOrder = Cache.getDefault(REVERSE_ORDER,
- defaultReverseOrder);
+ BackupFilesPresetEntry bfpe = BackupFilesPresetEntry.getSavedBackupEntry();
+ this.suffix = bfpe.suffix;
+ this.noMax = bfpe.keepAll;
+ this.max = bfpe.rollMax;
+ this.digits = bfpe.digits;
+ this.reverseOrder = bfpe.reverse;
// create a temp file to save new data in
File temp = null;
public static void classInit()
{
setEnabled(Cache.getDefault(ENABLED, true));
- setConfirmDelete(Cache.getDefault(CONFIRM_DELETE_OLD, true));
+ BackupFilesPresetEntry bfpe = BackupFilesPresetEntry
+ .getSavedBackupEntry();
+ setConfirmDelete(bfpe.confirmDelete);
}
public static void setEnabled(boolean flag)
--- /dev/null
+package jalview.io;
+
+import jalview.bin.Cache;
+import jalview.util.MessageManager;
+
+import java.util.HashMap;
+import java.util.Map;
+import java.util.StringTokenizer;
+
+public class BackupFilesPresetEntry
+{
+
+ public String suffix;
+
+ public static final int DIGITSMIN = 1;
+
+ public static final int DIGITSMAX = 6;
+
+ public int digits;
+
+ public boolean reverse;
+
+ public boolean keepAll;
+
+ public static final int ROLLMAXMIN = 1;
+
+ public static final int ROLLMAXMAX = 999;
+
+ public int rollMax;
+
+ public boolean confirmDelete;
+
+ public static final String SAVEDCONFIG = BackupFiles.NS + "_SAVED";
+
+ public static final String CUSTOMCONFIG = BackupFiles.NS + "_CUSTOM";
+
+ private static final String stringDelim = "\t";
+
+ public static final int BACKUPFILESSCHEMECUSTOM = 0;
+
+ public static final int BACKUPFILESSCHEMEDEFAULT = 1;
+
+ public BackupFilesPresetEntry(String suffix, int digits, boolean reverse,
+ boolean keepAll, int rollMax, boolean confirmDelete)
+ {
+ this.suffix = suffix == null ? "" : suffix;
+ this.digits = digits < DIGITSMIN ? DIGITSMIN
+ : (digits > DIGITSMAX ? DIGITSMAX : digits);
+ this.reverse = reverse;
+ this.keepAll = keepAll;
+ this.rollMax = rollMax < ROLLMAXMIN ? ROLLMAXMIN
+ : (rollMax > ROLLMAXMAX ? ROLLMAXMAX : rollMax);
+ this.confirmDelete = confirmDelete;
+ }
+
+ public boolean equals(BackupFilesPresetEntry compare)
+ {
+ return suffix.equals(compare.suffix) && digits == compare.digits
+ && reverse == compare.reverse && keepAll == compare.keepAll
+ && rollMax == compare.rollMax
+ && confirmDelete == compare.confirmDelete;
+ }
+
+ @Override
+ public String toString()
+ {
+ StringBuilder sb = new StringBuilder();
+ sb.append(suffix);
+ sb.append(stringDelim);
+ sb.append(digits);
+ sb.append(stringDelim);
+ sb.append(reverse);
+ sb.append(stringDelim);
+ sb.append(keepAll);
+ sb.append(stringDelim);
+ sb.append(rollMax);
+ sb.append(stringDelim);
+ sb.append(confirmDelete);
+ return sb.toString();
+ }
+
+ public static BackupFilesPresetEntry createBackupFilesPresetEntry(
+ String line)
+ {
+ if (line == null)
+ {
+ return null;
+ }
+ StringTokenizer st = new StringTokenizer(line, stringDelim);
+ String suffix = null;
+ int digits = 0;
+ boolean reverse = false;
+ boolean keepAll = false;
+ int rollMax = 0;
+ boolean confirmDelete = false;
+
+ try
+ {
+ suffix = st.nextToken();
+ digits = Integer.valueOf(st.nextToken());
+ reverse = Boolean.valueOf(st.nextToken());
+ keepAll = Boolean.valueOf(st.nextToken());
+ rollMax = Integer.valueOf(st.nextToken());
+ confirmDelete = Boolean.valueOf(st.nextToken());
+ } catch (Exception e)
+ {
+ Cache.log.error("Error parsing backupfiles scheme '" + line + "'");
+ }
+
+ return new BackupFilesPresetEntry(suffix, digits, reverse, keepAll,
+ rollMax, confirmDelete);
+ }
+
+ public static BackupFilesPresetEntry getSavedBackupEntry()
+ {
+ String savedPresetString = Cache
+ .getDefault(BackupFilesPresetEntry.SAVEDCONFIG, null);
+ BackupFilesPresetEntry savedPreset = BackupFilesPresetEntry
+ .createBackupFilesPresetEntry(savedPresetString);
+ if (savedPreset == null)
+ {
+ savedPreset = backupfilesPresetEntriesValues
+ .get(BACKUPFILESSCHEMEDEFAULT);
+ }
+ return savedPreset;
+ }
+
+ public static final IntKeyStringValueEntry[] backupfilesPresetEntries = {
+ new IntKeyStringValueEntry(BACKUPFILESSCHEMEDEFAULT,
+ MessageManager.getString("label.default")),
+ new IntKeyStringValueEntry(2,
+ MessageManager.getString("label.single_file")),
+ new IntKeyStringValueEntry(3,
+ MessageManager.getString("label.keep_all_versions")),
+ new IntKeyStringValueEntry(4,
+ MessageManager.getString("label.rolled_backups")),
+ // ...
+ // IMPORTANT, keep "Custom" entry with key 0 (even though it appears last)
+ new IntKeyStringValueEntry(BACKUPFILESSCHEMECUSTOM,
+ MessageManager.getString("label.custom")) };
+
+ public static final String[] backupfilesPresetEntryDescriptions = {
+ MessageManager.getString("label.default_description"),
+ MessageManager.getString("label.single_file_description"),
+ MessageManager.getString("label.keep_all_versions_description"),
+ MessageManager.getString("label.rolled_backups_description"),
+ MessageManager.getString("label.custom_description") };
+
+ public static final Map<Integer, BackupFilesPresetEntry> backupfilesPresetEntriesValues = new HashMap<Integer, BackupFilesPresetEntry>()
+ {
+ /**
+ *
+ */
+ private static final long serialVersionUID = 125L;
+
+ {
+ put(1, new BackupFilesPresetEntry(
+ ".bak" + BackupFiles.NUM_PLACEHOLDER, 3, false, false, 3,
+ false));
+ put(2, new BackupFilesPresetEntry("~", 1, false, false, 1, false));
+ put(3, new BackupFilesPresetEntry(".v" + BackupFiles.NUM_PLACEHOLDER,
+ 3, false, true, 10, true));
+ put(4, new BackupFilesPresetEntry(
+ "_bak." + BackupFiles.NUM_PLACEHOLDER, 1, true, false, 9,
+ false));
+
+ // This gets replaced by GPreferences
+ put(BACKUPFILESSCHEMECUSTOM,
+ new BackupFilesPresetEntry("", 0, false, false, 0, false));
+ }
+ };
+
+}
--- /dev/null
+package jalview.io;
+
+public class IntKeyStringValueEntry
+{
+ public final int k;
+
+ public final String v;
+
+ public IntKeyStringValueEntry(int k, String v)
+ {
+ this.k = k;
+ this.v = v;
+ }
+
+ @Override
+ public String toString()
+ {
+ return v;
+ }
+
+}
FileMenu.add(inputMenu);
FileMenu.add(inputSequence);
FileMenu.addSeparator();
- FileMenu.add(saveState);
+ //FileMenu.add(saveState);
FileMenu.add(saveAsState);
FileMenu.add(loadState);
FileMenu.addSeparator();
import jalview.gui.StructureViewer.ViewerType;
import jalview.io.BackupFilenameParts;
import jalview.io.BackupFiles;
+import jalview.io.BackupFilesPresetEntry;
+import jalview.io.IntKeyStringValueEntry;
import jalview.util.MessageManager;
import java.awt.BorderLayout;
import java.awt.event.KeyListener;
import java.awt.event.MouseAdapter;
import java.awt.event.MouseEvent;
-import java.util.HashMap;
-import java.util.Map;
+import java.util.Arrays;
+import java.util.List;
import javax.swing.AbstractCellEditor;
import javax.swing.BorderFactory;
import javax.swing.JComboBox;
import javax.swing.JFileChooser;
import javax.swing.JLabel;
-import javax.swing.JList;
import javax.swing.JPanel;
import javax.swing.JRadioButton;
import javax.swing.JScrollPane;
protected JPanel presetsPanel = new JPanel();
+ protected JLabel presetsComboLabel = new JLabel();
+
+ protected JCheckBox customiseCheckbox = new JCheckBox();
+
protected JButton revertButton = new JButton();
- protected JComboBox<IntKeyStringValueEntry> backupfilesPresetsCombo = new JComboBox<>();
+ protected JComboBox<Object> backupfilesPresetsCombo = new JComboBox<>();
+
+ private int backupfilesPresetsComboLastSelected = 0;
protected JPanel suffixPanel = new JPanel();
protected void loadLastSavedBackupsOptions()
{
+ BackupFilesPresetEntry savedPreset = BackupFilesPresetEntry
+ .getSavedBackupEntry();
enableBackupFiles
.setSelected(Cache.getDefault(BackupFiles.ENABLED, true));
+
+ BackupFilesPresetEntry backupfilesCustomEntry = BackupFilesPresetEntry
+ .createBackupFilesPresetEntry(Cache
+ .getDefault(BackupFilesPresetEntry.CUSTOMCONFIG, null));
+ if (backupfilesCustomEntry == null)
+ {
+ backupfilesCustomEntry = BackupFilesPresetEntry.backupfilesPresetEntriesValues
+ .get(BackupFilesPresetEntry.BACKUPFILESSCHEMEDEFAULT);
+ }
+ BackupFilesPresetEntry.backupfilesPresetEntriesValues.put(
+ BackupFilesPresetEntry.BACKUPFILESSCHEMECUSTOM,
+ backupfilesCustomEntry);
+
setComboIntStringKey(backupfilesPresetsCombo,
- Cache.getDefault(BackupFiles.NS + "_PRESET", 1));
- suffixTemplate.setText(Cache.getDefault(BackupFiles.SUFFIX,
- ".bak" + BackupFiles.NUM_PLACEHOLDER));
- suffixDigitsSpinner
- .setValue(Cache.getDefault(BackupFiles.SUFFIX_DIGITS, 3));
- suffixReverse.setSelected(
- Cache.getDefault(BackupFiles.REVERSE_ORDER, false));
- backupfilesKeepAll
- .setSelected(Cache.getDefault(BackupFiles.NO_MAX, false));
- backupfilesRollMaxSpinner
- .setValue(Cache.getDefault(BackupFiles.ROLL_MAX, 3));
- backupfilesConfirmDelete.setSelected(
- Cache.getDefault(BackupFiles.CONFIRM_DELETE_OLD, true));
+ Cache.getDefault(BackupFiles.NS + "_PRESET",
+ BackupFilesPresetEntry.BACKUPFILESSCHEMEDEFAULT));
+
+ backupsSetOptions(savedPreset);
backupsOptionsSetEnabled();
updateBackupFilesExampleLabel();
private boolean warnAboutSuffixReverseChange()
{
- boolean savedSuffixReverse = Cache.getDefault(BackupFiles.REVERSE_ORDER,
- false);
- int savedSuffixDigits = Cache.getDefault(BackupFiles.SUFFIX_DIGITS, 3);
- String savedSuffixTemplate = Cache.getDefault(BackupFiles.SUFFIX,
- ".bak" + BackupFiles.NUM_PLACEHOLDER);
+ BackupFilesPresetEntry bfpe = BackupFilesPresetEntry
+ .getSavedBackupEntry();
+ boolean savedSuffixReverse = bfpe.reverse;
+ int savedSuffixDigits = bfpe.digits;
+ String savedSuffixTemplate = bfpe.suffix;
boolean nowSuffixReverse = suffixReverse.isSelected();
int nowSuffixDigits = getSpinnerInt(suffixDigitsSpinner, 3);
gbc.gridy++; // row 1
backupsTab.add(presetsPanel, gbc);
- // gbc.anchor = GridBagConstraints.NORTHWEST;
// now using whole row
gbc.gridwidth = 2;
gbc.gridheight = 1;
return backupsTab;
}
- protected static final int BACKUPFILESSCHEMECUSTOMISE = 0;
-
- private static final IntKeyStringValueEntry[] backupfilesPresetEntries = {
- new IntKeyStringValueEntry(1,
- MessageManager.getString("label.default")),
- new IntKeyStringValueEntry(2,
- MessageManager.getString("label.single_file")),
- new IntKeyStringValueEntry(3,
- MessageManager.getString("label.keep_all_versions")),
- new IntKeyStringValueEntry(4,
- MessageManager.getString("label.rolled_backups")),
- // ...
- // IMPORTANT, keep "Custom" entry with key 0 (even though it appears last)
- new IntKeyStringValueEntry(BACKUPFILESSCHEMECUSTOMISE,
- MessageManager.getString("label.customise")) };
-
- private static final Map<Integer, BackupFilesPresetEntry> backupfilesPresetEntriesValues = new HashMap<Integer, BackupFilesPresetEntry>()
- {
- /**
- *
- */
- private static final long serialVersionUID = 125L;
-
- {
- put(1, new BackupFilesPresetEntry(
- ".bak" + BackupFiles.NUM_PLACEHOLDER, 3, false, false, 3,
- false));
- put(2, new BackupFilesPresetEntry("~", 1, false, false, 1, false));
- put(3, new BackupFilesPresetEntry(".v" + BackupFiles.NUM_PLACEHOLDER,
- 3, false, true, 10, true));
- put(4, new BackupFilesPresetEntry(
- "_bak." + BackupFiles.NUM_PLACEHOLDER, 1, true, false, 9,
- false));
- }
- };
-
private JPanel initBackupsTabPresetsPanel()
{
String title = MessageManager.getString("label.schemes");
- // TitledBorder tb = new TitledBorder(new EmptyBorder(0, 0, 0, 0), title);
- // TitledBorder tb = new TitledBorder(title);
- // tb.setTitleFont(LABEL_FONT);
- // presetsPanel.setBorder(tb);
presetsPanel.setLayout(new GridBagLayout());
// "Scheme: "
gbc.gridx = 0;
gbc.gridy = 0;
- presetsPanel.add(new JLabel(title + ":"), gbc);
- for (int i = 0; i < backupfilesPresetEntries.length; i++)
+ presetsComboLabel = new JLabel(title + ":");
+ presetsPanel.add(presetsComboLabel, gbc);
+
+ List<Object> entries = Arrays
+ .asList((Object[]) BackupFilesPresetEntry.backupfilesPresetEntries);
+ List<String> tooltips = Arrays.asList(
+ BackupFilesPresetEntry.backupfilesPresetEntryDescriptions);
+ backupfilesPresetsCombo = JvSwingUtils.buildComboWithTooltips(entries,
+ tooltips);
+ /*
+ for (int i = 0; i < BackupFilesPresetEntry.backupfilesPresetEntries.length; i++)
{
- backupfilesPresetsCombo.addItem(backupfilesPresetEntries[i]);
+ backupfilesPresetsCombo
+ .addItem(BackupFilesPresetEntry.backupfilesPresetEntries[i]);
}
+ */
- // put "Previously saved scheme" item in italics (it's not really
- // selectable, as such -- it deselects itself when selected) and
- // "Customise" in bold
- backupfilesPresetsCombo
- .setRenderer(new BackupFilesPresetsComboBoxRenderer());
backupfilesPresetsCombo.addActionListener(new ActionListener()
{
@Override
public void actionPerformed(ActionEvent e)
{
- backupsTabUpdatePresets();
+ int key = getComboIntStringKey(backupfilesPresetsCombo);
+ if (!customiseCheckbox.isSelected())
+ {
+ backupfilesPresetsComboLastSelected = key;
+ }
+ if (key == BackupFilesPresetEntry.BACKUPFILESSCHEMECUSTOM)
+ {
+ if (customiseCheckbox.isSelected())
+ {
+ // got here by clicking on customiseCheckbox so don't change the values
+ backupfilesCustomOptionsSetEnabled();
+ }
+ else
+ {
+ backupsTabUpdatePresets();
+ backupfilesCustomOptionsSetEnabled();
+ }
+ }
+ else
+ {
+ customiseCheckbox.setSelected(false);
+ backupsTabUpdatePresets();
+ backupfilesCustomOptionsSetEnabled();
+ }
}
});
presetsPanel.add(backupfilesPresetsCombo, gbc);
revertButton.setText(MessageManager.getString("label.cancel_changes"));
+ revertButton.setToolTipText(
+ MessageManager.getString("label.cancel_changes_description"));
revertButton.addActionListener(new ActionListener()
{
@Override
public void actionPerformed(ActionEvent e)
{
- loadLastSavedBackupsOptions();
+ backupsSetOptions(
+ BackupFilesPresetEntry.backupfilesPresetEntriesValues.get(
+ BackupFilesPresetEntry.BACKUPFILESSCHEMECUSTOM));
+ backupfilesCustomOptionsSetEnabled();
}
});
revertButton.setFont(LABEL_FONT);
+ customiseCheckbox.setFont(LABEL_FONT);
+ customiseCheckbox.setText(MessageManager.getString("label.customise"));
+ customiseCheckbox.addActionListener(new ActionListener()
+ {
+ @Override
+ public void actionPerformed(ActionEvent e)
+ {
+ int currently = getComboIntStringKey(backupfilesPresetsCombo);
+ if (customiseCheckbox.isSelected())
+ {
+ backupfilesPresetsComboLastSelected = currently;
+ setComboIntStringKey(backupfilesPresetsCombo,
+ BackupFilesPresetEntry.BACKUPFILESSCHEMECUSTOM);
+ }
+ else
+ {
+ setComboIntStringKey(backupfilesPresetsCombo,
+ backupfilesPresetsComboLastSelected);
+
+ }
+ backupfilesCustomOptionsSetEnabled();
+ }
+ });
+ customiseCheckbox.setToolTipText(
+ MessageManager.getString("label.customise_description"));
+
+ // customise checkbox
+ gbc.gridx = 0;
+ gbc.gridy++;
+ presetsPanel.add(customiseCheckbox, gbc);
+
// "Cancel changes" button (aligned with combo box above)
gbc.gridx = 1;
- gbc.gridy++;
presetsPanel.add(revertButton, gbc);
return presetsPanel;
private JPanel initBackupsTabFilenameExamplesPanel()
{
String title = MessageManager
- .getString("label.summary_of_backups_scheme");
+ .getString("label.scheme_examples");
TitledBorder tb = new TitledBorder(title);
exampleFilesPanel.setBorder(tb);
exampleFilesPanel.setLayout(new GridBagLayout());
{
IntKeyStringValueEntry entry = (IntKeyStringValueEntry) backupfilesPresetsCombo
.getSelectedItem();
- int key = entry.getKey();
- String value = entry.getValue();
+ int key = entry.k;
+ String value = entry.v;
- // BACKUPFILESSCHEMECUSTOMISE (==0) reserved for "Custom"
- if (key != BACKUPFILESSCHEMECUSTOMISE)
+ if (BackupFilesPresetEntry.backupfilesPresetEntriesValues
+ .containsKey(key))
{
- if (backupfilesPresetEntriesValues.containsKey(key))
- {
- backupsSetOptions(backupfilesPresetEntriesValues.get(key));
- }
- else
- {
- System.out.println("Preset '" + value + "' not implemented");
- }
+ backupsSetOptions(
+ BackupFilesPresetEntry.backupfilesPresetEntriesValues
+ .get(key));
+ }
+ else
+ {
+ Cache.log.error(
+ "Preset '" + value + "' [key:" + key + "] not implemented");
}
- backupfilesCustomOptionsSetEnabled();
+ // Custom options will now be enabled when the customiseCheckbox is checked
+ // (performed above)
+ // backupfilesCustomOptionsSetEnabled();
updateBackupFilesExampleLabel();
}
- protected int getComboIntStringKey(JComboBox<IntKeyStringValueEntry> c)
+ protected int getComboIntStringKey(
+ JComboBox<Object> backupfilesPresetsCombo2)
{
- IntKeyStringValueEntry e = (IntKeyStringValueEntry) c.getSelectedItem();
- return e != null ? e.getKey() : 0;
+ IntKeyStringValueEntry e;
+ try
+ {
+ e = (IntKeyStringValueEntry) backupfilesPresetsCombo2
+ .getSelectedItem();
+ } catch (Exception ex)
+ {
+ Cache.log.error(
+ "Problem casting Combo entry to IntKeyStringValueEntry.");
+ e = null;
+ }
+ return e != null ? e.k : 0;
}
- protected void setComboIntStringKey(JComboBox<IntKeyStringValueEntry> c,
+ protected void setComboIntStringKey(
+ JComboBox<Object> backupfilesPresetsCombo2,
int key)
{
- for (int i = 0; i < c.getItemCount(); i++)
+ for (int i = 0; i < backupfilesPresetsCombo2.getItemCount(); i++)
{
- IntKeyStringValueEntry e = c.getItemAt(i);
- if (e.getKey() == key)
+ IntKeyStringValueEntry e;
+ try
{
- c.setSelectedIndex(i);
+ e = (IntKeyStringValueEntry) backupfilesPresetsCombo2.getItemAt(i);
+ } catch (Exception ex)
+ {
+ Cache.log.error(
+ "Problem casting Combo entry to IntKeyStringValueEntry. Skipping item. ");
+ continue;
+ }
+ if (e.k == key)
+ {
+ backupfilesPresetsCombo2.setSelectedIndex(i);
break;
}
}
- backupsTabUpdatePresets();
+ // backupsTabUpdatePresets();
}
private JPanel initBackupsTabSuffixPanel()
{
updateBackupFilesExampleLabel();
backupfilesCustomOptionsSetEnabled();
+ backupfilesRevertButtonSetEnabled(true);
}
});
- KeyListener kl = new KeyListener()
+ suffixTemplate.addKeyListener(new KeyListener()
{
@Override
public void keyReleased(KeyEvent e)
{
updateBackupFilesExampleLabel();
backupfilesCustomOptionsSetEnabled();
+ backupfilesRevertButtonSetEnabled(true);
}
@Override
}
}
- };
- suffixTemplate.addKeyListener(kl);
+ });
// digits spinner
suffixDigitsLabel
.setText(MessageManager.getString("label.index_digits"));
suffixDigitsLabel.setHorizontalAlignment(SwingConstants.LEFT);
suffixDigitsLabel.setFont(LABEL_FONT);
- int defaultmin = 1;
- int defaultmax = 6;
ChangeListener c = new ChangeListener()
{
@Override
public void stateChanged(ChangeEvent e)
{
+ backupfilesRevertButtonSetEnabled(true);
updateBackupFilesExampleLabel();
}
};
- setIntegerSpinner(suffixDigitsSpinner, defaultmin, defaultmax, 3, c);
+ setIntegerSpinner(suffixDigitsSpinner, BackupFilesPresetEntry.DIGITSMIN,
+ BackupFilesPresetEntry.DIGITSMAX, 3, c);
suffixReverse.setLabels(MessageManager.getString("label.reverse_roll"),
MessageManager.getString("label.increment_index"));
}
if (okay)
{
+ backupfilesRevertButtonSetEnabled(true);
updateBackupFilesExampleLabel();
}
else
{
- boolean savedSuffixReverse = Cache
- .getDefault(BackupFiles.REVERSE_ORDER, false);
+ boolean savedSuffixReverse = BackupFilesPresetEntry
+ .getSavedBackupEntry().reverse;
suffixReverse.setSelected(savedSuffixReverse);
}
}
@Override
public void actionPerformed(ActionEvent e)
{
+ backupfilesRevertButtonSetEnabled(true);
updateBackupFilesExampleLabel();
}
});
@Override
public void actionPerformed(ActionEvent e)
{
+ backupfilesRevertButtonSetEnabled(true);
keepRollMaxOptionsEnabled();
updateBackupFilesExampleLabel();
}
@Override
public void stateChanged(ChangeEvent e)
{
+ backupfilesRevertButtonSetEnabled(true);
updateBackupFilesExampleLabel();
}
};
- setIntegerSpinner(backupfilesRollMaxSpinner, 1, 999, 4, true, c);
+ setIntegerSpinner(backupfilesRollMaxSpinner,
+ BackupFilesPresetEntry.ROLLMAXMIN,
+ BackupFilesPresetEntry.ROLLMAXMAX, 4, true, c);
backupfilesConfirmDelete.setLabels(
MessageManager.getString("label.always_ask"),
MessageManager.getString("label.auto_delete"));
+ backupfilesConfirmDelete.addActionListener(new ActionListener()
+ {
+ @Override
+ public void actionPerformed(ActionEvent e)
+ {
+ backupfilesRevertButtonSetEnabled(true);
+ }
+ });
// update the enabled section
keepRollMaxOptionsEnabled();
kgbc.gridwidth = GridBagConstraints.REMAINDER;
kgbc.fill = GridBagConstraints.HORIZONTAL;
kgbc.weightx = 1.0;
- /*
- keepfilesPanel.add(backupfilesConfirmDelete.getTrueButton(), kgbc);
-
- // fourth row (indented)
- kgbc.gridy = 3;
- keepfilesPanel.add(backupfilesConfirmDelete.getFalseButton(), kgbc);
- */
JPanel jp = new JPanel();
jp.setLayout(new FlowLayout());
int uppersurround = 0;
StringBuilder exampleSB = new StringBuilder();
boolean firstLine = true;
+ int lineNumber = 0;
if (reverse)
{
if (index == min + lowersurround && index < max - uppersurround - 1)
{
exampleSB.append("\n...");
+ lineNumber++;
}
else if (index > min + lowersurround && index < max - uppersurround)
{
else
{
exampleSB.append("\n");
+ lineNumber++;
}
exampleSB.append(BackupFilenameParts.getBackupFilename(index,
base, suffix, digits));
if (index == min + lowersurround && index < max - uppersurround - 1)
{
exampleSB.append("\n...");
+ lineNumber++;
}
else if (index > min + lowersurround && index < max - uppersurround)
{
else
{
exampleSB.append("\n");
+ lineNumber++;
}
exampleSB.append(BackupFilenameParts.getBackupFilename(index,
base, suffix, digits));
}
+ // add some extra empty lines to pad out the example files box. ugh, please tell
+ // me how to do this better
+ int remainingLines = lowersurround + uppersurround + 1 - lineNumber;
+ if (remainingLines > 0)
+ {
+ for (int i = 0; i < remainingLines; i++)
+ {
+ exampleSB.append("\n ");
+ lineNumber++;
+ }
+ }
+
backupfilesExampleLabel.setText(exampleSB.toString());
}
i = Integer.parseInt((String) s.getValue());
} catch (Exception e)
{
- System.out.println(
+ Cache.log.error(
"Exception casting the initial value of s.getValue()");
}
}
i = (Integer) s.getValue();
} catch (Exception e)
{
- System.out.println("Failed casting (Integer) JSpinner s.getValue()");
+ Cache.log.error("Failed casting (Integer) JSpinner s.getValue()");
}
return i;
}
private void backupfilesKeepAllSetEnabled(boolean tryEnabled)
{
boolean enabled = tryEnabled && enableBackupFiles.isSelected()
- && getComboIntStringKey(backupfilesPresetsCombo) == 0
+ && customiseCheckbox.isSelected()
&& suffixTemplate.getText()
.indexOf(BackupFiles.NUM_PLACEHOLDER) > -1;
keepfilesPanel.setEnabled(enabled);
private void backupfilesSuffixTemplateSetEnabled(boolean tryEnabled)
{
boolean enabled = tryEnabled && enableBackupFiles.isSelected()
- && getComboIntStringKey(backupfilesPresetsCombo) == 0;
+ && customiseCheckbox.isSelected();
suffixPanel.setEnabled(enabled);
suffixTemplateLabel.setEnabled(enabled);
suffixTemplate.setEnabled(enabled);
backupfilesSuffixTemplateDigitsSetEnabled();
}
+ private void backupfilesRevertButtonSetEnabled(boolean tryEnabled)
+ {
+ boolean enabled = tryEnabled && enableBackupFiles.isSelected()
+ && customiseCheckbox.isSelected() && backupfilesCustomChanged();
+ revertButton.setEnabled(enabled);
+ }
+
+ private boolean backupfilesCustomChanged()
+ {
+ BackupFilesPresetEntry custom = BackupFilesPresetEntry.backupfilesPresetEntriesValues
+ .get(BackupFilesPresetEntry.BACKUPFILESSCHEMECUSTOM);
+ BackupFilesPresetEntry current = getBackupfilesCurrentEntry();
+ return !custom.equals(current);
+ }
+
+ protected BackupFilesPresetEntry getBackupfilesCurrentEntry()
+ {
+ String suffix = suffixTemplate.getText();
+ int digits = getSpinnerInt(suffixDigitsSpinner, 3);
+ boolean reverse = suffixReverse.isSelected();
+ boolean keepAll = backupfilesKeepAll.isSelected();
+ int rollMax = getSpinnerInt(backupfilesRollMaxSpinner, 3);
+ boolean confirmDelete = backupfilesConfirmDelete.isSelected();
+
+ BackupFilesPresetEntry bfpe = new BackupFilesPresetEntry(suffix, digits,
+ reverse, keepAll, rollMax, confirmDelete);
+
+ return bfpe;
+ }
+
protected void backupfilesCustomOptionsSetEnabled()
{
- int scheme = getComboIntStringKey(backupfilesPresetsCombo);
- boolean enabled = scheme == 0 && enableBackupFiles.isSelected();
+ boolean enabled = customiseCheckbox.isSelected();
+ backupfilesRevertButtonSetEnabled(enabled);
backupfilesSuffixTemplateSetEnabled(enabled);
backupfilesKeepAllSetEnabled(enabled);
}
{
boolean enabled = enableBackupFiles.isSelected();
presetsPanel.setEnabled(enabled);
+ presetsComboLabel.setEnabled(enabled);
backupfilesPresetsCombo.setEnabled(enabled);
+ customiseCheckbox.setEnabled(enabled);
+ revertButton.setEnabled(enabled);
}
protected void backupsOptionsSetEnabled()
}
}
-class IntKeyStringValueEntry
-{
- int k;
-
- String v;
-
- public IntKeyStringValueEntry(int k, String v)
- {
- this.k = k;
- this.v = v;
- }
-
- @Override
- public String toString()
- {
- return this.getValue();
- }
-
- public int getKey()
- {
- return k;
- }
-
- public String getValue()
- {
- return v;
- }
-}
-
-class BackupFilesPresetEntry
-{
- String suffix;
-
- int digits;
-
- boolean reverse;
-
- boolean keepAll;
-
- int rollMax;
-
- boolean confirmDelete;
-
- public BackupFilesPresetEntry(String suffix, int digits, boolean reverse,
- boolean keepAll, int rollMax, boolean confirmDelete)
- {
- this.suffix = suffix;
- this.digits = digits;
- this.reverse = reverse;
- this.keepAll = keepAll;
- this.rollMax = rollMax;
- this.confirmDelete = confirmDelete;
- }
-}
-
-class BackupFilesPresetsComboBoxRenderer extends DefaultListCellRenderer
-{
- /**
- *
- */
- private static final long serialVersionUID = 88L;
-
- @Override
- public Component getListCellRendererComponent(JList list, Object value,
- int index, boolean isSelected, boolean cellHasFocus)
- {
- super.getListCellRendererComponent(list, value, index, isSelected, cellHasFocus);
-
- try {
- IntKeyStringValueEntry e = (IntKeyStringValueEntry) value;
- if (e.getKey() == GPreferences.BACKUPFILESSCHEMECUSTOMISE)
- {
- // "Customise" item
- this.setFont(this.getFont().deriveFont(Font.BOLD));
- }
- } catch (Exception e) {
- return this;
- }
-
- return this;
- }
-}
}
private static boolean actuallyDeleteTmpFiles = true;
- private static String testDir = "examples";
+
+ private static String testDir = "test/jalview/io";
private static String testBasename = "backupfilestest";
private static String suffix = "_BACKUPTEST-%n";
- private static int digits = 8;
+ private static int digits = 6;
private static int rollMax = 2;
}
// check 10 backup files
- HashMap correctindexmap = new HashMap();
- correctindexmap.put(1, "backupfilestestTemp.fa_BACKUPTEST-00000001");
- correctindexmap.put(2, "backupfilestestTemp.fa_BACKUPTEST-00000002");
- correctindexmap.put(3, "backupfilestestTemp.fa_BACKUPTEST-00000003");
- correctindexmap.put(4, "backupfilestestTemp.fa_BACKUPTEST-00000004");
- correctindexmap.put(5, "backupfilestestTemp.fa_BACKUPTEST-00000005");
- correctindexmap.put(6, "backupfilestestTemp.fa_BACKUPTEST-00000006");
- correctindexmap.put(7, "backupfilestestTemp.fa_BACKUPTEST-00000007");
- correctindexmap.put(8, "backupfilestestTemp.fa_BACKUPTEST-00000008");
- correctindexmap.put(9, "backupfilestestTemp.fa_BACKUPTEST-00000009");
- correctindexmap.put(10, "backupfilestestTemp.fa_BACKUPTEST-00000010");
- HashMap wrongindexmap = new HashMap();
+ HashMap<Integer, String> correctindexmap = new HashMap<>();
+ correctindexmap.put(1, "backupfilestestTemp.fa_BACKUPTEST-000001");
+ correctindexmap.put(2, "backupfilestestTemp.fa_BACKUPTEST-000002");
+ correctindexmap.put(3, "backupfilestestTemp.fa_BACKUPTEST-000003");
+ correctindexmap.put(4, "backupfilestestTemp.fa_BACKUPTEST-000004");
+ correctindexmap.put(5, "backupfilestestTemp.fa_BACKUPTEST-000005");
+ correctindexmap.put(6, "backupfilestestTemp.fa_BACKUPTEST-000006");
+ correctindexmap.put(7, "backupfilestestTemp.fa_BACKUPTEST-000007");
+ correctindexmap.put(8, "backupfilestestTemp.fa_BACKUPTEST-000008");
+ correctindexmap.put(9, "backupfilestestTemp.fa_BACKUPTEST-000009");
+ correctindexmap.put(10, "backupfilestestTemp.fa_BACKUPTEST-000010");
+ HashMap<Integer, String> wrongindexmap = new HashMap<>();
wrongindexmap.put(1, "backupfilestestTemp.fa_BACKUPTEST-1");
- wrongindexmap.put(2, "backupfilestestTemp.fa_BACKUPTEST-00000002");
- wrongindexmap.put(3, "backupfilestestTemp.fa_BACKUPTEST-00000003");
- wrongindexmap.put(4, "backupfilestestTemp.fa_BACKUPTEST-00000004");
- wrongindexmap.put(5, "backupfilestestTemp.fa_BACKUPTEST-00000005");
- wrongindexmap.put(6, "backupfilestestTemp.fa_BACKUPTEST-00000006");
- wrongindexmap.put(7, "backupfilestestTemp.fa_BACKUPTEST-00000007");
- wrongindexmap.put(8, "backupfilestestTemp.fa_BACKUPTEST-00000008");
- wrongindexmap.put(9, "backupfilestestTemp.fa_BACKUPTEST-00000009");
- wrongindexmap.put(10, "backupfilestestTemp.fa_BACKUPTEST-00000010");
+ wrongindexmap.put(2, "backupfilestestTemp.fa_BACKUPTEST-000002");
+ wrongindexmap.put(3, "backupfilestestTemp.fa_BACKUPTEST-000003");
+ wrongindexmap.put(4, "backupfilestestTemp.fa_BACKUPTEST-000004");
+ wrongindexmap.put(5, "backupfilestestTemp.fa_BACKUPTEST-000005");
+ wrongindexmap.put(6, "backupfilestestTemp.fa_BACKUPTEST-000006");
+ wrongindexmap.put(7, "backupfilestestTemp.fa_BACKUPTEST-000007");
+ wrongindexmap.put(8, "backupfilestestTemp.fa_BACKUPTEST-000008");
+ wrongindexmap.put(9, "backupfilestestTemp.fa_BACKUPTEST-000009");
+ wrongindexmap.put(10, "backupfilestestTemp.fa_BACKUPTEST-000010");
int[] indexes2 = { 3, 4, 5, 6, 7, 8, 9, 10 };
int[] indexes3 = { 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11 };
Assert.assertTrue(checkBackupFiles(correctindexmap));
// check there are "rollMax" backup files and they are all saved correctly
// check 10 backup files
- HashMap correctindexmap = new HashMap();
- correctindexmap.put(9, "backupfilestestTemp.fa_BACKUPTEST-00000009");
- correctindexmap.put(10, "backupfilestestTemp.fa_BACKUPTEST-00000010");
+ HashMap<Integer, String> correctindexmap = new HashMap<>();
+ correctindexmap.put(9, "backupfilestestTemp.fa_BACKUPTEST-000009");
+ correctindexmap.put(10, "backupfilestestTemp.fa_BACKUPTEST-000010");
int[] indexes2 = { 10 };
int[] indexes3 = { 8, 9, 10 };
Assert.assertTrue(checkBackupFiles(correctindexmap));
// check there are "rollMax" backup files and they are all saved correctly
// check 10 backup files
- HashMap correctindexmap = new HashMap();
- correctindexmap.put(1, "backupfilestestTemp.fa_BACKUPTEST-00000001");
- correctindexmap.put(2, "backupfilestestTemp.fa_BACKUPTEST-00000002");
+ HashMap<Integer, String> correctindexmap = new HashMap<>();
+ correctindexmap.put(1, "backupfilestestTemp.fa_BACKUPTEST-000001");
+ correctindexmap.put(2, "backupfilestestTemp.fa_BACKUPTEST-000002");
int[] indexes2 = { 1 };
int[] indexes3 = { 1, 2, 3 };
Assert.assertTrue(checkBackupFiles(correctindexmap));
{
Cache.loadProperties("test/jalview/io/testProps.jvprops");
+ BackupFilesPresetEntry bfpe = new BackupFilesPresetEntry(suffix, digits,
+ reverse, noMax, rollMax, false);
+
+ Cache.applicationProperties.setProperty(BackupFiles.ENABLED,
+ Boolean.toString(enabled));
+ Cache.applicationProperties.setProperty(
+ BackupFilesPresetEntry.SAVEDCONFIG, bfpe.toString());
+ /*
Cache.applicationProperties.setProperty(BackupFiles.ENABLED,
Boolean.toString(enabled));
Cache.applicationProperties.setProperty(BackupFiles.SUFFIX, suffix);
Integer.toString(rollMax));
Cache.applicationProperties.setProperty(BackupFiles.CONFIRM_DELETE_OLD,
"false");
+ */
}
private void save()
#---JalviewX Properties File---
#Fri Apr 25 09:54:25 BST 2014
#
-BACKUPFILES_ROLL_MAX=2
-BACKUPFILES_REVERSE_ORDER=false
-BACKUPFILES_SUFFIX=_BACKUPFILESTESTTMP%n
-BACKUPFILES_CONFIRM_DELETE_OLD=false
-BACKUPFILES_NO_MAX=false
BACKUPFILES_ENABLED=true
-BACKUPFILES_SUFFIX_DIGITS=8
+BACKUPFILES_PRESET=0
+BACKUPFILES_SAVED=_BACKUPFILESTESTTMP%n\t6\tfalse\tfalse\t2\tfalse
+BACKUPFILES_CUSTOM=_BACKUPFILESTESTTMP%n\t6\tfalse\tfalse\t2\tfalse
SCREEN_Y=768
SCREEN_X=936
SHOW_WSDISCOVERY_ERRORS=true
--- /dev/null
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE plist PUBLIC "-//Apple//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
+<plist version="1.0">
+<dict>
+ <key>CFBundleAllowMixedLocalizations</key>
+ <true/>
+ <key>CFBundleDevelopmentRegion</key>
+ <string>English</string>
+ <key>CFBundleExecutable</key>
+ <string>applet</string>
+ <key>CFBundleIconFile</key>
+ <string>applet</string>
+ <key>CFBundleIdentifier</key>
+ <string>com.apple.ScriptEditor.id.Uninstall-Old-Jalview</string>
+ <key>CFBundleInfoDictionaryVersion</key>
+ <string>6.0</string>
+ <key>CFBundleName</key>
+ <string>Uninstall Old Jalview</string>
+ <key>CFBundlePackageType</key>
+ <string>APPL</string>
+ <key>CFBundleShortVersionString</key>
+ <string>1.0</string>
+ <key>CFBundleSignature</key>
+ <string>aplt</string>
+ <key>LSMinimumSystemVersionByArchitecture</key>
+ <dict>
+ <key>x86_64</key>
+ <string>10.6</string>
+ </dict>
+ <key>LSRequiresCarbon</key>
+ <true/>
+ <key>WindowState</key>
+ <dict>
+ <key>bundleDividerCollapsed</key>
+ <true/>
+ <key>bundlePositionOfDivider</key>
+ <real>0.0</real>
+ <key>dividerCollapsed</key>
+ <false/>
+ <key>eventLogLevel</key>
+ <integer>2</integer>
+ <key>name</key>
+ <string>ScriptWindowState</string>
+ <key>positionOfDivider</key>
+ <real>223</real>
+ <key>savedFrame</key>
+ <string>329 957 700 672 0 0 3360 1867 </string>
+ <key>selectedTab</key>
+ <string>description</string>
+ </dict>
+</dict>
+</plist>
--- /dev/null
+APPLaplt
\ No newline at end of file
--- /dev/null
+{\rtf1\ansi\ansicpg1252\cocoartf1561\cocoasubrtf600
+{\fonttbl}
+{\colortbl;\red255\green255\blue255;}
+{\*\expandedcolortbl;;}
+}
\ No newline at end of file
<?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" />
+ <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="" />
</languages>
<searchSequence>
<directory location="${compiler:JRE_DIR}" />
+ <registry />
+ <envVar name="JAVA_HOME" />
</searchSequence>
<variables>
<variable name="OSX_KEYSTORE" value="" description="" category="" />
<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="2" overrideFileMode="false" overrideOverwriteMode="true" overrideUninstallMode="true" entryMode="direct" subDirectory="files" 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/$$JAVA_VERSION$$/dist" overwriteMode="1" shared="false" fileMode="644" uninstallMode="2" overrideFileMode="true" overrideOverwriteMode="true" overrideUninstallMode="true" entryMode="subdir" subDirectory="dist" 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>
<components>
<component name="jalview_getdown" id="1031" customizedId="" displayDescription="false" hideHelpButton="false" selected="true" changeable="true" downloadable="false" hidden="false">
</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>
<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="${i18n:updater.WindowTitle("${compiler:sys.fullName}")}">
+ <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 ${compiler:sys.version}" fontSize="8" fontColor="0,0,0" bold="false" />
+ </text>
+ </splashScreen>
+ <java mainClass="jalview.bin.Launcher" mainMode="1" vmParameters="" arguments="" allowVMPassthroughParameters="true" preferredVM="" bundleRuntime="true">
+ <classPath>
+ <scanDirectory location="dist" failOnError="false" />
+ </classPath>
+ <modulePath />
+ <nativeLibraryDirectories />
+ <vmOptions />
+ </java>
+ <includedFiles />
+ <unextractableFiles />
+ <vmOptionsFile mode="template" overwriteMode="0" fileMode="644">
+ <content />
+ </vmOptionsFile>
+ <customScript mode="1" file="">
+ <content />
+ </customScript>
+ <infoPlist mode="1" file="">
+ <content />
+ </infoPlist>
+ <iconImageFiles>
+ <file path="../../resources/images/JalviewLogo_Huge.png" />
+ </iconImageFiles>
+ </launcher>
</launchers>
<installerGui installerType="1" addOnAppId="" suggestPreviousLocations="true" autoUpdateDescriptorUrl="https://www.jalview.org/install4j/updates.xml" useAutoUpdateBaseUrl="false" autoUpdateBaseUrl="">
<staticMembers script="" />
<preActivation />
<postActivation />
<actions>
+ <action name="" id="2012" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.CreateStartMenuEntryAction" enabled="true" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="">
+ <serializedBean>
+ <java class="java.beans.XMLDecoder">
+ <object class="com.install4j.runtime.beans.actions.desktop.CreateStartMenuEntryAction">
+ <void property="allUsers">
+ <boolean>false</boolean>
+ </void>
+ <void property="entryName">
+ <string>${compiler:sys.shortName}</string>
+ </void>
+ <void property="file">
+ <object class="java.io.File">
+ <string>${compiler:sys.shortName}</string>
+ </object>
+ </void>
+ <void property="icon">
+ <object class="com.install4j.api.beans.ExternalFile">
+ <string>../../resources/images/jalview_logos.ico</string>
+ </object>
+ </void>
+ <void property="unixIconFile">
+ <object class="com.install4j.api.beans.ExternalFile">
+ <string>../../resources/images/JalviewLogo_Huge.png</string>
+ </object>
+ </void>
+ </object>
+ </java>
+ </serializedBean>
+ <condition>!context.getBooleanVariable("sys.programGroupDisabled")</condition>
+ </action>
<action name="" id="573" customizedId="" beanClass="com.install4j.runtime.beans.actions.desktop.CreateDesktopLinkAction" enabled="true" commentSet="false" comment="" actionElevationType="elevated" rollbackBarrier="false" rollbackBarrierExitCode="0" multiExec="false" failureStrategy="1" errorMessage="Could not make desktop link">
<serializedBean>
<java class="java.beans.XMLDecoder">
</styles>
</installerGui>
<mediaSets>
- <linuxDeb name="Linux Deb Archive" id="153" customizedId="" mediaFileName="" installDir="/opt/${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/${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" overwriteNeverAsConfigFiles="false" dependencies="openjdk-8-jre" bzip="true" description="Jalview Desktop" maintainerEmail="help@jalview.org" architectureSet="false" architecture="">
<excludedComponents>
+ <component id="1031" />
<component id="1155" />
<component id="1156" />
<component id="1276" />
+ <component id="2110" />
</excludedComponents>
<includedDownloadableComponents />
<excludedLaunchers>
+ <launcher id="737" />
<launcher id="1402" />
</excludedLaunchers>
<excludedBeans />
<overriddenPrincipalLanguage id="en" customLocalizationFile="" />
<exclude>
<entry location=".i4j_fileset_" fileType="regular" />
+ <entry location=".i4j_fileset_734" fileType="regular" />
<entry location=".i4j_fileset_880" fileType="regular" />
<entry location=".i4j_fileset_882" fileType="regular" />
</exclude>
<content />
</postUninstallScript>
</linuxDeb>
- <linuxRPM name="Linux RPM" id="570" customizedId="" mediaFileName="" installDir="/opt/${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/${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false" overwriteNeverAsConfigFiles="false" dependencies="java-1.8.0-openjdk" os="linux" arch="noarch">
<excludedComponents>
+ <component id="1031" />
<component id="1155" />
<component id="1156" />
<component id="1276" />
+ <component id="2110" />
</excludedComponents>
<includedDownloadableComponents />
<excludedLaunchers>
+ <launcher id="737" />
<launcher id="1402" />
</excludedLaunchers>
<excludedBeans />
<overriddenPrincipalLanguage id="en" customLocalizationFile="" />
<exclude>
<entry location=".i4j_fileset_" fileType="regular" />
+ <entry location=".i4j_fileset_734" fileType="regular" />
<entry location=".i4j_fileset_880" fileType="regular" />
<entry location=".i4j_fileset_882" fileType="regular" />
</exclude>
<content />
</postUninstallScript>
</linuxRPM>
- <windows name="Offline Windows" id="743" customizedId="" mediaFileName="${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">
+ <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>
<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>
+ </windows>
+ <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="">
<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}-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">
+ <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 />
<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="">
<symlink name="Jalview.app/Contents/Resources/app/${compiler:JRE_DIR}/Contents/MacOS/libjli.dylib" target="../Home/lib/jli/libjli.dylib" />
<file name="Jalview.app/Contents/Resources/Jalview-File.icns" file="./Jalview-File.icns" />
<file name="Jalview.app/Contents/Resources/Jalview-Version-Locator.icns" file="Jalview-Version-Locator.icns" />
+ <symlink name="Uninstall Old Jalview.app" target="Jalview.app/Contents/Resources/app/Uninstall Old Jalview.app" />
</topLevelFiles>
</macosArchive>
- <macosArchive name="Network macOS Single Bundle Archive" id="1274" customizedId="" mediaFileName="${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">
+ <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 />
<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="">
<symlink name="Jalview.app/Contents/Resources/app/${compiler:JRE_DIR}/Contents/MacOS/libjli.dylib" target="../Home/lib/jli/libjli.dylib" />
<file name="Jalview.app/Contents/Resources/Jalview-Version-Locator.icns" file="Jalview-Version-Locator.icns" />
<file name="Jalview.app/Contents/Resources/Jalview-File.icns" file="Jalview-File.icns" />
+ <symlink name="Uninstall Old Jalview.app" target="Jalview.app/Contents/Resources/app/Uninstall Old Jalview.app" />
</topLevelFiles>
</macosArchive>
- <unixInstaller name="Unix Installer" id="1595" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_installer_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="" manualJREEntry="false" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="" contentFilesType="1">
- <excludedComponents />
+ <unixInstaller name="Offline Unix Shell Installer" id="1595" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_installer_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="" manualJREEntry="false" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="~/opt/" contentFilesType="1">
+ <excludedComponents>
+ <component id="1155" />
+ <component id="1156" />
+ <component id="1276" />
+ <component id="1881" />
+ <component id="2110" />
+ </excludedComponents>
<includedDownloadableComponents />
<excludedLaunchers>
<launcher id="1402" />
<excludedBeans />
<overriddenPrincipalLanguage id="en" customLocalizationFile="" />
<exclude>
- <entry location=".i4j_fileset_734" fileType="regular" />
+ <entry location=".i4j_fileset_" fileType="regular" />
<entry location=".i4j_fileset_880" fileType="regular" />
<entry location=".i4j_fileset_882" fileType="regular" />
+ <entry location=".i4j_fileset_1873" fileType="regular" />
</exclude>
<variables />
<autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
<content />
</installerScript>
</unixInstaller>
- <unixArchive name="Unix Archive" id="1596" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_archive_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false">
+ <unixInstaller name="Network Unix Shell Installer" id="1867" customizedId="" mediaFileName="${compiler:sys.shortName}-NETWORK_${compiler:sys.platform}_installer_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="false" includedJRE="" manualJREEntry="false" bundleType="1" jreURL="" jreShared="false" directDownload="false" installOnlyIfNecessary="false" customInstallBaseDir="~/opt/" contentFilesType="1">
<excludedComponents>
<component id="1031" />
<component id="1155" />
<component id="1156" />
+ <component id="1881" />
+ <component id="2110" />
+ </excludedComponents>
+ <includedDownloadableComponents />
+ <excludedLaunchers />
+ <excludedBeans />
+ <overriddenPrincipalLanguage id="en" customLocalizationFile="" />
+ <exclude>
+ <entry location=".i4j_fileset_734" fileType="regular" />
+ <entry location=".i4j_fileset_880" fileType="regular" />
+ <entry location=".i4j_fileset_882" fileType="regular" />
+ <entry location=".i4j_fileset_1873" fileType="regular" />
+ </exclude>
+ <variables />
+ <autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
+ <commentFiles />
+ <customAttributes />
+ </autoUpdate>
+ <installerScript mode="1" file="">
+ <content />
+ </installerScript>
+ </unixInstaller>
+ <unixArchive name="Offline Unix .tar.gz Archive" id="1596" customizedId="" mediaFileName="${compiler:sys.shortName}-OFFLINE_${compiler:sys.platform}_archive_${compiler:sys.version}-j$$JAVA_INTEGER_VERSION$$" installDir="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false">
+ <excludedComponents>
+ <component id="1155" />
+ <component id="1156" />
+ <component id="1276" />
+ <component id="1881" />
+ <component id="2110" />
</excludedComponents>
<includedDownloadableComponents />
<excludedLaunchers>
</excludedLaunchers>
<excludedBeans />
<overriddenPrincipalLanguage id="en" customLocalizationFile="" />
- <exclude />
+ <exclude>
+ <entry location=".i4j_fileset_" fileType="regular" />
+ <entry location=".i4j_fileset_880" fileType="regular" />
+ <entry location=".i4j_fileset_882" fileType="regular" />
+ <entry location=".i4j_fileset_1873" fileType="regular" />
+ </exclude>
<variables />
<autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
<commentFiles />
<customAttributes />
</autoUpdate>
</unixArchive>
- <windows name="Network Windows" id="1862" customizedId="" mediaFileName="${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">
+ <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="${compiler:sys.shortName}" overridePrincipalLanguage="false" jreBitType="all" runPostProcessor="false" postProcessor="" failOnPostProcessorError="false" useLegacyMediaFileIds="false" legacyMediaFileIds="" downloadURL="" includeAllDownloadableComponents="true" includedJRE="" manualJREEntry="false">
<excludedComponents>
<component id="1031" />
<component id="1155" />
<component id="1156" />
+ <component id="1881" />
+ <component id="2110" />
</excludedComponents>
<includedDownloadableComponents />
<excludedLaunchers />
<exclude>
<entry location=".i4j_fileset_734" fileType="regular" />
<entry location=".i4j_fileset_880" fileType="regular" />
+ <entry location=".i4j_fileset_882" fileType="regular" />
+ <entry location=".i4j_fileset_1873" fileType="regular" />
</exclude>
<variables />
<autoUpdate useMinUpdatableVersion="false" minUpdatableVersion="" useMaxUpdatableVersion="false" maxUpdatableVersion="">
<commentFiles />
<customAttributes />
</autoUpdate>
- </windows>
+ </unixArchive>
</mediaSets>
<buildIds buildAll="true">
<mediaSet refId="153" />
<mediaSet refId="1595" />
<mediaSet refId="1596" />
<mediaSet refId="1862" />
+ <mediaSet refId="1867" />
+ <mediaSet refId="1871" />
</buildIds>
<buildOptions verbose="false" faster="false" disableSigning="false" disableJreBundling="false" debug="false" />
</install4j>
--- /dev/null
+#!/usr/bin/env bash
+
+find Uninstall\ Old\ Jalview.app | perl -p -e 'chomp;$_=qq( <file name=").$_.qq(" file="./).$_.qq(" />\n);' > uninstall_old_jalview_files.xml
+
+# makes the file used to replace the line
+# <file name="UNINSTALL_OLD_JALVIEW_APP_REPLACED_IN_GRADLE" file="./Uninstall Old Jalview.app" />
+# (replacement happens in gradle)
--- /dev/null
+ <file name="Uninstall Old Jalview.app" file="./Uninstall Old Jalview.app" />
+ <file name="Uninstall Old Jalview.app/Contents" file="./Uninstall Old Jalview.app/Contents" />
+ <file name="Uninstall Old Jalview.app/Contents/MacOS" file="./Uninstall Old Jalview.app/Contents/MacOS" />
+ <file name="Uninstall Old Jalview.app/Contents/MacOS/applet" file="./Uninstall Old Jalview.app/Contents/MacOS/applet" />
+ <file name="Uninstall Old Jalview.app/Contents/Resources" file="./Uninstall Old Jalview.app/Contents/Resources" />
+ <file name="Uninstall Old Jalview.app/Contents/Resources/applet.rsrc" file="./Uninstall Old Jalview.app/Contents/Resources/applet.rsrc" />
+ <file name="Uninstall Old Jalview.app/Contents/Resources/description.rtfd" file="./Uninstall Old Jalview.app/Contents/Resources/description.rtfd" />
+ <file name="Uninstall Old Jalview.app/Contents/Resources/description.rtfd/TXT.rtf" file="./Uninstall Old Jalview.app/Contents/Resources/description.rtfd/TXT.rtf" />
+ <file name="Uninstall Old Jalview.app/Contents/Resources/Scripts" file="./Uninstall Old Jalview.app/Contents/Resources/Scripts" />
+ <file name="Uninstall Old Jalview.app/Contents/Resources/Scripts/main.scpt" file="./Uninstall Old Jalview.app/Contents/Resources/Scripts/main.scpt" />
+ <file name="Uninstall Old Jalview.app/Contents/Resources/applet.icns" file="./Uninstall Old Jalview.app/Contents/Resources/applet.icns" />
+ <file name="Uninstall Old Jalview.app/Contents/Info.plist" file="./Uninstall Old Jalview.app/Contents/Info.plist" />
+ <file name="Uninstall Old Jalview.app/Contents/PkgInfo" file="./Uninstall Old Jalview.app/Contents/PkgInfo" />
git://source.jalview.org / jalview.git / commitdiff