Merge commit 'alpha/update_2_12_for_2_11_2_series_merge^2' into HEAD
[jalview.git] / utils / jalviewjs / classlists / jvexamplefile.txt
diff --git a/utils/jalviewjs/classlists/jvexamplefile.txt b/utils/jalviewjs/classlists/jvexamplefile.txt
new file mode 100644 (file)
index 0000000..fd38213
--- /dev/null
@@ -0,0 +1,1031 @@
+com/stevesoft/pat/Boundary.js
+com/stevesoft/pat/Start.js
+intervalstore/api/IntervalI.js
+intervalstore/api/IntervalStoreI.js
+intervalstore/impl/BinarySearcher.js
+intervalstore/impl/IntervalStore.js
+intervalstore/impl/NCList.js
+intervalstore/impl/NCNode.js
+jalview/bin/JalviewTaskbar.js
+jalview/datamodel/AlignedCodonFrame.js
+jalview/ext/ensembl/EnsemblFeatures.js
+jalview/ext/ensembl/EnsemblLookup.js
+jalview/ext/ensembl/EnsemblSymbol.js
+jalview/ext/ensembl/EnsemblXref.js
+jalview/ext/ensembl/Species.js
+jalview/fts/api/StructureFTSRestClientI.js
+jalview/fts/service/threedbeacons/TDBeaconsFTSRestClient.js
+jalview/gui/APQHandlers.js
+jalview/gui/CrossRefAction.js
+jalview/gui/CutAndPasteTransfer.js
+jalview/gui/JvOptionPane.js
+jalview/gui/SplashScreen.js
+jalview/gui/structurechooser/PDBStructureChooserQuerySource.js
+jalview/gui/structurechooser/StructureChooserQuerySource.js
+jalview/gui/structurechooser/TDBResultAnalyser.js
+jalview/gui/structurechooser/ThreeDBStructureChooserQuerySource.js
+jalview/io/gff/SequenceOntologyFactory.js
+jalview/io/gff/SequenceOntologyI.js
+jalview/io/gff/SequenceOntologyLite.js
+jalview/jbgui/FilterOption.js
+jalview/jbgui/GCutAndPasteTransfer.js
+jalview/structure/AtomSpecModel.js
+jalview/structure/StructureCommand.js
+jalview/structure/StructureCommandI.js
+jalview/structure/StructureCommandsBase.js
+jalview/structure/StructureCommandsI.js
+jalview/util/ChannelProperties.js
+jalview/util/HttpUtils.js
+jalview/util/IntRangeComparator.js
+jalview/util/JSONUtils.js
+jalview/util/ShortcutKeyMaskExWrapper.js
+jalview/util/ShortcutKeyMaskExWrapper8.js
+jalview/util/ShortcutKeyMaskExWrapperI.js
+jalview/ws/SequenceFetcherFactory.js
+jalview/ws/dbsources/EBIAlfaFold.js
+jalview/ws/dbsources/EmblFlatfileSource.js
+jalview/ws/utils/UrlDownloadClient.js
+jalview/xml/binding/uniprot/InteractantType.js
+jalview/xml/binding/uniprot/MoleculeType.js
+jalview/xml/binding/uniprot/ReactionType.js
+java/applet/AppletContext.js
+java/applet/AppletStub.js
+java/applet/JSApplet.js
+java/awt/AWTEvent.js
+java/awt/AWTEventMulticaster.js
+java/awt/AWTKeyStroke.js
+java/awt/ActiveEvent.js
+java/awt/Adjustable.js
+java/awt/AlphaComposite.js
+java/awt/BasicStroke.js
+java/awt/BorderLayout.js
+java/awt/CardLayout.js
+java/awt/Color.js
+java/awt/Component.js
+java/awt/ComponentOrientation.js
+java/awt/Composite.js
+java/awt/Container.js
+java/awt/ContainerOrderFocusTraversalPolicy.js
+java/awt/Cursor.js
+java/awt/DefaultFocusTraversalPolicy.js
+java/awt/DefaultKeyboardFocusManager.js
+java/awt/Desktop.js
+java/awt/Dialog.js
+java/awt/Dimension.js
+java/awt/EventDispatchThread.js
+java/awt/EventFilter.js
+java/awt/EventQueue.js
+java/awt/EventQueueItem.js
+java/awt/FlowLayout.js
+java/awt/FocusTraversalPolicy.js
+java/awt/Font.js
+java/awt/FontMetrics.js
+java/awt/GraphicsCallback.js
+java/awt/GraphicsConfiguration.js
+java/awt/GraphicsDevice.js
+java/awt/GraphicsEnvironment.js
+java/awt/GridBagConstraints.js
+java/awt/GridBagLayout.js
+java/awt/GridBagLayoutInfo.js
+java/awt/GridLayout.js
+java/awt/Image.js
+java/awt/Insets.js
+java/awt/ItemSelectable.js
+java/awt/JSComponent.js
+java/awt/JSDialog.js
+java/awt/JSFrame.js
+java/awt/JSPanel.js
+java/awt/KeyEventDispatcher.js
+java/awt/KeyEventPostProcessor.js
+java/awt/KeyboardFocusManager.js
+java/awt/LayoutManager.js
+java/awt/LayoutManager2.js
+java/awt/LightweightDispatcher.js
+java/awt/Paint.js
+java/awt/Point.js
+java/awt/Queue.js
+java/awt/Rectangle.js
+java/awt/RenderingHints.js
+java/awt/SentEvent.js
+java/awt/Shape.js
+java/awt/Stroke.js
+java/awt/Taskbar.js
+java/awt/TextComponent.js
+java/awt/Toolkit.js
+java/awt/Transparency.js
+java/awt/VKCollection.js
+java/awt/Window.js
+java/awt/color/ColorSpace.js
+java/awt/datatransfer/ClipboardOwner.js
+java/awt/datatransfer/FlavorMap.js
+java/awt/datatransfer/FlavorTable.js
+java/awt/datatransfer/SystemFlavorMap.js
+java/awt/dnd/DropTarget.js
+java/awt/dnd/DropTargetContext.js
+java/awt/dnd/DropTargetListener.js
+java/awt/dnd/peer/DropTargetPeer.js
+java/awt/event/AWTEventListener.js
+java/awt/event/ActionEvent.js
+java/awt/event/ActionListener.js
+java/awt/event/AdjustmentEvent.js
+java/awt/event/AdjustmentListener.js
+java/awt/event/ComponentAdapter.js
+java/awt/event/ComponentEvent.js
+java/awt/event/ComponentListener.js
+java/awt/event/ContainerEvent.js
+java/awt/event/ContainerListener.js
+java/awt/event/FocusAdapter.js
+java/awt/event/FocusEvent.js
+java/awt/event/FocusListener.js
+java/awt/event/HierarchyBoundsListener.js
+java/awt/event/HierarchyEvent.js
+java/awt/event/HierarchyListener.js
+java/awt/event/InputEvent.js
+java/awt/event/InputMethodListener.js
+java/awt/event/InvocationEvent.js
+java/awt/event/ItemEvent.js
+java/awt/event/ItemListener.js
+java/awt/event/KeyAdapter.js
+java/awt/event/KeyEvent.js
+java/awt/event/KeyListener.js
+java/awt/event/MouseAdapter.js
+java/awt/event/MouseEvent.js
+java/awt/event/MouseListener.js
+java/awt/event/MouseMotionAdapter.js
+java/awt/event/MouseMotionListener.js
+java/awt/event/MouseWheelEvent.js
+java/awt/event/MouseWheelListener.js
+java/awt/event/TextListener.js
+java/awt/event/WindowAdapter.js
+java/awt/event/WindowEvent.js
+java/awt/event/WindowFocusListener.js
+java/awt/event/WindowListener.js
+java/awt/event/WindowStateListener.js
+java/awt/font/FontRenderContext.js
+java/awt/font/TextAttribute.js
+java/awt/geom/AffineTransform.js
+java/awt/geom/Dimension2D.js
+java/awt/geom/Path2D.js
+java/awt/geom/PathIterator.js
+java/awt/geom/Point2D.js
+java/awt/geom/RectIterator.js
+java/awt/geom/Rectangle2D.js
+java/awt/geom/RectangularShape.js
+java/awt/image/BufferedImage.js
+java/awt/image/ColorModel.js
+java/awt/image/DataBuffer.js
+java/awt/image/DataBufferInt.js
+java/awt/image/DirectColorModel.js
+java/awt/image/ImageConsumer.js
+java/awt/image/ImageObserver.js
+java/awt/image/ImageProducer.js
+java/awt/image/PackedColorModel.js
+java/awt/image/PixelGrabber.js
+java/awt/image/Raster.js
+java/awt/image/RenderedImage.js
+java/awt/image/SampleModel.js
+java/awt/image/SinglePixelPackedSampleModel.js
+java/awt/image/WritableRaster.js
+java/awt/peer/ComponentPeer.js
+java/awt/peer/ContainerPeer.js
+java/awt/peer/DialogPeer.js
+java/awt/peer/FramePeer.js
+java/awt/peer/KeyboardFocusManagerPeer.js
+java/awt/peer/LightweightPeer.js
+java/awt/peer/WindowPeer.js
+java/awt/print/Printable.js
+java/beans/ChangeListenerMap.js
+java/beans/PropertyChangeEvent.js
+java/beans/PropertyChangeListener.js
+java/beans/PropertyChangeSupport.js
+java/io/BufferedInputStream.js
+java/io/BufferedReader.js
+java/io/BufferedWriter.js
+java/io/ByteArrayInputStream.js
+java/io/ByteArrayOutputStream.js
+java/io/Closeable.js
+java/io/DataInput.js
+java/io/DataInputStream.js
+java/io/File.js
+java/io/FileDescriptor.js
+java/io/FileInputStream.js
+java/io/FileOutputStream.js
+java/io/FileReader.js
+java/io/FileSystem.js
+java/io/FilenameFilter.js
+java/io/FilterInputStream.js
+java/io/FilterOutputStream.js
+java/io/InputStream.js
+java/io/InputStreamReader.js
+java/io/ObjectStreamField.js
+java/io/OutputStream.js
+java/io/OutputStreamWriter.js
+java/io/PrintStream.js
+java/io/Reader.js
+java/io/StringReader.js
+java/io/StringWriter.js
+java/io/Writer.js
+java/lang/AbstractStringBuilder.js
+java/lang/AutoCloseable.js
+java/lang/Class.js
+java/lang/Enum.js
+java/lang/Iterable.js
+java/lang/Readable.js
+java/lang/Runtime.js
+java/lang/StringBuffer.js
+java/lang/StringBuilder.js
+java/lang/Thread.js
+java/lang/ThreadGroup.js
+java/lang/ThreadLocal.js
+java/lang/ref/ReferenceQueue.js
+java/lang/reflect/AccessibleObject.js
+java/lang/reflect/AnnotatedElement.js
+java/lang/reflect/Constructor.js
+java/lang/reflect/Method.js
+java/math/BigDecimal.js
+java/math/BigInteger.js
+java/math/MathContext.js
+java/math/RoundingMode.js
+java/net/ContentHandler.js
+java/net/HttpURLConnection.js
+java/net/URI.js
+java/net/URL.js
+java/net/URLConnection.js
+java/net/URLStreamHandler.js
+java/net/URLStreamHandlerFactory.js
+java/net/UnknownHostException.js
+java/nio/file/FileSystem.js
+java/nio/file/FileSystems.js
+java/nio/file/Path.js
+java/nio/file/Watchable.js
+java/nio/file/spi/FileSystemProvider.js
+java/security/AccessController.js
+java/security/PrivilegedAction.js
+java/security/PrivilegedExceptionAction.js
+java/text/AttributedCharacterIterator.js
+java/text/CharacterIterator.js
+java/text/DateFormat.js
+java/text/DateFormatSymbols.js
+java/text/DecimalFormat.js
+java/text/DecimalFormatSymbols.js
+java/text/DigitList.js
+java/text/FieldPosition.js
+java/text/Format.js
+java/text/MessageFormat.js
+java/text/NumberFormat.js
+java/text/SimpleDateFormat.js
+java/text/spi/BreakIteratorProvider.js
+java/text/spi/CollatorProvider.js
+java/text/spi/DateFormatProvider.js
+java/text/spi/DateFormatSymbolsProvider.js
+java/text/spi/DecimalFormatSymbolsProvider.js
+java/text/spi/NumberFormatProvider.js
+java/util/AbstractCollection.js
+java/util/AbstractList.js
+java/util/AbstractMap.js
+java/util/AbstractQueue.js
+java/util/AbstractSequentialList.js
+java/util/AbstractSet.js
+java/util/ArrayDeque.js
+java/util/ArrayList.js
+java/util/Arrays.js
+java/util/BitSet.js
+java/util/Calendar.js
+java/util/Collection.js
+java/util/Collections.js
+java/util/ComparableTimSort.js
+java/util/Comparator.js
+java/util/Deque.js
+java/util/Dictionary.js
+java/util/DualPivotQuicksort.js
+java/util/Enumeration.js
+java/util/EventListener.js
+java/util/EventObject.js
+java/util/Formatter.js
+java/util/GregorianCalendar.js
+java/util/HashMap.js
+java/util/HashSet.js
+java/util/Hashtable.js
+java/util/IdentityHashMap.js
+java/util/Iterator.js
+java/util/LinkedHashMap.js
+java/util/LinkedHashSet.js
+java/util/LinkedList.js
+java/util/List.js
+java/util/ListIterator.js
+java/util/Locale.js
+java/util/Map.js
+java/util/NavigableMap.js
+java/util/NavigableSet.js
+java/util/Objects.js
+java/util/Properties.js
+java/util/PropertyResourceBundle.js
+java/util/Queue.js
+java/util/Random.js
+java/util/RandomAccess.js
+java/util/RandomAccessSubList.js
+java/util/ResourceBundle.js
+java/util/ServiceLoader.js
+java/util/Set.js
+java/util/SortedMap.js
+java/util/SortedSet.js
+java/util/Stack.js
+java/util/StringTokenizer.js
+java/util/SubList.js
+java/util/TimSort.js
+java/util/TimeZone.js
+java/util/TreeMap.js
+java/util/TreeSet.js
+java/util/Vector.js
+java/util/WeakHashMap.js
+java/util/concurrent/AbstractExecutorService.js
+java/util/concurrent/BlockingQueue.js
+java/util/concurrent/ConcurrentHashMap.js
+java/util/concurrent/ConcurrentMap.js
+java/util/concurrent/Executor.js
+java/util/concurrent/ExecutorService.js
+java/util/concurrent/Executors.js
+java/util/concurrent/LinkedBlockingQueue.js
+java/util/concurrent/RejectedExecutionHandler.js
+java/util/concurrent/Semaphore.js
+java/util/concurrent/ThreadFactory.js
+java/util/concurrent/ThreadPoolExecutor.js
+java/util/concurrent/TimeUnit.js
+java/util/concurrent/atomic/AtomicInteger.js
+java/util/concurrent/locks/AbstractOwnableSynchronizer.js
+java/util/concurrent/locks/AbstractQueuedSynchronizer.js
+java/util/concurrent/locks/Condition.js
+java/util/concurrent/locks/Lock.js
+java/util/concurrent/locks/ReadWriteLock.js
+java/util/concurrent/locks/ReentrantLock.js
+java/util/concurrent/locks/ReentrantReadWriteLock.js
+java/util/jar/JarEntry.js
+java/util/jar/JarInputStream.js
+java/util/regex/MatchResult.js
+java/util/regex/Matcher.js
+java/util/regex/Pattern.js
+java/util/spi/CalendarDataProvider.js
+java/util/spi/CurrencyNameProvider.js
+java/util/spi/LocaleNameProvider.js
+java/util/spi/LocaleServiceProvider.js
+java/util/spi/TimeZoneNameProvider.js
+java/util/zip/CRC32.js
+java/util/zip/Inflater.js
+java/util/zip/InflaterInputStream.js
+java/util/zip/ZipConstants.js
+java/util/zip/ZipEntry.js
+java/util/zip/ZipInputStream.js
+javajs/api/BytePoster.js
+javajs/api/GenericCifDataParser.js
+javajs/api/GenericLineReader.js
+javajs/api/GenericOutputChannel.js
+javajs/api/JSONEncodable.js
+javajs/util/A4.js
+javajs/util/AU.js
+javajs/util/AjaxURLConnection.js
+javajs/util/AjaxURLStreamHandler.js
+javajs/util/AjaxURLStreamHandlerFactory.js
+javajs/util/BS.js
+javajs/util/Base64.js
+javajs/util/CU.js
+javajs/util/CifDataParser.js
+javajs/util/DF.js
+javajs/util/Encoding.js
+javajs/util/JSThread.js
+javajs/util/LimitedLineReader.js
+javajs/util/Lst.js
+javajs/util/M3.js
+javajs/util/M34.js
+javajs/util/M4.js
+javajs/util/OC.js
+javajs/util/P3.js
+javajs/util/P3i.js
+javajs/util/P4.js
+javajs/util/PT.js
+javajs/util/Rdr.js
+javajs/util/SB.js
+javajs/util/T3.js
+javajs/util/T3i.js
+javajs/util/T4.js
+javajs/util/V3.js
+javax/net/ssl/HttpsURLConnection.js
+javax/swing/AbstractAction.js
+javax/swing/AbstractButton.js
+javax/swing/AbstractListModel.js
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+javax/swing/ActionMap.js
+javax/swing/AncestorNotifier.js
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+javax/swing/ButtonGroup.js
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+javax/swing/CellRendererPane.js
+javax/swing/ClientPropertyKey.js
+javax/swing/ComboBoxEditor.js
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+javax/swing/DefaultBoundedRangeModel.js
+javax/swing/DefaultButtonModel.js
+javax/swing/DefaultComboBoxModel.js
+javax/swing/DefaultDesktopManager.js
+javax/swing/DefaultListCellRenderer.js
+javax/swing/DefaultListSelectionModel.js
+javax/swing/DefaultRowSorter.js
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+javax/swing/Icon.js
+javax/swing/ImageIcon.js
+javax/swing/InputMap.js
+javax/swing/InternalFrameFocusTraversalPolicy.js
+javax/swing/JApplet.js
+javax/swing/JButton.js
+javax/swing/JCheckBox.js
+javax/swing/JCheckBoxMenuItem.js
+javax/swing/JComboBox.js
+javax/swing/JComponent.js
+javax/swing/JDesktopPane.js
+javax/swing/JDialog.js
+javax/swing/JFrame.js
+javax/swing/JInternalFrame.js
+javax/swing/JLabel.js
+javax/swing/JLayeredPane.js
+javax/swing/JList.js
+javax/swing/JMenu.js
+javax/swing/JMenuBar.js
+javax/swing/JMenuItem.js
+javax/swing/JOptionPane.js
+javax/swing/JPanel.js
+javax/swing/JPopupMenu.js
+javax/swing/JProgressBar.js
+javax/swing/JRadioButtonMenuItem.js
+javax/swing/JRootPane.js
+javax/swing/JScrollBar.js
+javax/swing/JScrollPane.js
+javax/swing/JSeparator.js
+javax/swing/JTabbedPane.js
+javax/swing/JTable.js
+javax/swing/JTextArea.js
+javax/swing/JTextField.js
+javax/swing/JToggleButton.js
+javax/swing/JToolTip.js
+javax/swing/JViewport.js
+javax/swing/JWindow.js
+javax/swing/KeyStroke.js
+javax/swing/KeyboardManager.js
+javax/swing/LayoutComparator.js
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+javax/swing/ListCellRenderer.js
+javax/swing/ListModel.js
+javax/swing/ListSelectionModel.js
+javax/swing/LookAndFeel.js
+javax/swing/MenuElement.js
+javax/swing/MenuSelectionManager.js
+javax/swing/MutableComboBoxModel.js
+javax/swing/Popup.js
+javax/swing/PopupFactory.js
+javax/swing/RepaintManager.js
+javax/swing/RootPaneContainer.js
+javax/swing/RowSorter.js
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+javax/swing/ScrollPaneLayout.js
+javax/swing/Scrollable.js
+javax/swing/SingleSelectionModel.js
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+javax/swing/SwingDefaultFocusTraversalPolicy.js
+javax/swing/SwingPaintEventDispatcher.js
+javax/swing/SwingUtilities.js
+javax/swing/Timer.js
+javax/swing/ToolTipManager.js
+javax/swing/TransferHandler.js
+javax/swing/UIDefaults.js
+javax/swing/UIManager.js
+javax/swing/ViewportLayout.js
+javax/swing/WindowConstants.js
+javax/swing/border/AbstractBorder.js
+javax/swing/border/BevelBorder.js
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+javax/swing/border/CompoundBorder.js
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+javax/swing/event/AncestorEvent.js
+javax/swing/event/AncestorListener.js
+javax/swing/event/CaretEvent.js
+javax/swing/event/CaretListener.js
+javax/swing/event/CellEditorListener.js
+javax/swing/event/ChangeEvent.js
+javax/swing/event/ChangeListener.js
+javax/swing/event/DocumentEvent.js
+javax/swing/event/DocumentListener.js
+javax/swing/event/EventListenerList.js
+javax/swing/event/HyperlinkListener.js
+javax/swing/event/InternalFrameAdapter.js
+javax/swing/event/InternalFrameEvent.js
+javax/swing/event/InternalFrameListener.js
+javax/swing/event/ListDataEvent.js
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+javax/swing/event/ListSelectionEvent.js
+javax/swing/event/ListSelectionListener.js
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+javax/swing/event/MenuKeyListener.js
+javax/swing/event/MenuListener.js
+javax/swing/event/MouseInputListener.js
+javax/swing/event/RowSorterEvent.js
+javax/swing/event/RowSorterListener.js
+javax/swing/event/SwingPropertyChangeSupport.js
+javax/swing/event/TableColumnModelEvent.js
+javax/swing/event/TableColumnModelListener.js
+javax/swing/event/TableModelEvent.js
+javax/swing/event/TableModelListener.js
+javax/swing/event/UndoableEditEvent.js
+javax/swing/event/UndoableEditListener.js
+javax/swing/plaf/ActionMapUIResource.js
+javax/swing/plaf/BorderUIResource.js
+javax/swing/plaf/ColorUIResource.js
+javax/swing/plaf/ComponentInputMapUIResource.js
+javax/swing/plaf/ComponentUI.js
+javax/swing/plaf/DimensionUIResource.js
+javax/swing/plaf/FontUIResource.js
+javax/swing/plaf/InputMapUIResource.js
+javax/swing/plaf/InsetsUIResource.js
+javax/swing/plaf/UIResource.js
+javax/swing/plaf/basic/BasicBorders.js
+javax/swing/plaf/basic/BasicGraphicsUtils.js
+javax/swing/table/AbstractTableModel.js
+javax/swing/table/DefaultTableCellRenderer.js
+javax/swing/table/DefaultTableColumnModel.js
+javax/swing/table/DefaultTableModel.js
+javax/swing/table/JTableHeader.js
+javax/swing/table/TableCellRenderer.js
+javax/swing/table/TableColumn.js
+javax/swing/table/TableColumnModel.js
+javax/swing/table/TableModel.js
+javax/swing/table/TableRowSorter.js
+javax/swing/text/AbstractDocument.js
+javax/swing/text/AttributeSet.js
+javax/swing/text/BoxView.js
+javax/swing/text/Caret.js
+javax/swing/text/CompositeView.js
+javax/swing/text/DefaultCaret.js
+javax/swing/text/DefaultEditorKit.js
+javax/swing/text/Document.js
+javax/swing/text/EditorKit.js
+javax/swing/text/Element.js
+javax/swing/text/GapContent.js
+javax/swing/text/GapVector.js
+javax/swing/text/JTextComponent.js
+javax/swing/text/MutableAttributeSet.js
+javax/swing/text/PlainDocument.js
+javax/swing/text/PlainView.js
+javax/swing/text/Position.js
+javax/swing/text/Segment.js
+javax/swing/text/SegmentCache.js
+javax/swing/text/SimpleAttributeSet.js
+javax/swing/text/Style.js
+javax/swing/text/StyleConstants.js
+javax/swing/text/StyleContext.js
+javax/swing/text/TabExpander.js
+javax/swing/text/TextAction.js
+javax/swing/text/Utilities.js
+javax/swing/text/View.js
+javax/swing/text/WrappedPlainView.js
+javax/swing/tree/TreeNode.js
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