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# Serialized Form

Package info.bioinfweb.treegraph.document.clipboard

Class info.bioinfweb.treegraph.document.clipboard.TreeClipboardException extends java.lang.RuntimeException implements Serializable

Package info.bioinfweb.treegraph.document.format.operate

Class info.bioinfweb.treegraph.document.format.operate.InvalidTargetException extends java.lang.RuntimeException implements Serializable

Package info.bioinfweb.treegraph.document.io

Class info.bioinfweb.treegraph.document.io.ReadWriteFactoryException extends java.lang.RuntimeException implements Serializable

Package info.bioinfweb.treegraph.document.io.newick

Class info.bioinfweb.treegraph.document.io.newick.NewickException extends java.lang.RuntimeException implements Serializable

serialVersionUID: 1L

Serialized Fields

### position

    int position

Package info.bioinfweb.treegraph.document.io.nexus

Class info.bioinfweb.treegraph.document.io.nexus.NexusException extends java.lang.RuntimeException implements Serializable

Serialized Fields

### error

    NexusError error

Package info.bioinfweb.treegraph.document.nodedata

Class info.bioinfweb.treegraph.document.nodedata.NodeDataActionNotSupportedException extends java.lang.RuntimeException implements Serializable

Package info.bioinfweb.treegraph.document.undo.edit

Class info.bioinfweb.treegraph.document.undo.edit.InvalidFormatException extends java.lang.Exception implements Serializable

Package info.bioinfweb.treegraph.gui.actions

Class info.bioinfweb.treegraph.gui.actions.DocumentAction extends TreeGraphAction implements Serializable

Serialized Fields

### mainFrame

    MainFrame mainFrame

Class info.bioinfweb.treegraph.gui.actions.EditDialogAction extends DocumentAction implements Serializable

Serialized Fields

### dialog

    EditDialog dialog

Class info.bioinfweb.treegraph.gui.actions.TreeGraphAction extends javax.swing.AbstractAction implements Serializable

Package info.bioinfweb.treegraph.gui.actions.edit

Class info.bioinfweb.treegraph.gui.actions.edit.ApplyNameTableAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.AssignLabelIDsAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.ChangeLabelIDAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.CollapseNodeAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.CopyAllLabelsAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.CopyElementAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.CutAction extends CopyElementAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.DeleteElementAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.DeleteSubelementsAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.EditBranchLengthAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.EditBranchNodeDataAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.EditTextElementAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.LadderizeAction extends DocumentAction implements Serializable

Serialized Fields

### down

    boolean down

Class info.bioinfweb.treegraph.gui.actions.edit.LadderizeDownAction extends LadderizeAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.LadderizeUpAction extends LadderizeAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.MoveSubtreeAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.MoveSubtreeDownAction extends MoveSubtreeAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.MoveSubtreeUpAction extends MoveSubtreeAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.NewLegendAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.NewNodeAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.NewTextLabelAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.PasteAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.RedoAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.ReplaceInNodeDataAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.RerootAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.SearchTextAction extends DocumentAction implements Serializable

Serialized Fields

### dialog

    SearchTextDialog dialog

### selection

    TreeSelection selection

### wordPattern

    java.util.regex.Pattern wordPattern

Class info.bioinfweb.treegraph.gui.actions.edit.SeparateBranchAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.edit.UndoAction extends DocumentAction implements Serializable

Package info.bioinfweb.treegraph.gui.actions.file

Class info.bioinfweb.treegraph.gui.actions.file.AddSupportValuesAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.file.CloseAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.file.ExitAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.file.ExportToGraphicAction extends DocumentAction implements Serializable

Serialized Fields

### dialog

    ExportToGraphicDialog dialog

Class info.bioinfweb.treegraph.gui.actions.file.ExportToNewickNexusAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.file.NewDocumentAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.file.OpenAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.file.SaveAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.file.SaveAsAction extends DocumentAction implements Serializable

Package info.bioinfweb.treegraph.gui.actions.format

Class info.bioinfweb.treegraph.gui.actions.format.BranchWidthsFromNodeDataAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.format.ColorsFromNodeDataAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.format.EditElementFormatsAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.format.EditGlobalFormatsAction extends EditDialogAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.format.ReanchorLegendAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.format.ShowHideScaleBarAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.format.ShowRootedAction extends DocumentAction implements Serializable

Package info.bioinfweb.treegraph.gui.actions.help

Class info.bioinfweb.treegraph.gui.actions.help.AboutAction extends TreeGraphAction implements Serializable

Serialized Fields

### dialog

    AboutDialog dialog

Class info.bioinfweb.treegraph.gui.actions.help.HelpAboutMenuAction extends HelpTopicAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.help.HelpContentsAction extends HelpTopicAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.help.HelpMainPageAction extends HelpTopicAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.help.HelpTopicAction extends TreeGraphAction implements Serializable

Serialized Fields

### topic

    int topic

Package info.bioinfweb.treegraph.gui.actions.select

Class info.bioinfweb.treegraph.gui.actions.select.SelectAllAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectLabelsInSubtreeAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectLabelsWithIDAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectLeafsInDocumentAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectLeafsInSubtreeAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectLegendsAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectLegendsWithPosIndexAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectSubtreeAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectTypeInDocumentAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.select.SelectTypeInSubtreeAction extends DocumentAction implements Serializable

Package info.bioinfweb.treegraph.gui.actions.view

Class info.bioinfweb.treegraph.gui.actions.view.ChangePainterIDAction extends DocumentAction implements Serializable

Serialized Fields

### type

    PositionPaintType type

Class info.bioinfweb.treegraph.gui.actions.view.FitZoomToHeightAction extends SetZoomAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.view.FitZoomToWidthAction extends SetZoomAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.view.FitZoomToWidthHeightAction extends SetZoomAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.view.SetUserZoomAction extends SetZoomAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.view.SetZoomAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.view.SetZoomToOriginalAction extends SetZoomAction implements Serializable

Package info.bioinfweb.treegraph.gui.actions.window

Class info.bioinfweb.treegraph.gui.actions.window.CascadeAction extends TreeGraphAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.window.NextDocumentAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.window.PreviousDocumentAction extends DocumentAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.window.SelectFrameAction extends TreeGraphAction implements Serializable

Serialized Fields

### frame

    javax.swing.JInternalFrame frame

Class info.bioinfweb.treegraph.gui.actions.window.TileHorizontalAction extends TreeGraphAction implements Serializable

Class info.bioinfweb.treegraph.gui.actions.window.TileVerticalAction extends TreeGraphAction implements Serializable

Package info.bioinfweb.treegraph.gui.dialogs

Class info.bioinfweb.treegraph.gui.dialogs.AboutDialog extends javax.swing.JDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### contentsTabbedPane

    javax.swing.JTabbedPane contentsTabbedPane

### generalPanel

    javax.swing.JPanel generalPanel

### gplPanel

    javax.swing.JPanel gplPanel

### apachePanel

    javax.swing.JPanel apachePanel

### batikLabel

    javax.swing.JLabel batikLabel

### buttonPanel

    javax.swing.JPanel buttonPanel

### closeButton

    javax.swing.JButton closeButton

### apacheTextArea

    javax.swing.JEditorPane apacheTextArea

### apacheScrollPane

    javax.swing.JScrollPane apacheScrollPane

### gplScrollPane

    javax.swing.JScrollPane gplScrollPane

### gplEditorPane

    javax.swing.JEditorPane gplEditorPane

### infoLabel

    javax.swing.JLabel infoLabel

### licenceLabel

    javax.swing.JLabel licenceLabel

### copyrightLabel

    javax.swing.JLabel copyrightLabel

Class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### fileChooser

    javax.swing.JFileChooser fileChooser

### separatorPanel

    javax.swing.JPanel separatorPanel

### nodeDataPanel

    javax.swing.JPanel nodeDataPanel

### tabRadioButton

    javax.swing.JRadioButton tabRadioButton

### stringRadioButton

    javax.swing.JRadioButton stringRadioButton

### separatorTextField

    javax.swing.JTextField separatorTextField

### separatorGroup

    javax.swing.ButtonGroup separatorGroup

### adapterComboBox

    javax.swing.JComboBox adapterComboBox

### fileChooserPanel

    javax.swing.JPanel fileChooserPanel

### whitespaceCheckBox

    javax.swing.JCheckBox whitespaceCheckBox

### parseNumericValuesCheckBox

    javax.swing.JCheckBox parseNumericValuesCheckBox

### caseSensitiveCheckBox

    javax.swing.JCheckBox caseSensitiveCheckBox

### nodeDataLabel

    javax.swing.JLabel nodeDataLabel

Class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### inputPanel

    javax.swing.JPanel inputPanel

### nodeDataLabel

    javax.swing.JLabel nodeDataLabel

### nodeDataComboBox

    javax.swing.JComboBox nodeDataComboBox

### minWidthInput

    DistanceValueInput minWidthInput

### maxWidthInput

    DistanceValueInput maxWidthInput

### changeUndefinedCheckBox

    javax.swing.JCheckBox changeUndefinedCheckBox

Class info.bioinfweb.treegraph.gui.dialogs.EditDialog extends info.webinsel.wikihelp.client.OkCancelApplyWikiHelpDialog implements Serializable

Serialized Fields

### document

    Document document

### selection

    TreeSelection selection

Class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### formatsTabbedPane

    javax.swing.JTabbedPane formatsTabbedPane

### documentPanel

    javax.swing.JPanel documentPanel

### branchLabelPanel

    javax.swing.JPanel branchLabelPanel

### nodePanel

    javax.swing.JPanel nodePanel

### legendPanel

    javax.swing.JPanel legendPanel

### documentMarginInput

    MarginInput documentMarginInput

### labelBlockMarginInput

    MarginInput labelBlockMarginInput

### branchLengthScaleInput

    DistanceValueInput branchLengthScaleInput

### horizontalLabelSpacingInput

    DistanceValueInput horizontalLabelSpacingInput

### verticalLabelSpacingInput

    DistanceValueInput verticalLabelSpacingInput

### labelBlockDistanceInput

    DistanceValueInput labelBlockDistanceInput

### nodeMarginInput

    MarginInput nodeMarginInput

### leafMarginInput

    MarginInput leafMarginInput

### legendMarginInput

    MarginInput legendMarginInput

### legendSpacingInput

    DistanceValueInput legendSpacingInput

### colorChooser

    javax.swing.JColorChooser colorChooser

### showRootedCheckBox

    javax.swing.JCheckBox showRootedCheckBox

### showScaleBarCheckBox

    javax.swing.JCheckBox showScaleBarCheckBox

Class info.bioinfweb.treegraph.gui.dialogs.LabelIDComboBox extends javax.swing.JComboBox implements Serializable

Class info.bioinfweb.treegraph.gui.dialogs.RenameIDDialog extends info.webinsel.wikihelp.client.OkCancelApplyWikiHelpDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### document

    Document document

### oldNames

    java.lang.String[] oldNames

### jContentPane

    javax.swing.JPanel jContentPane

### labelIDPanel

    javax.swing.JPanel labelIDPanel

### newNameTextField

    javax.swing.JTextField newNameTextField

### renameButton

    javax.swing.JButton renameButton

### idList

    javax.swing.JList idList

Class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### replacePanel

    javax.swing.JPanel replacePanel

### nodeDataLabel

    javax.swing.JLabel nodeDataLabel

### adapterComboBox

    javax.swing.JComboBox adapterComboBox

### replaceLabel

    javax.swing.JLabel replaceLabel

### replaceTextField

    javax.swing.JTextField replaceTextField

### positionPanel

    javax.swing.JPanel positionPanel

### beginningRadioButton

    javax.swing.JRadioButton beginningRadioButton

### endRadioButton

    javax.swing.JRadioButton endRadioButton

### replaceRadioButton

    javax.swing.JRadioButton replaceRadioButton

### replaceTextLabel

    javax.swing.JLabel replaceTextLabel

### findTextField

    javax.swing.JTextField findTextField

### insertGroup

    javax.swing.ButtonGroup insertGroup

### caseSensitiveCheckBox

    javax.swing.JCheckBox caseSensitiveCheckBox

### wordsOnlyCheckBox

    javax.swing.JCheckBox wordsOnlyCheckBox

Class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### searchPanel

    javax.swing.JPanel searchPanel

### searchTextField

    javax.swing.JTextField searchTextField

### caseSensitiveCheckBox

    javax.swing.JCheckBox caseSensitiveCheckBox

### includeHiddenCheckBox

    javax.swing.JCheckBox includeHiddenCheckBox

### wordsOnlyCheckBox

    javax.swing.JCheckBox wordsOnlyCheckBox

Package info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth

Class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorPreviewPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

### minColor

    java.awt.Color minColor

### maxColor

    java.awt.Color maxColor

Class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### self

    ColorsFromNodeDataDialog self

  This field is necessary to acces this intance from the action listeners.

### jContentPane

    javax.swing.JPanel jContentPane

### inputPanel

    javax.swing.JPanel inputPanel

### sourceLabel

    javax.swing.JLabel sourceLabel

### sourceComboBox

    javax.swing.JComboBox sourceComboBox

### colorPanel

    javax.swing.JPanel colorPanel

### minColorButton

    javax.swing.JButton minColorButton

### colorPreviewPanel

    ColorPreviewPanel colorPreviewPanel

### maxColorButton

    javax.swing.JButton maxColorButton

### changeUndefinedCheckBox

    javax.swing.JCheckBox changeUndefinedCheckBox

Package info.bioinfweb.treegraph.gui.dialogs.datatable

Class info.bioinfweb.treegraph.gui.dialogs.datatable.AssignImportColumnsDialog extends info.webinsel.wikihelp.client.OkCancelApplyWikiHelpDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### importPanel

    javax.swing.JPanel importPanel

### typeLabel

    javax.swing.JLabel typeLabel

### idLabel

    javax.swing.JLabel idLabel

### inputs

    java.util.Vector<E> inputs

### firstLineLabel

    javax.swing.JLabel firstLineLabel

### uniqueNamesLabel

    javax.swing.JLabel uniqueNamesLabel

Class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### copyPanel

    javax.swing.JPanel copyPanel

### srcLabel

    javax.swing.JLabel srcLabel

### srcInput

    NodeDataInput srcInput

### destLabel

    javax.swing.JLabel destLabel

### labelIDLabel

    javax.swing.JLabel labelIDLabel

### destInput

    NewNodeDataInput destInput

### includeLeafsCheckBox

    javax.swing.JCheckBox includeLeafsCheckBox

Class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### self

    DataTableDialog self

### exportDialog

    ExportNodeDataDialog exportDialog

### fileChooser

    javax.swing.JFileChooser fileChooser

### assignImportDialog

    AssignImportColumnsDialog assignImportDialog

### copyDialog

    CopyNodeDataDialog copyDialog

### decimalInputDialog

    info.webinsel.util.swing.DecimalInputDialog decimalInputDialog

### nameTableDialog

    ApplyNameTableDialog nameTableDialog

### replaceDialog

    ReplaceInNodeDataDialog replaceDialog

### renameIDDialog

    RenameIDDialog renameIDDialog

### jContentPane

    javax.swing.JPanel jContentPane

### editButtonsPanel

    javax.swing.JPanel editButtonsPanel

### deleteButton

    javax.swing.JButton deleteButton

### copyButton

    javax.swing.JButton copyButton

### importButton

    javax.swing.JButton importButton

### exportButton

    javax.swing.JButton exportButton

### addToValuesButton

    javax.swing.JButton addToValuesButton

### multiplyValuesButton

    javax.swing.JButton multiplyValuesButton

### dataSplitPane

    javax.swing.JSplitPane dataSplitPane

### treeViewPanel

    TreeViewPanel treeViewPanel

### tableScrollPane

    javax.swing.JScrollPane tableScrollPane

### table

    javax.swing.JTable table

### treeScrollPane

    javax.swing.JScrollPane treeScrollPane

### applyNameTableButton

    javax.swing.JButton applyNameTableButton

### renameIDButton

    javax.swing.JButton renameIDButton

### logValuesButton

    javax.swing.JButton logValuesButton

### expValuesButton

    javax.swing.JButton expValuesButton

### raiseToButton

    javax.swing.JButton raiseToButton

### replaceButton

    javax.swing.JButton replaceButton

### setDecimalToAllButton

    javax.swing.JButton setDecimalToAllButton

### setTextToAllButton

    javax.swing.JButton setTextToAllButton

Class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### nodeDataPanel

    javax.swing.JPanel nodeDataPanel

### nodeDataInput

    NodeDataInput nodeDataInput

### tableScrollPane

    javax.swing.JScrollPane tableScrollPane

### table

    javax.swing.JTable table

### nodeDataButtonsPanel

    javax.swing.JPanel nodeDataButtonsPanel

### addButton

    javax.swing.JButton addButton

### replaceButton

    javax.swing.JButton replaceButton

### removeButton

    javax.swing.JButton removeButton

### clearButton

    javax.swing.JButton clearButton

### upButton

    javax.swing.JButton upButton

### downButton

    javax.swing.JButton downButton

### filePanel

    javax.swing.JPanel filePanel

### fileTextField

    javax.swing.JTextField fileTextField

### fileButton

    javax.swing.JButton fileButton

### fileChooser

    javax.swing.JFileChooser fileChooser

Class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataTableModel extends javax.swing.table.AbstractTableModel implements Serializable

Serialized Fields

### adapters

    java.util.Vector<E> adapters

Class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel extends javax.swing.table.AbstractTableModel implements Serializable

Serialized Fields

### adapters

    java.util.Vector<E> adapters

### nodes

    java.util.Vector<E> nodes

### document

    Document document

Package info.bioinfweb.treegraph.gui.dialogs.editelement

Class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog extends EditDialog implements Serializable

Serialized Fields

### textElement

    TextElement textElement

### valuesPanel

    javax.swing.JPanel valuesPanel

### textLabel

    javax.swing.JLabel textLabel

### valueTextField

    javax.swing.JFormattedTextField valueTextField

### stringFormatterFactory

    javax.swing.JFormattedTextField.AbstractFormatterFactory stringFormatterFactory

### decimalFormatterFactory

    javax.swing.JFormattedTextField.AbstractFormatterFactory decimalFormatterFactory

### decimalCheckBox

    javax.swing.JCheckBox decimalCheckBox

### previewPanel

    javax.swing.JPanel previewPanel

### previewLabel

    javax.swing.JLabel previewLabel

Class info.bioinfweb.treegraph.gui.dialogs.editelement.ChangeIDDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### idPanel

    javax.swing.JPanel idPanel

### idComboBox

    javax.swing.JComboBox idComboBox

Class info.bioinfweb.treegraph.gui.dialogs.editelement.EditBranchLengthDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### inputPanel

    javax.swing.JPanel inputPanel

### decimalInput

    info.webinsel.util.swing.DecimalInput decimalInput

### hasLengthCheckBox

    javax.swing.JCheckBox hasLengthCheckBox

Class info.bioinfweb.treegraph.gui.dialogs.editelement.EditTextElementDialog extends AbstractTextElementDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

Class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog extends AbstractTextElementDialog implements Serializable

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### idPanel

    javax.swing.JPanel idPanel

### idComboBox

    javax.swing.JComboBox idComboBox

Package info.bioinfweb.treegraph.gui.dialogs.elementformats

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.BranchPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### minLengthInput

    DistanceValueInput minLengthInput

### spaceAboveInput

    DistanceValueInput spaceAboveInput

### spaceBelowInput

    DistanceValueInput spaceBelowInput

### spacer

    javax.swing.JLabel spacer

### constantWidthCheckBox

    javax.swing.JCheckBox constantWidthCheckBox

### constantWidthMonitor

    info.webinsel.util.ChangeMonitor constantWidthMonitor

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### formatPanel

    javax.swing.JPanel formatPanel

### examplePanel

    javax.swing.JPanel examplePanel

### formatLabel

    javax.swing.JLabel formatLabel

### formatTextField

    javax.swing.JTextField formatTextField

### predifinedTable

    javax.swing.JTable predifinedTable

### localeComboBox

    javax.swing.JComboBox localeComboBox

### localeLabel

    javax.swing.JLabel localeLabel

### changeMonitor

    info.webinsel.util.swing.SwingChangeMonitor changeMonitor

### tableScrollPane

    javax.swing.JScrollPane tableScrollPane

### positiveExampleLabel

    javax.swing.JLabel positiveExampleLabel

### negativeExampleLabel

    javax.swing.JLabel negativeExampleLabel

### hintLabel

    javax.swing.JLabel hintLabel

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatsTableModel extends javax.swing.table.AbstractTableModel implements Serializable

Serialized Fields

### entries

    java.util.Vector<E> entries

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatsDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### formatsTabbedPane

    javax.swing.JTabbedPane formatsTabbedPane

### tabs

    java.util.Vector<E> tabs

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontColorPanel extends javax.swing.JColorChooser implements Serializable

serialVersionUID: 1L

Serialized Fields

### colorMonitor

    info.webinsel.util.swing.SwingChangeMonitor colorMonitor

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### fontFamilyPanel

    javax.swing.JPanel fontFamilyPanel

### fontStylePanel

    javax.swing.JPanel fontStylePanel

### fontHeightPanel

    javax.swing.JPanel fontHeightPanel

### previewPanel

    javax.swing.JPanel previewPanel

### boldCheckBox

    javax.swing.JCheckBox boldCheckBox

### italicCheckBox

    javax.swing.JCheckBox italicCheckBox

### underlineCheckBox

    javax.swing.JCheckBox underlineCheckBox

### fontHeightInput

    DistanceValueInput fontHeightInput

### previewTextField

    javax.swing.JTextField previewTextField

### fontFamilyList

    javax.swing.JList fontFamilyList

### fontFamilyTextField

    javax.swing.JTextField fontFamilyTextField

### fontFamilyMonitor

    info.webinsel.util.swing.SwingChangeMonitor fontFamilyMonitor

### boldMonitor

    info.webinsel.util.ChangeMonitor boldMonitor

### italicMonitor

    info.webinsel.util.ChangeMonitor italicMonitor

### underlineMonitor

    info.webinsel.util.ChangeMonitor underlineMonitor

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### decimalFormat

    java.text.DecimalFormat decimalFormat

### aboveRadioButton

    javax.swing.JRadioButton aboveRadioButton

### belowRadioButton

    javax.swing.JRadioButton belowRadioButton

### lineNoLabel

    javax.swing.JLabel lineNoLabel

### lineNoTextField

    javax.swing.JFormattedTextField lineNoTextField

### linePosLabel

    javax.swing.JLabel linePosLabel

### linePosTextField

    javax.swing.JFormattedTextField linePosTextField

### aboveBelowGroup

    javax.swing.ButtonGroup aboveBelowGroup

### aboveMonitor

    info.webinsel.util.swing.SwingChangeMonitor aboveMonitor

### lineNoMonitor

    info.webinsel.util.swing.SwingChangeMonitor lineNoMonitor

### linePosMonitor

    info.webinsel.util.swing.SwingChangeMonitor linePosMonitor

### aboveBelowPanel

    javax.swing.JPanel aboveBelowPanel

### labelNumbersPanel

    javax.swing.JPanel labelNumbersPanel

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### decimalFormat

    java.text.DecimalFormat decimalFormat

### legendStylePanel

    javax.swing.JPanel legendStylePanel

### bracketRadioButton

    javax.swing.JRadioButton bracketRadioButton

### braceRadioButton

    javax.swing.JRadioButton braceRadioButton

### legendOrientationPanel

    javax.swing.JPanel legendOrientationPanel

### horizontalRadioButton

    javax.swing.JRadioButton horizontalRadioButton

### upRadioButton

    javax.swing.JRadioButton upRadioButton

### downRadioButton

    javax.swing.JRadioButton downRadioButton

### styleGroup

    javax.swing.ButtonGroup styleGroup

### orientationGroup

    javax.swing.ButtonGroup orientationGroup

### styleMonitor

    info.webinsel.util.swing.SwingChangeMonitor styleMonitor

### orientationMonitor

    info.webinsel.util.swing.SwingChangeMonitor orientationMonitor

### legendNumbersPanel

    javax.swing.JPanel legendNumbersPanel

### legendPositionTextField

    javax.swing.JFormattedTextField legendPositionTextField

### legendPositionMonitor

    info.webinsel.util.swing.SwingChangeMonitor legendPositionMonitor

### minTreeDistanceInput

    DistanceValueInput minTreeDistanceInput

### legendOrderLabel

    javax.swing.JLabel legendOrderLabel

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.LinePanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### colorChooser

    javax.swing.JColorChooser colorChooser

### colorMonitor

    info.webinsel.util.swing.SwingChangeMonitor colorMonitor

### lineColorPanel

    javax.swing.JPanel lineColorPanel

### otherLineFormatsPanel

    javax.swing.JPanel otherLineFormatsPanel

### lineWidthInput

    DistanceValueInput lineWidthInput

### edgeRadiusInput

    DistanceValueInput edgeRadiusInput

Class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### owner

    ElementFormatsDialog owner

### alignmentPanel

    javax.swing.JPanel alignmentPanel

### leftRadioButton

    javax.swing.JRadioButton leftRadioButton

### rightRadioButton

    javax.swing.JRadioButton rightRadioButton

### treeWidthRadioButton

    javax.swing.JRadioButton treeWidthRadioButton

### alignGroup

    javax.swing.ButtonGroup alignGroup

### alignMonitor

    info.webinsel.util.swing.SwingChangeMonitor alignMonitor

### increaseMonitor

    info.webinsel.util.swing.SwingChangeMonitor increaseMonitor

### startMonitor

    info.webinsel.util.swing.SwingChangeMonitor startMonitor

### IntervalPanel

    javax.swing.JPanel IntervalPanel

### treeDistanceInput

    DistanceValueInput treeDistanceInput

### widthInput

    ScaleValueInput widthInput

### heightInput

    DistanceValueInput heightInput

### smallIntervalInput

    info.webinsel.util.swing.DecimalInput smallIntervalInput

### longIntervalInput

    info.webinsel.util.swing.DecimalInput longIntervalInput

### dimensionsPanel

    javax.swing.JPanel dimensionsPanel

### startPanel

    javax.swing.JPanel startPanel

### zeroLeftRadioButton

    javax.swing.JRadioButton zeroLeftRadioButton

### zeroRightRadioButton

    javax.swing.JRadioButton zeroRightRadioButton

### zeroPosGroup

    javax.swing.ButtonGroup zeroPosGroup

### labelingPanel

    javax.swing.JPanel labelingPanel

### directionPanel

    javax.swing.JPanel directionPanel

### incRadioButton

    javax.swing.JRadioButton incRadioButton

### decRadioButton

    javax.swing.JRadioButton decRadioButton

### increaseGroup

    javax.swing.ButtonGroup increaseGroup

Package info.bioinfweb.treegraph.gui.dialogs.exporttographic

Class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog extends info.webinsel.wikihelp.client.OkCancelApplyWikiHelpDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### dimensionsPanel

    javax.swing.JPanel dimensionsPanel

### resolutionInput

    ResolutionInput resolutionInput

### widthLabel

    javax.swing.JLabel widthLabel

### heightLabel

    javax.swing.JLabel heightLabel

### widthTextField

    javax.swing.JTextField widthTextField

### heightTextField

    javax.swing.JTextField heightTextField

### unitComboBox

    javax.swing.JComboBox unitComboBox

### spacerLabel

    javax.swing.JLabel spacerLabel

### fileChooser

    javax.swing.JFileChooser fileChooser

### fileChooserPanel

    javax.swing.JPanel fileChooserPanel

### outerPreferencesPanel

    javax.swing.JPanel outerPreferencesPanel

### lastSelection

    int lastSelection

  Used to convert the width and height values if their unit is changed by the user.

### decimalFormat

    java.text.DecimalFormat decimalFormat

### aspectRatio

    float aspectRatio

### preferencesPanel

    PreferencesPanel preferencesPanel

Class info.bioinfweb.treegraph.gui.dialogs.exporttographic.JPEGPrefPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### qualityLabel

    javax.swing.JLabel qualityLabel

### qualitySlider

    javax.swing.JSlider qualitySlider

### highestComprLabel

    javax.swing.JLabel highestComprLabel

### bestQualityLabel

    javax.swing.JLabel bestQualityLabel

Class info.bioinfweb.treegraph.gui.dialogs.exporttographic.TIFFPrefPanel extends TransparenrtBgPrefPanel implements Serializable

Serialized Fields

### compressionMethodLabel

    javax.swing.JLabel compressionMethodLabel

### compressionMethodComboBox

    javax.swing.JComboBox compressionMethodComboBox

Class info.bioinfweb.treegraph.gui.dialogs.exporttographic.TransparenrtBgPrefPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### transparentCheckBox

    javax.swing.JCheckBox transparentCheckBox

Package info.bioinfweb.treegraph.gui.dialogs.io

Class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### fileChooserPanel

    javax.swing.JPanel fileChooserPanel

### fileChooser

    javax.swing.JFileChooser fileChooser

### idNamePanel

    javax.swing.JPanel idNamePanel

### idNameTextField

    javax.swing.JTextField idNameTextField

### terminalDataInput

    NodeDataInput terminalDataInput

### prefixLabel

    javax.swing.JLabel prefixLabel

### targetTypePanel

    javax.swing.JPanel targetTypePanel

### labelRadioButton

    javax.swing.JRadioButton labelRadioButton

### branchDataRadioButton

    javax.swing.JRadioButton branchDataRadioButton

### nodeDataRadioButton

    javax.swing.JRadioButton nodeDataRadioButton

### terminalsPanel

    javax.swing.JPanel terminalsPanel

### terminalsLabel

    javax.swing.JLabel terminalsLabel

### buttonGroup

    javax.swing.ButtonGroup buttonGroup

### translateInternalsCheckBox

    javax.swing.JCheckBox translateInternalsCheckBox

### nexusFilter

    NexusFilter nexusFilter

Class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### fileChooser

    javax.swing.JFileChooser fileChooser

### nexusFilter

    NexusFilter nexusFilter

### nodeDataPanel

    javax.swing.JPanel nodeDataPanel

### internalInput

    NodeDataInput internalInput

### leafInput

    NodeDataInput leafInput

### internalLabel

    javax.swing.JLabel internalLabel

### leafLabel

    javax.swing.JLabel leafLabel

Class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog extends EditDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### fileChooserPanel

    javax.swing.JPanel fileChooserPanel

### fileChooser

    javax.swing.JFileChooser fileChooser

### internalNodesPanel

    javax.swing.JPanel internalNodesPanel

### nodeDataInput

    NewNodeDataInput nodeDataInput

### translateInternalNodesCheckBox

    javax.swing.JCheckBox translateInternalNodesCheckBox

### xtgFilter

    XTGFilter xtgFilter

### nexusFilter

    NexusFilter nexusFilter

Class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog extends info.webinsel.wikihelp.client.OkCancelApplyWikiHelpDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

### trees

    java.lang.String[] trees

### translTable

    TranslTable translTable

### translateInternals

    boolean translateInternals

### currentTree

    int currentTree

### jContentPane

    javax.swing.JPanel jContentPane

### selectionPanel

    javax.swing.JPanel selectionPanel

### treeComboBox

    javax.swing.JComboBox treeComboBox

### previewPanel

    javax.swing.JPanel previewPanel

### previewScrollPane

    javax.swing.JScrollPane previewScrollPane

### treeViewPanel

    TreeViewPanel treeViewPanel

Package info.bioinfweb.treegraph.gui.dialogs.nodedatainput

Class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataComboBoxModel extends javax.swing.AbstractListModel implements Serializable

Serialized Fields

### adapters

    java.util.Vector<E> adapters

### selected

    NodeDataAdapter selected

Package info.bioinfweb.treegraph.gui.mainframe

Class info.bioinfweb.treegraph.gui.mainframe.MainFrame extends javax.swing.JFrame implements Serializable

serialVersionUID: 1L

Serialized Fields

### actionManagement

    ActionManagement actionManagement

### windowListener

    java.awt.event.WindowListener windowListener

### mainMenu

    javax.swing.JMenuBar mainMenu

### fileMenu

    javax.swing.JMenu fileMenu

### editMenu

    javax.swing.JMenu editMenu

### viewMenu

    javax.swing.JMenu viewMenu

### helpMenu

    javax.swing.JMenu helpMenu

### jContentPane

    javax.swing.JPanel jContentPane

### desktopPane

    info.webinsel.util.swing.ExtendedDesktopPane desktopPane

### windowMenu

    javax.swing.JMenu windowMenu

### formatMenu

    javax.swing.JMenu formatMenu

### selectMenu

    javax.swing.JMenu selectMenu

### toolBarPanel

    javax.swing.JPanel toolBarPanel

Class info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

### mainFrame

    MainFrame mainFrame

### orientation

    ToolBarPanel.ToolBarOrientation orientation

### upperToolBar

    javax.swing.JToolBar upperToolBar

### lowerToolBar

    javax.swing.JToolBar lowerToolBar

### editFormatsGBC

    java.awt.GridBagConstraints editFormatsGBC

### fileViewWindowGBC

    java.awt.GridBagConstraints fileViewWindowGBC

Package info.bioinfweb.treegraph.gui.mainframe.tools

Class info.bioinfweb.treegraph.gui.mainframe.tools.DistanceValuePopup extends info.webinsel.util.swing.ToolBarPopup implements Serializable

serialVersionUID: 1L

Serialized Fields

### jContentPane

    javax.swing.JPanel jContentPane

### input

    DistanceValueInput input

### slider

    javax.swing.JSlider slider

Package info.bioinfweb.treegraph.gui.treeframe

Class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame extends javax.swing.JInternalFrame implements Serializable

Serialized Fields

### document

    Document document

### internalFrameListener

    javax.swing.event.InternalFrameListener internalFrameListener

### jContentPane

    javax.swing.JPanel jContentPane

### scrollPane

    javax.swing.JScrollPane scrollPane

### treeViewPanel

    TreeViewPanel treeViewPanel

### treeViewInputListener

    TreeEditlInputListener treeViewInputListener

Class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

### selection

    TreeSelection selection

### document

    Document document

### zoom

    float zoom

### painterType

    PositionPaintType painterType

### treeViewListeners

    java.util.Vector<E> treeViewListeners

Package info.bioinfweb.treegraph.gui.treeframe.ruler

Class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler extends javax.swing.JPanel implements Serializable

Serialized Fields

### orientation

    RulerOrientation orientation

### unit

    RulerUnit unit

### treeViewPanel

    TreeViewPanel treeViewPanel

Class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRulerUnitField extends javax.swing.JComponent implements Serializable

Serialized Fields

### horizontalRuler

    TreeViewRuler horizontalRuler

### verticalRuler

    TreeViewRuler verticalRuler

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