A B C D E F G H I J K L M N O P Q R S T U V W X Z

G

g - Variable in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPainter

generalPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

generate(CommandLineReader) - Static method in class info.bioinfweb.treegraph.cmd.ImageGenerator

generatePattern(String, boolean, boolean) - Method in class info.bioinfweb.treegraph.document.undo.edit.ReplaceInNodeDataEdit

get(Object) - Method in class info.bioinfweb.treegraph.document.HiddenDataMap

get(int) - Method in class info.bioinfweb.treegraph.document.io.nexus.TranslTable

get(String) - Method in class info.bioinfweb.treegraph.document.io.nexus.TranslTable

get(int) - Method in class info.bioinfweb.treegraph.document.LabelLine

get(boolean, int, int) - Method in class info.bioinfweb.treegraph.document.Labels

Returns the label at the specified position

get(String) - Method in class info.bioinfweb.treegraph.document.Labels

get(int) - Method in class info.bioinfweb.treegraph.document.Legends

get(int) - Method in class info.bioinfweb.treegraph.document.undo.edit.AddSupportValuesEdit.LeafList

get(String, NodeDataAdapter) - Method in class info.bioinfweb.treegraph.document.undo.edit.AddSupportValuesEdit.LeafList

get(double, NodeDataAdapter) - Method in class info.bioinfweb.treegraph.document.undo.edit.AddSupportValuesEdit.LeafList

get(String) - Method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterHints

get(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataTableModel

get(int) - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getAboveBelowGroup() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

getAboveBelowPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

This method initializes labelAboveBelowPanel

getAboveRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

This method initializes aboveRadioButton

getActionManagement() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

getActionManagement() - Method in class info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel

getActiveTreeFrame() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

Returns the currently avctive Frame where a tree is displayed.

getAdapter(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getAdapterComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes adapterComboBox

getAdapterComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes nodeDataComboBox

getAddButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes addButton

getAddToValuesButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes addToValuesButton

getAfferentBranch() - Method in class info.bioinfweb.treegraph.document.Node

getAlignGroup() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

getAlignment() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

getAlignmentPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes anchorPanel

getAllFilters() - Method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterFactory

getAnchor(int) - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getAnchorName(int) - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getApachePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes apachePanel

getApacheScrollPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes apacheScrollPane

getApacheTextArea() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes apacheTextArea

getApplyNameTableButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes applyNameTableButton

getArrowDimensions() - Method in class info.bioinfweb.treegraph.document.format.CharShiftFormats

getAttributeMap() - Method in class info.bioinfweb.treegraph.document.Node

The attribute map can store data that is specific to special tasks like ladderizing or tree merging.

getBackgroundColor() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getBeginningRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes beginningRadioButton

getBelowRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

This method initializes belowRadioButton

getBoldCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes boldCheckBox

getBoolean(String, boolean) - Method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterHints

getBottom() - Method in class info.bioinfweb.treegraph.document.format.Margin

getBottom() - Method in class info.bioinfweb.treegraph.gui.dialogs.MarginInput

getBottomInMillimeters() - Method in class info.bioinfweb.treegraph.document.PositionData

getBottomInPixels(float) - Method in class info.bioinfweb.treegraph.document.PositionData

getBraceRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes braceRadioButton

getBracketPos() - Method in class info.bioinfweb.treegraph.document.LegendPositionData

getBracketRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes bracketRadioButton

getBranchDataRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes branchDataRadioButton

getBranches(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getBranchLabelPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

getBranchLengthScale() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getBranchLengthScale() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleValueInput

getButtonGroup() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

getButtonPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes buttonPanel

getCaseSensitiveCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes caseSensitiveCheckBox

getCaseSensitiveCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes caseSensitiveCheckBox

getCaseSensitiveCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog

This method initializes caseSensitiveCheckBox

getChangeUndefinedCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog

This method initializes changeUndefinedCheckBox

getChangeUndefinedCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes hCheckBox

getCharShiftLabels(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getChildIndex(Node) - Method in class info.bioinfweb.treegraph.document.Node

getChildren() - Method in class info.bioinfweb.treegraph.document.Node

getClearButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes clearButton

getClipboard() - Method in class info.bioinfweb.treegraph.Main

getCloseButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes closeButton

getCmdProcessor() - Method in class info.bioinfweb.treegraph.Main

getColorChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LinePanel

This method initializes lineColorChooser

getColorChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

getColorPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes colorPanel

getColorPreviewPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes colorPreviewPanel

getColumnClass(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataTableModel

getColumnClass(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getColumnClass(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatsTableModel

getColumnCount() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataTableModel

getColumnCount() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getColumnCount() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatsTableModel

getColumnName(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataTableModel

getColumnName(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getColumnName(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatsTableModel

getComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.DecimalUnitInput

getComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NewNodeDataInput

getComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataInput

getCompressionMethodComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.TIFFPrefPanel

This method initializes compressionMethodComboBox

getConstantWidthCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.BranchPanel

This method initializes constantWidthCheckBox

getContentsTabbedPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes contentsTabbedPane

getContentType() - Method in class info.bioinfweb.treegraph.document.clipboard.TreeClipboard

getCopyButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes copyButton

getCopyPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

This method initializes copyPanel

getData(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.HiddenDataAdapter

getData(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.LabelAdapter

getData(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.NodeNameAdapter

getData(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.TextElementDataAdapter

getData() - Method in class info.bioinfweb.treegraph.document.TextElement

getDataElement(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.BranchLengthAdapter

getDataElement(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.HiddenBranchDataAdapter

getDataElement(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.HiddenNodeDataAdapter

getDataElement(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.LabelAdapter

getDataElement(Node) - Method in interface info.bioinfweb.treegraph.document.nodedata.NodeDataAdapter

This method should return the tree element which contains the data which is edited with the implementation of the respective adapter.

getDataElement(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.NodeNameAdapter

getDataElement(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.UniqueNameAdapter

getDataMap(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.HiddenBranchDataAdapter

getDataMap(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.HiddenDataAdapter

getDataMap(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.HiddenNodeDataAdapter

getDataSplitPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes dataSplitPane

getDecimal(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.BranchLengthAdapter

getDecimal(Node) - Method in interface info.bioinfweb.treegraph.document.nodedata.NodeDataAdapter

getDecimal(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.TextElementDataAdapter

getDecimal(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.UniqueNameAdapter

getDecimal() - Method in class info.bioinfweb.treegraph.document.TextElementData

Return the stored decimal value or Double.NaN is no decimal is stored.

getDecimalCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

This method initializes decimalCheckBox

getDecimalFormat() - Method in class info.bioinfweb.treegraph.document.format.TextFormats

getDecimalFormat(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.HiddenDataAdapter

getDecimalFormat(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.LabelAdapter

getDecimalFormat(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.NodeNameAdapter

getDecimalFormat(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.TextElementDataAdapter

getDecimalFormat() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

getDecimalFormatterFactory() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

getDecimalInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditBranchLengthDialog

getDecRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes decRadioButton

getDefaultExtension() - Method in interface info.bioinfweb.treegraph.document.io.DocumentFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.document.io.SupportedFormatsFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.document.io.tgf.TGFFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.document.io.xtg.XTGFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.graphics.export.emf.EMFFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.graphics.export.jpeg.JPEGFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.graphics.export.pdf.PDFFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.graphics.export.png.PNGFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.graphics.export.svg.SVGFilter

getDefaultExtension() - Method in class info.bioinfweb.treegraph.graphics.export.tiff.TIFFFilter

getDefaultType() - Static method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory

getDeleteButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes deleteButton

getDescent() - Method in class info.bioinfweb.treegraph.document.format.TextFormats

getDescent() - Method in class info.bioinfweb.treegraph.document.LabelLine

Return the maximal descent of all labels in this line.

getDescription() - Method in interface info.bioinfweb.treegraph.document.io.DocumentFilter

getDescription() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickFilter

getDescription() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusFilter

getDescription() - Method in class info.bioinfweb.treegraph.document.io.SupportedFormatsFilter

getDescription() - Method in class info.bioinfweb.treegraph.document.io.tgf.TGFFilter

getDescription() - Method in class info.bioinfweb.treegraph.document.io.xtg.XTGFilter

getDescription() - Method in class info.bioinfweb.treegraph.graphics.export.emf.EMFFilter

getDescription() - Method in class info.bioinfweb.treegraph.graphics.export.jpeg.JPEGFilter

getDescription() - Method in class info.bioinfweb.treegraph.graphics.export.pdf.PDFFilter

getDescription() - Method in class info.bioinfweb.treegraph.graphics.export.png.PNGFilter

getDescription() - Method in class info.bioinfweb.treegraph.graphics.export.svg.SVGFilter

getDescription() - Method in class info.bioinfweb.treegraph.graphics.export.tiff.TIFFFilter

getDesktopPane() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes desktopPane

getDestAdapter() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

getDestInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

getDialog() - Method in class info.bioinfweb.treegraph.gui.actions.EditDialogAction

getDialog() - Method in class info.bioinfweb.treegraph.gui.actions.help.AboutAction

getDifAbove() - Method in class info.bioinfweb.treegraph.document.NodePositionData

getDifBelow() - Method in class info.bioinfweb.treegraph.document.NodePositionData

getDimensionsPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes widthPanel

getDimensionsPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes pngPanel

getDirectionPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes directionPanel

getDocument() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getDocument() - Method in class info.bioinfweb.treegraph.gui.dialogs.EditDialog

getDocument() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatsDialog

getDocument() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

getDocument() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

Returns the currently associated document.

getDocumentMargin() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getDocumentPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

getDocumentRect() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

getDownButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes downButton

getDownRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes downRadioButton

getEdgeRadius() - Method in interface info.bioinfweb.treegraph.document.format.EdgeRadiusFormats

getEdgeRadius() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getEdgeRadius() - Method in class info.bioinfweb.treegraph.document.format.NodeFormats

The line wich is dasplayed for an node can be rounded at ist top and bottom end The inner radius (without the line width) of the quater of a circle at the ends of this line is specified by the edge radius.

getEditButtonsPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes editButtonsPanel

getEditMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes editMenu

getElementAt(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataComboBoxModel

getElementByPosition(MouseEvent) - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeEditlInputListener

getElements(Node, T[], boolean, boolean, boolean, boolean, boolean) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getElementsOfType(Node, PaintableElement, T[], boolean) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getEndRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes endRadioButton

getError() - Method in exception info.bioinfweb.treegraph.document.io.nexus.NexusException

getErrorReporter() - Method in class info.bioinfweb.treegraph.Main

getExamplePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

This method initializes examplePanel

getExportButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes exportButton

getExpValuesButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes expValuesButton

getFileButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes fileButton

getFileChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes fileChooser

getFileChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

getFileChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

getFileChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes fileChooser.

getFileChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes fileChooser

getFileChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog

This method initializes fileChooser

getFileChooser() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog

This method initializes fileChooser

getFileChooserPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes fileChooserPanel

getFileChooserPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes fileChooserPanel

getFileChooserPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes fileChooserPanel

getFileChooserPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog

This method initializes fileChooserPanel

getFileMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes fileMenu

getFilePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes filePanel

getFileTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes fileTextField

getFilter() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickFactory

getFilter() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusFactory

getFilter(ReadWriteFormat) - Method in class info.bioinfweb.treegraph.document.io.ReadWriteFactory

getFilter() - Method in interface info.bioinfweb.treegraph.document.io.SingleReadWriteFactory

getFilter() - Method in class info.bioinfweb.treegraph.document.io.tgf.TGFFactory

getFilter() - Method in class info.bioinfweb.treegraph.document.io.xtg.XTGFactory

getFilter() - Method in interface info.bioinfweb.treegraph.graphics.export.GraphicsFactory

getFilter(GraphicFormat) - Method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterFactory

getFilter() - Method in class info.bioinfweb.treegraph.graphics.export.SingletonGraphicsFactory

getFindTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes findTextField

getFirstBranch() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstCharShiftLabel() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstEdgeRadiusElement() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstLabel(Node, String) - Static method in class info.bioinfweb.treegraph.document.IDManager

getFirstLabel() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstLegend() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstLineElement() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstNode() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstTextElement() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFirstTextLabel() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getFloat(String, float) - Method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterHints

getFont(float) - Method in class info.bioinfweb.treegraph.document.format.TextFormats

getFontFamilyList() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes fontFamilyList

getFontFamilyPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes fontFamilyPanel

getFontFamilyTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes fontFamilyTextField

getFontHeightInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

getFontHeightPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes fontHeightPanel

getFontName() - Method in class info.bioinfweb.treegraph.document.format.TextFormats

getFontStylePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes fontStylePanel

getFormat() - Method in class info.bioinfweb.treegraph.graphics.export.emf.EMFFilter

getFormat() - Method in class info.bioinfweb.treegraph.graphics.export.GraphicFilter

getFormat() - Method in class info.bioinfweb.treegraph.graphics.export.jpeg.JPEGFilter

getFormat() - Method in class info.bioinfweb.treegraph.graphics.export.pdf.PDFFilter

getFormat() - Method in class info.bioinfweb.treegraph.graphics.export.png.PNGFilter

getFormat() - Method in class info.bioinfweb.treegraph.graphics.export.svg.SVGFilter

getFormat() - Method in class info.bioinfweb.treegraph.graphics.export.tiff.TIFFFilter

getFormat() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

Returns the graphic format the user selected.

getFormatMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes formatMenu

getFormatPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

This method initializes formatPanel

getFormats() - Method in class info.bioinfweb.treegraph.document.Branch

getFormats() - Method in class info.bioinfweb.treegraph.document.CharShiftLabel

getFormats() - Method in interface info.bioinfweb.treegraph.document.EdgeRadiusElement

getFormats() - Method in class info.bioinfweb.treegraph.document.Legend

getFormats() - Method in interface info.bioinfweb.treegraph.document.LineElement

getFormats() - Method in class info.bioinfweb.treegraph.document.Node

getFormats() - Method in interface info.bioinfweb.treegraph.document.PaintableElement

getFormats() - Method in class info.bioinfweb.treegraph.document.ScaleBar

getFormats() - Method in class info.bioinfweb.treegraph.document.TextElement

getFormats() - Method in class info.bioinfweb.treegraph.document.TextLabel

getFormats() - Method in class info.bioinfweb.treegraph.document.Tree

getFormatsTabbedPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatsDialog

This method initializes formatsTabbedPane

getFormatsTabbedPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

This method initializes formatsTabbedPane

getFormatTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

This method initializes formatTextField

getFrame() - Method in class info.bioinfweb.treegraph.document.Document

getGeneralPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes generalPanel

getGplEditorPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes gplTextArea

getGPLPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes gplPanel

getGplScrollPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes gplScrollPane

getHasLengthCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditBranchLengthDialog

This method initializes hasLengthCheckBox

getHeight() - Method in class info.bioinfweb.treegraph.document.format.DistanceDimension

getHeight() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

Defines the height of the long dashes (the height of the text below is not included.)

getHeight(PositionPaintType) - Method in class info.bioinfweb.treegraph.document.LabelLine

getHeight() - Method in class info.bioinfweb.treegraph.document.LegendPositionData

getHeight() - Method in class info.bioinfweb.treegraph.document.PositionData

getHeightAbove() - Method in class info.bioinfweb.treegraph.document.NodePositionData

getHeightBelow() - Method in class info.bioinfweb.treegraph.document.NodePositionData

getHeightTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes heightTextField

getHelpMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes helpMenu

getHelpTopic() - Method in class info.bioinfweb.treegraph.document.undo.SaveLegendsEdit

getHiddenBranchDataIDs(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

Searches for all the IDs of hidden data that is assigned to a branch present in the subtree under root.

getHiddenBranchDataIDVector(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

getHiddenDataMap() - Method in class info.bioinfweb.treegraph.document.Branch

getHiddenDataMap() - Method in interface info.bioinfweb.treegraph.document.HiddenDataElement

getHiddenDataMap() - Method in class info.bioinfweb.treegraph.document.Node

getHiddenNodeDataIDs(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

Searches for all the IDs of hidden data that is assigned to a node present in the subtree under root.

getHiddenNodeDataIDVector(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

getHighestChild() - Method in class info.bioinfweb.treegraph.document.Node

Returns the upper most subnode of this node (e.g. needed for legend positioning).

getHints() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

Returns the graphic writer hints that have been difined by the user.

getHoldingBranch() - Method in class info.bioinfweb.treegraph.document.Labels

getHorizontalLabelSpacing() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getHorizontalRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes horizontalRadioButton

getID() - Method in class info.bioinfweb.treegraph.document.Label

getID() - Method in class info.bioinfweb.treegraph.document.nodedata.IDElementAdapter

getIDComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.ChangeIDDialog

This method initializes idComboBox

getIDComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog

This method initializes idComboBox

getIdList() - Method in class info.bioinfweb.treegraph.gui.dialogs.RenameIDDialog

This method initializes idList

getIdNamePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes idNamePanel

getIDNameTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes idNameTextField

getIDPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.ChangeIDDialog

This method initializes idPanel

getIDPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog

This method initializes idPanel

getIDs(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

Searches for all IDs (hidden data and label IDs) present in the subtree under root.

getIDVector(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

Searches for all IDs present in the subtree under root.

getImageHeight() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

Return the height entered by the user in pixels or millimeters.

getImageWidth() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

Returns the width entered by the user in pixels or millimeters.

getImportButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes importButton

getImportPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.AssignImportColumnsDialog

This method initializes importPanel

getIncludeHiddenCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog

This method initializes includeHiddenCheckBox

getIncludeLeafs() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

getIncludeLeafsCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

This method initializes includeLeafsCheckBox

getIncRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes incRadioButton

getIncreaseGroup() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

getInitialFile() - Method in class info.bioinfweb.treegraph.cmd.CmdProcessor

getInMillimeters() - Method in class info.bioinfweb.treegraph.document.format.DistanceValue

getInMillimeters(float) - Method in class info.bioinfweb.treegraph.document.format.ScaleValue

getInPixels(float) - Method in class info.bioinfweb.treegraph.document.format.DistanceValue

getInPixels(float, float) - Method in class info.bioinfweb.treegraph.document.format.ScaleValue

getInPoints() - Method in class info.bioinfweb.treegraph.document.format.DistanceValue

Returns the value in DTP-Points (1 pt = 0.3527777 mm).

getInPoints(float) - Method in class info.bioinfweb.treegraph.document.format.ScaleValue

getInputPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog

This method initializes inputPanel

getInputPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes inputPanel

getInputPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditBranchLengthDialog

This method initializes InputPanel

getInstance() - Static method in class info.bioinfweb.treegraph.document.io.ReadWriteFactory

getInstance() - Static method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterFactory

getInstance() - Static method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramPainter

getInstance() - Static method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramPositioner

getInstance() - Static method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory

getInstance() - Static method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPainter

getInstance() - Static method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

getInstance() - Static method in class info.bioinfweb.treegraph.gui.CurrentDirectoryModel

getInstance() - Static method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.PreferencesPanelFactory

getInstance() - Static method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

getInstance() - Static method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

getInstance() - Static method in class info.bioinfweb.treegraph.Main

getInstanceWithBranch() - Static method in class info.bioinfweb.treegraph.document.Node

getInternalFrameByFile(File) - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

getInternalFrameListener() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

getInternalInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog

getInternalNodesPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog

This method initializes internalNodesPanel

getIntervalPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes decimalPanel

getInUnits(float) - Method in class info.bioinfweb.treegraph.document.format.ScaleValue

getItalicCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes italicCheckBox

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.AssignImportColumnsDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.ChangeIDDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditBranchLengthDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditTextElementDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatsDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.RenameIDDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.mainframe.tools.DistanceValuePopup

This method initializes jContentPane

getJContentPane() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

This method initializes jContentPane

getLabel() - Method in class info.bioinfweb.treegraph.document.clipboard.TreeClipboard

Returns a deep copy of the label in the clipboard.

getLabelBlockDistance() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getLabelBlockMargin() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getLabelIDPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.RenameIDDialog

This method initializes labelIDPanel

getLabelIDs(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

Searches for all label IDs present in the subtree under root.

getLabelIDVector(Node) - Static method in class info.bioinfweb.treegraph.document.IDManager

getLabelingPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes labelingPanel

getLabelList() - Method in class info.bioinfweb.treegraph.document.clipboard.TreeClipboard

Returns a deep copy of the label list in the clipboard.

getLabelNumbersPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

This method initializes labelNumbersPanel

getLabelRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes labelRadioButton

getLabels() - Method in class info.bioinfweb.treegraph.document.Branch

getLabels() - Method in class info.bioinfweb.treegraph.document.Label

getLabels(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getLabelsWithID(Node, String) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getLabelsWithIDInBlock(Vector<Label>, Labels, boolean, String) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getLeafInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog

getLeafList(Node) - Method in class info.bioinfweb.treegraph.document.undo.edit.AddSupportValuesEdit

Returns the leaf list of node that is stored in its attribute map.

getLeafMargin() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getLeafNodes(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getLeft() - Method in class info.bioinfweb.treegraph.document.format.Margin

getLeft() - Method in class info.bioinfweb.treegraph.document.LegendPositionData

getLeft() - Method in class info.bioinfweb.treegraph.document.PositionData

getLeft() - Method in class info.bioinfweb.treegraph.gui.dialogs.MarginInput

getLeftRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes leftRadioButton

getLegend() - Method in class info.bioinfweb.treegraph.document.clipboard.TreeClipboard

Returns a deep copy of the legend in the clipboard.

getLegendMargin() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getLegendNumbersPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes legendNumbersPanel

getLegendOrientationPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes legendOrientationPanel

getLegendPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

getLegendPositionTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes positionTextField

getLegends() - Method in class info.bioinfweb.treegraph.document.Legend

getLegends() - Method in class info.bioinfweb.treegraph.document.Tree

getLegendSpacing() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

The legend spacing is the distance between the bracket and the text of a legend.

getLegendsReanchored() - Method in class info.bioinfweb.treegraph.document.undo.edit.RemoveSubtreeEdit

getLegendsReanchored() - Method in class info.bioinfweb.treegraph.document.undo.SaveLegendsEdit

getLegendsRemoved() - Method in class info.bioinfweb.treegraph.document.undo.edit.RemoveSubtreeEdit

getLegendsRemoved() - Method in class info.bioinfweb.treegraph.document.undo.SaveLegendsEdit

getLegendsSave() - Method in class info.bioinfweb.treegraph.document.undo.SaveLegendsEdit

getLegendStyle() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getLegendStylePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes legendStylePanel

getLength() - Method in class info.bioinfweb.treegraph.document.Branch

getLength() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickToken

getLineColor() - Method in class info.bioinfweb.treegraph.document.format.BranchFormats

getLineColor() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getLineColor() - Method in interface info.bioinfweb.treegraph.document.format.LineFormats

getLineColor() - Method in class info.bioinfweb.treegraph.document.format.LineFormatsEntity

getLineColor() - Method in class info.bioinfweb.treegraph.document.format.NodeFormats

getLineColor() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

getLineColorPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LinePanel

This method initializes lineColorPanel

getLineElements(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getLineFormats() - Method in class info.bioinfweb.treegraph.document.Branch

getLineNoTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

This method initializes lineNoTextField

getLineNumber() - Method in class info.bioinfweb.treegraph.document.format.LabelPositionFormats

The number of the line in which this label shall be displayed.

getLinePosition() - Method in class info.bioinfweb.treegraph.document.format.LabelPositionFormats

If more than one element is located in the same line the line position is used to determine the order of the elements.

getLinePosTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

This method initializes linePosTextField

getLineWidth() - Method in class info.bioinfweb.treegraph.document.format.BranchFormats

getLineWidth() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getLineWidth() - Method in interface info.bioinfweb.treegraph.document.format.LineFormats

getLineWidth() - Method in class info.bioinfweb.treegraph.document.format.LineFormatsEntity

getLineWidth() - Method in class info.bioinfweb.treegraph.document.format.NodeFormats

getLineWidth() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

getLinkedNode(PaintableElement) - Static method in class info.bioinfweb.treegraph.document.Tree

Returns the linked node to the given element.

getLocale() - Method in class info.bioinfweb.treegraph.document.format.TextFormats

Return the local object used in the decimal formats.

getLocaleComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

This method initializes localeComboBox

getLocaleValue() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

getLogValuesButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes logButton

getLongInterval() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

The long interval specifies how often the scale bar is labeles with a value.

getLowerToolBar() - Method in class info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel

This method initializes editFormatToolBar

getLowestChild() - Method in class info.bioinfweb.treegraph.document.Node

Returns the lowest subnode of this node (e.g. needed for legend positioning).

getMainFrame() - Method in class info.bioinfweb.treegraph.gui.actions.DocumentAction

getMainMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes mainMenu

getMaxColor() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorPreviewPanel

getMaxColorButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes maxColorButton

getMaxWidthInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog

getMinColor() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorPreviewPanel

getMinColorButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes minColorButton

getMinDocumentDimension() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getMinimumSize() - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getMinLength() - Method in class info.bioinfweb.treegraph.document.format.BranchFormats

getMinSpaceAbove() - Method in class info.bioinfweb.treegraph.document.format.BranchFormats

getMinSpaceBelow() - Method in class info.bioinfweb.treegraph.document.format.BranchFormats

getMinTreeDistance() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getMinWidthInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog

getMultiplyValuesButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes multiplyValuesButton

getName() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusCommand

getName(int) - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument

getName(PositionPaintType) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory

getNameManager() - Method in class info.bioinfweb.treegraph.Main

getNegativeExampleLabel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

getNewID(int) - Method in class info.bioinfweb.treegraph.document.undo.edit.AssignLabelIDsEdit

getNewNameTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.RenameIDDialog

This method initializes newNameTextField

getNext() - Method in class info.bioinfweb.treegraph.document.Node

getNode() - Method in class info.bioinfweb.treegraph.document.NodeLadderizeComparable

getNodeByUniqueName(String) - Method in class info.bioinfweb.treegraph.document.Tree

Searches for a node with the given unique name in this tree.

getNodeByUniqueName(Node, String) - Static method in class info.bioinfweb.treegraph.document.Tree

Searches for a node with the given unique name in the subtree under root.

getNodeDataButtonsPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes nodeDataButtonsPanel

getNodeDataInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

getNodeDataInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog

getNodeDataPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes nodeDataPanel

getNodeDataPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes nodeDataPanel

getNodeDataPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog

This method initializes nodeDataPanel

getNodeDataRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes nodeDataRadioButton

getNodeMargin() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getNodePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

getNodes(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getOrientation() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getOrientation() - Method in class info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel

getOrientation() - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getOrientationGroup() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

getOtherLineFormatsPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LinePanel

This method initializes otherLineFormatsPanel

getOuterPreferencesPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes preferencesPanel

getOwner() - Method in class info.bioinfweb.treegraph.document.format.LabelPositionFormats

getOwner() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

getPaintableElements(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getPaintDimension(PositionPaintType) - Method in class info.bioinfweb.treegraph.document.Tree

Returnes the stored paint dimension (the size of the document) for the given painter ID.

getPainter() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramFactory

getPainter(PositionPaintType) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory

getPainter() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramFactory

getPainter() - Method in interface info.bioinfweb.treegraph.graphics.positionpaint.SinglePositionPaintFactory

getPainterType() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

getPaintStart() - Method in class info.bioinfweb.treegraph.document.Tree

getPanel(GraphicFormat) - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.PreferencesPanelFactory

getParent() - Method in class info.bioinfweb.treegraph.document.Node

getParseNumericValuesCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes parseNumericValuesCheckBox

getPixelsPerMillimeter() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

getPixelsPerMillimeter() - Method in class info.bioinfweb.treegraph.gui.dialogs.ResolutionInput

getPopupMenu(PaintableElement) - Method in class info.bioinfweb.treegraph.gui.actions.ActionManagement

getPosBeforeLinePos(int) - Method in class info.bioinfweb.treegraph.document.LabelLine

Returns the index of the label at the given line position.

getPosition(PositionPaintType) - Method in class info.bioinfweb.treegraph.document.ConcretePaintableElement

getPosition() - Method in class info.bioinfweb.treegraph.document.format.LegendFormats

The position of a legend defined in which order vertically overlapping legends are positioned.

getPosition() - Method in exception info.bioinfweb.treegraph.document.io.newick.NewickException

getPosition(PositionPaintType) - Method in class info.bioinfweb.treegraph.document.Legend

getPosition(PositionPaintType) - Method in class info.bioinfweb.treegraph.document.Node

getPosition(PositionPaintType) - Method in interface info.bioinfweb.treegraph.document.PaintableElement

Returns the stored DataPosition-object of an for an positioner- identifier.

getPositioner() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramFactory

getPositioner(PositionPaintType) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory

getPositioner() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramFactory

getPositioner() - Method in interface info.bioinfweb.treegraph.graphics.positionpaint.SinglePositionPaintFactory

getPositionFormats() - Method in class info.bioinfweb.treegraph.document.CharShiftLabel

getPositionFormats() - Method in class info.bioinfweb.treegraph.document.format.TextLabelFormats

getPositionFormats() - Method in class info.bioinfweb.treegraph.document.Label

getPositionFormats() - Method in class info.bioinfweb.treegraph.document.TextLabel

getPositionPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes positionPanel

getPositiveExampleLabel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

getPredifinedTable() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

This method initializes predifinedTable

getPreferences() - Method in class info.bioinfweb.treegraph.Main

getPreferredScrollableViewportSize() - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getPreferredScrollableViewportSize() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.AddSupportValuesEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.ApplyNameTableEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.AssignLabelIDsEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.BranchLengthEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.ChangeLabelIDEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.CollapseNodeEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.CutEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.DeleteEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.DeleteSubelementsEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.EditNodeBranchDataEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.InsertLabelEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.InsertLegendEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.InsertSiblingEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.InsertSubtreeEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.LadderizeEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.MoveSubtreeEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.PasteAllLabelsEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.PasteLabelEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.PasteLegendEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.PasteRootEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.PasteSiblingEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.PasteSubtreeEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.RemoveLabelEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.RemoveLegendEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.RemoveSubtreeEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.ReplaceInNodeDataEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.RerootEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.RescaleNodeDataEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.SeparateBranchEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.edit.TextElementEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.format.BranchWidthsFromNodeDataEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.format.ColorsFromNodeDataEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.format.GlobalFormatsEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.format.OperatorsEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.format.ReanchorLegendEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.format.ShowHideScaleBarEdit

getPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.format.ShowRootedEdit

getPreviewLabel() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

getPreviewPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

This method initializes previewPanel

getPreviewPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes previewPanel

getPreviewPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

This method initializes previewPanel

getPreviewScrollPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

This method initializes previewScrollPane

getPreviewTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes previewTextField

getPrevious() - Method in class info.bioinfweb.treegraph.document.Node

getQualitySlider() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.JPEGPrefPanel

This method initializes qualitySlider

getRaiseToButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes raiseToButton

getReader() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickFactory

getReader() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusFactory

getReader(File) - Method in class info.bioinfweb.treegraph.document.io.ReadWriteFactory

getReader(ReadWriteFormat) - Method in class info.bioinfweb.treegraph.document.io.ReadWriteFactory

getReader() - Method in interface info.bioinfweb.treegraph.document.io.SingleReadWriteFactory

getReader() - Method in class info.bioinfweb.treegraph.document.io.tgf.TGFFactory

getReader() - Method in class info.bioinfweb.treegraph.document.io.xtg.XTGFactory

getRedoPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.DocumentEdit

getRemoveButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes removeButton

getRenameButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.RenameIDDialog

This method initializes renameButton

getRenameIDButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes renameIDButton

getReplaceButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes replaceButton

getReplaceButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes replaceButton

getReplacePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes replacePanel

getReplaceRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes replaceRadioButton

getReplaceTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes replaceTextField

getRight() - Method in class info.bioinfweb.treegraph.document.format.Margin

getRight() - Method in class info.bioinfweb.treegraph.gui.dialogs.MarginInput

getRightInMillimeters() - Method in class info.bioinfweb.treegraph.document.PositionData

getRightInPixels(float) - Method in class info.bioinfweb.treegraph.document.PositionData

getRightRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes leafsRadioButton

getRoundedInPixels(float) - Method in class info.bioinfweb.treegraph.document.format.DistanceValue

Gives the uprounded value in pixels

getRoundedInPixels(float, float) - Method in class info.bioinfweb.treegraph.document.format.ScaleValue

getRowCount() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataTableModel

getRowCount() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getRowCount() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatsTableModel

getScaleBar() - Method in class info.bioinfweb.treegraph.document.Tree

getScaleBar() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

getScrollableBlockIncrement(Rectangle, int, int) - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getScrollableBlockIncrement(Rectangle, int, int) - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

getScrollableTracksViewportHeight() - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getScrollableTracksViewportHeight() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

getScrollableTracksViewportWidth() - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getScrollableTracksViewportWidth() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

getScrollableUnitIncrement(Rectangle, int, int) - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getScrollableUnitIncrement(Rectangle, int, int) - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

getScrollPane() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

This method initializes scrollPane

getSearchPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog

This method initializes searchPanel

getSearchTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog

This method initializes searchTextField

getSelctedIndex() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

getSelectedFile() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

Returns the selected file with a valid extension.

getSelectedItem() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataComboBoxModel

getSelectedNode(TreeSelection) - Method in class info.bioinfweb.treegraph.gui.actions.edit.MoveSubtreeAction

Returns the node that should be moved if the selection contains this node or its afferent branch as the first element.

getSelection() - Method in class info.bioinfweb.treegraph.gui.dialogs.EditDialog

getSelection() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

getSelectionPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

This method initializes selectionPanel

getSelectMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes selectMenu

getSeparatorPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes separatorPanel

getSeparatorTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes separatorTextField

getSetDecimalToAllButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes setDecimalToAllButton

getSetTextToAllButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes setTextToAllButton

getSharedInstance() - Static method in class info.bioinfweb.treegraph.document.nodedata.NodeNameAdapter

getShowRooted() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getShowRootedCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

This method initializes showRootedCheckBox

getShowScaleBar() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getShowScaleBarCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

This method initializes showScaleBarCheckBox

getShowWarnings() - Method in class info.bioinfweb.treegraph.document.undo.edit.DeleteEdit

getShowWarnings() - Method in class info.bioinfweb.treegraph.document.undo.SaveLegendsEdit

getShowWarnings() - Method in interface info.bioinfweb.treegraph.document.undo.WarningEdit

getSize() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataComboBoxModel

getSlider() - Method in class info.bioinfweb.treegraph.gui.mainframe.tools.DistanceValuePopup

This method initializes slider

getSmallInterval() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

The small interval speccifies the distance between the small dashes of the branch length scale bar in branch length units.

getSourceComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog

This method initializes nodeDataComboBox

getSourceComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

This method initializes sourceComboBox

getSourceComboBoxModel() - Method in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog

getSourceComboBoxModel() - Method in class info.bioinfweb.treegraph.gui.dialogs.colorfrombranchwidth.ColorsFromNodeDataDialog

getSrcAdapter() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

getSrcInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.CopyNodeDataDialog

getStartPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes startPanel

getStateAfter() - Method in class info.bioinfweb.treegraph.document.CharShiftLabel

getStateAfterFormats() - Method in class info.bioinfweb.treegraph.document.format.CharShiftFormats

getStateBefore() - Method in class info.bioinfweb.treegraph.document.CharShiftLabel

getStateBeforeFormats() - Method in class info.bioinfweb.treegraph.document.format.CharShiftFormats

getStoredValue() - Method in class info.bioinfweb.treegraph.document.format.ScaleValue

Returns the stored value in millimeters or in branch length units.

getString() - Method in class info.bioinfweb.treegraph.document.TextElementData

Returns the stored string value or null is no string is stored.

getString(String, String) - Method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterHints

getStringFormatterFactory() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

getStringRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes stringRadioButton

getStyleGroup() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

getSubtree() - Method in class info.bioinfweb.treegraph.document.clipboard.TreeClipboard

Returns a deep copy of the subtree in the clipboard.

getSupportValue(Node) - Method in class info.bioinfweb.treegraph.document.undo.edit.AddSupportValuesEdit

getTable() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes table

getTable() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes table

getTableModel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

getTableModel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

getTableScrollPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes tableScrollPane

getTableScrollPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes tableScrollPane

getTableScrollPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

This method initializes tableScrollPane

getTabRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes tabRadioButton

getTabs() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatsDialog

getTargetNode() - Method in class info.bioinfweb.treegraph.document.Branch

getTargetTypePanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes targetTypePanel

getTerminalDataInput() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

getTerminalsPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes terminalsPanel

getText() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickToken

getText(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.BranchLengthAdapter

getText(Node) - Method in interface info.bioinfweb.treegraph.document.nodedata.NodeDataAdapter

getText(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.TextElementDataAdapter

getText(Node) - Method in class info.bioinfweb.treegraph.document.nodedata.UniqueNameAdapter

getText() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog

getTextColor() - Method in class info.bioinfweb.treegraph.document.format.TextFormats

getTextElement() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

getTextElements(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NewNodeDataInput

getTextHeight() - Method in class info.bioinfweb.treegraph.document.format.TextFormats

getTextLabels(Node) - Static method in class info.bioinfweb.treegraph.document.TreeSerializer

getTextPos() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickToken

getTextPos() - Method in class info.bioinfweb.treegraph.document.LegendPositionData

getTextStyle() - Method in class info.bioinfweb.treegraph.document.format.TextFormats

getTitleLabel() - Method in class info.bioinfweb.treegraph.gui.dialogs.MarginInput

getTokens() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusCommand

getToolBarPanel() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes toolBarPanel

getToolTipText(MouseEvent) - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

This method is overwriten to show the internal node names or label IDs as tooltip text.

getTop() - Method in class info.bioinfweb.treegraph.document.format.Margin

getTop() - Method in class info.bioinfweb.treegraph.document.LegendPositionData

getTop() - Method in class info.bioinfweb.treegraph.document.PositionData

getTop() - Method in class info.bioinfweb.treegraph.gui.dialogs.MarginInput

getTranslateInternalNodesCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog

This method initializes translateInternalNodesCheckBox

getTranslateInternalsCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

This method initializes translateInternalsCheckBox

getTranslTable() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument

getTransparentCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.TransparenrtBgPrefPanel

This method initializes transparentCheckBox

getTree() - Method in class info.bioinfweb.treegraph.document.Document

getTree(int) - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument

getTree() - Method in class info.bioinfweb.treegraph.document.Legends

getTreeComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

This method initializes treeComboBox

getTreeDistance() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

getTreeElement(int, int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getTreeScrollPane() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes treeScrollPane

getTreeViewInputListener() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

getTreeViewPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog

This method initializes treeViewPanel

getTreeViewPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

This method initializes treeViewPanel

getTreeViewPanel() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

This method initializes treeViewPanel

getTreeWidthRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes rightRadioButton

getType() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickToken

getType(TreePositioner) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory

getType(TreePainter) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory

getUnderlineCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

This method initializes underlineCheckBox

getUndoManager() - Method in class info.bioinfweb.treegraph.document.Document

getUndoPresentationName() - Method in class info.bioinfweb.treegraph.document.undo.DocumentEdit

getUniqueName() - Method in class info.bioinfweb.treegraph.document.Node

The unique name is used to identify nodes in the XML-file which are associated with legends.

getUnit() - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

getUnit() - Method in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRulerUnitField

getUnitComboBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes unitComboBox

getUnterminedNameException(int) - Static method in exception info.bioinfweb.treegraph.document.io.newick.NewickException

getUpButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog

This method initializes upButton

getUpperToolBar() - Method in class info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel

This method initializes fileviewWindowToolBar

getUpRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

This method initializes upRadioButton

getValue() - Method in class info.bioinfweb.treegraph.gui.dialogs.DistanceValueInput

getValue() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleValueInput

getValueAt(int, int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataTableModel

getValueAt(int, int) - Method in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

getValueAt(int, int) - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatsTableModel

getValues() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

getValuesPanel() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

This method initializes valuesPanel

getValueTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

This method initializes textTextField

getVector(Node, boolean, boolean, boolean) - Static method in class info.bioinfweb.treegraph.document.IDManager

getVersion() - Method in class info.bioinfweb.treegraph.document.Document

getVersion() - Method in class info.bioinfweb.treegraph.Main

getVerticalLabelSpacing() - Method in class info.bioinfweb.treegraph.document.format.GlobalFormats

getViewMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes viewMenu

getWarningsMessages() - Method in class info.bioinfweb.treegraph.document.undo.SaveLegendsEdit

getWhitespaceCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog

This method initializes whitespaceCheckBox

getWidth() - Method in class info.bioinfweb.treegraph.document.format.DistanceDimension

getWidth() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

getWidth(PositionPaintType, float) - Method in class info.bioinfweb.treegraph.document.LabelLine

getWidth() - Method in class info.bioinfweb.treegraph.document.LegendPositionData

getWidth() - Method in class info.bioinfweb.treegraph.document.PositionData

getWidthTextField() - Method in class info.bioinfweb.treegraph.gui.dialogs.exporttographic.ExportToGraphicDialog

This method initializes widthTextField

getWikiHelp() - Method in class info.bioinfweb.treegraph.Main

getWindowListener() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

getWindowMenu() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This method initializes windowMenu

getWordsOnlyCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog

This method initializes wordsOnlyCheckBox

getWordsOnlyCheckBox() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog

This method initializes wordsOnlyCheckBox

getWriter() - Method in class info.bioinfweb.treegraph.document.io.newick.NewickFactory

getWriter() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusFactory

getWriter(ReadWriteFormat) - Method in class info.bioinfweb.treegraph.document.io.ReadWriteFactory

getWriter() - Method in interface info.bioinfweb.treegraph.document.io.SingleReadWriteFactory

getWriter() - Method in class info.bioinfweb.treegraph.document.io.tgf.TGFFactory

getWriter() - Method in class info.bioinfweb.treegraph.document.io.xtg.XTGFactory

getWriter() - Method in interface info.bioinfweb.treegraph.graphics.export.GraphicsFactory

getWriter(GraphicFormat) - Method in class info.bioinfweb.treegraph.graphics.export.GraphicWriterFactory

getWriter() - Method in class info.bioinfweb.treegraph.graphics.export.SingletonGraphicsFactory

getZeroLeftRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes zeroLeftRadioButton

getZeroPosGroup() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

getZeroRightRadioButton() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

This method initializes ueroRightRadioButton

getZoom(ActionEvent, TreeInternalFrame) - Method in class info.bioinfweb.treegraph.gui.actions.view.FitZoomToHeightAction

getZoom(ActionEvent, TreeInternalFrame) - Method in class info.bioinfweb.treegraph.gui.actions.view.FitZoomToWidthAction

getZoom(ActionEvent, TreeInternalFrame) - Method in class info.bioinfweb.treegraph.gui.actions.view.FitZoomToWidthHeightAction

getZoom(ActionEvent, TreeInternalFrame) - Method in class info.bioinfweb.treegraph.gui.actions.view.SetUserZoomAction

getZoom(ActionEvent, TreeInternalFrame) - Method in class info.bioinfweb.treegraph.gui.actions.view.SetZoomAction

getZoom(ActionEvent, TreeInternalFrame) - Method in class info.bioinfweb.treegraph.gui.actions.view.SetZoomToOriginalAction

getZoom() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

GlobalFormats - Class in info.bioinfweb.treegraph.document.format

GlobalFormats() - Constructor for class info.bioinfweb.treegraph.document.format.GlobalFormats

GlobalFormatsDialog - Class in info.bioinfweb.treegraph.gui.dialogs

GlobalFormatsDialog(Frame) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog

GlobalFormatsEdit - Class in info.bioinfweb.treegraph.document.undo.format

GlobalFormatsEdit(Document, GlobalFormats) - Constructor for class info.bioinfweb.treegraph.document.undo.format.GlobalFormatsEdit

gplEditorPane - Variable in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

gplPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

gplScrollPane - Variable in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog

GraphicFilter - Class in info.bioinfweb.treegraph.graphics.export

GraphicFilter() - Constructor for class info.bioinfweb.treegraph.graphics.export.GraphicFilter

GraphicFormat - Enum in info.bioinfweb.treegraph.graphics.export

GraphicFormat() - Constructor for enum info.bioinfweb.treegraph.graphics.export.GraphicFormat

GraphicsFactory - Interface in info.bioinfweb.treegraph.graphics.export

GraphicWriter - Interface in info.bioinfweb.treegraph.graphics.export

GraphicWriterFactory - Class in info.bioinfweb.treegraph.graphics.export

GraphicWriterFactory() - Constructor for class info.bioinfweb.treegraph.graphics.export.GraphicWriterFactory

GraphicWriterHints - Class in info.bioinfweb.treegraph.graphics.export

GraphicWriterHints() - Constructor for class info.bioinfweb.treegraph.graphics.export.GraphicWriterHints

greenFactor - Variable in class info.bioinfweb.treegraph.document.undo.format.ColorsFromNodeDataEdit