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M

Main - Class in info.bioinfweb.treegraph

This is the main class that starts TreeGraph 2.

Main() - Constructor for class info.bioinfweb.treegraph.Main

main(String[]) - Static method in class info.bioinfweb.treegraph.Main

Start this application

mainFrame - Variable in class info.bioinfweb.treegraph.gui.actions.ActionManagement

mainFrame - Variable in class info.bioinfweb.treegraph.gui.actions.DocumentAction

MainFrame - Class in info.bioinfweb.treegraph.gui.mainframe

The main frame of TreeGraph 2.

MainFrame() - Constructor for class info.bioinfweb.treegraph.gui.mainframe.MainFrame

This is the default constructor

mainFrame - Variable in class info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel

mainMenu - Variable in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

map - Variable in class info.bioinfweb.treegraph.document.HiddenDataMap

map - Variable in class info.bioinfweb.treegraph.graphics.export.GraphicWriterHints

map - Variable in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.LabelIconMap

margin - Variable in class info.bioinfweb.treegraph.document.format.LabelFormats

margin - Variable in class info.bioinfweb.treegraph.document.format.LegendFormats

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

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

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

Margin(float, float, float, float) - Constructor for class info.bioinfweb.treegraph.document.format.Margin

Initializes the margin with values in millimeters.

Margin(DistanceValue, DistanceValue, DistanceValue, DistanceValue) - Constructor for class info.bioinfweb.treegraph.document.format.Margin

marginInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

marginInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

marginInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.NodeMarginPanel

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

MarginInput(String, JPanel, int) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.MarginInput

marginPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

marginPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

marginPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.NodeMarginPanel

matches(TextElement) - Method in class info.bioinfweb.treegraph.gui.actions.edit.SearchTextAction

MAX_QUALITY - Static variable in class info.bioinfweb.treegraph.graphics.export.jpeg.JPEGWriter

MAX_SELECTION_COLOR_DIF - Static variable in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

MAX_TERMINAL_ERROR_COUNT - Static variable in class info.bioinfweb.treegraph.document.undo.file.AddSupportValuesEdit

maxColor - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ColorPreviewPanel

maxColorButton - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ColorsByNodeBranchDataDialog

MAXIMAL_COUNT - Static variable in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.RecentlyUsedExpressionsListModel

maxLeafWidth - Variable in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

maxWidthInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.DistanceValuesByNodeBranchDataDialog

MEDIUM_FACTOR - Static variable in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

The factor to calculate the length of the medium dashes from the maximal length

message - Variable in class info.bioinfweb.treegraph.document.io.log.LoggerMessage

messageContentLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.NewickExceptionDialog

messageLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.NewickExceptionDialog

messageList - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.loadlogger.LoadLoggerDialog

messagePanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.NewickExceptionDialog

MessagesListModel - Class in info.bioinfweb.treegraph.gui.dialogs.io.loadlogger

List model used by LoadLoggerDialog.

MessagesListModel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.io.loadlogger.MessagesListModel

messagesScrollPane - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.loadlogger.LoadLoggerDialog

millimeters - Variable in class info.bioinfweb.treegraph.document.format.DistanceValue

MILLIMETERS - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

millimetersToPixels(float, float) - Static method in class info.bioinfweb.treegraph.document.format.DistanceValue

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

millimetersToPoints(float) - Static method in class info.bioinfweb.treegraph.document.format.DistanceValue

millimetersToUnits(float, float) - Static method in class info.bioinfweb.treegraph.document.format.ScaleValue

min - Variable in class info.bioinfweb.treegraph.document.undo.format.ColorsByNodeBranchDataEdit

min - Variable in class info.bioinfweb.treegraph.document.undo.format.DistanceValuesByNodeBranchDataEdit

MIN_COLOR_DIFFERENCE - Static variable in class info.bioinfweb.treegraph.document.format.FormatUtils

The minimal difference of a foreground color to the background color.

MIN_DASH_DISTANCE - Static variable in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

The minimal distance that two dashes must have to be painted

MIN_EXPRESSION_FIELD_WIDTH - Static variable in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.CalculateColumnDialog

MIN_QUALITY - Static variable in class info.bioinfweb.treegraph.graphics.export.jpeg.JPEGWriter

MIN_ZOOM - Static variable in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

minColor - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ColorPreviewPanel

minColorButton - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ColorsByNodeBranchDataDialog

minLength - Variable in class info.bioinfweb.treegraph.document.format.BranchFormats

minLengthInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.BranchPanel

MinLengthOperator - Class in info.bioinfweb.treegraph.document.format.operate

MinLengthOperator(DistanceValue) - Constructor for class info.bioinfweb.treegraph.document.format.operate.MinLengthOperator

minMaxPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ColorsByNodeBranchDataDialog

minSpaceAbove - Variable in class info.bioinfweb.treegraph.document.format.BranchFormats

MinSpaceAboveOperator - Class in info.bioinfweb.treegraph.document.format.operate

MinSpaceAboveOperator(DistanceValue) - Constructor for class info.bioinfweb.treegraph.document.format.operate.MinSpaceAboveOperator

minSpaceBelow - Variable in class info.bioinfweb.treegraph.document.format.BranchFormats

MinSpaceBelowOperator - Class in info.bioinfweb.treegraph.document.format.operate

MinSpaceBelowOperator(DistanceValue) - Constructor for class info.bioinfweb.treegraph.document.format.operate.MinSpaceBelowOperator

minTreeDistance - Variable in class info.bioinfweb.treegraph.document.format.LegendFormats

minTreeDistanceInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

MinTreeDistanceOperator - Class in info.bioinfweb.treegraph.document.format.operate

MinTreeDistanceOperator(DistanceValue) - Constructor for class info.bioinfweb.treegraph.document.format.operate.MinTreeDistanceOperator

minWidthInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.DistanceValuesByNodeBranchDataDialog

MM_PER_INCH - Static variable in class info.bioinfweb.treegraph.gui.dialogs.ResolutionInput

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

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

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

mouseWheelMoved(MouseWheelEvent) - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeEditlInputListener

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

Moves the subtree defined by root up or down.

moveAll(float, float) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

moveDown(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportNodeDataTableModel

moveForLegends() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

Moves the tree down by the legends overlay on the top and calculates the new document height including the possible overlay of the legends.

moveLabels(Labels, boolean, float, float) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

movePosition(PositionData, float, float) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

moveSubtree(Node, float, float) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

MoveSubtreeAction - Class in info.bioinfweb.treegraph.gui.actions.edit

This abstract class contains basic functionalities to extract the node to be moved from the selection and is the ancestor of MoveSubtreeUpAction and MoveSubtreeDownAction.

MoveSubtreeAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.edit.MoveSubtreeAction

MoveSubtreeDownAction - Class in info.bioinfweb.treegraph.gui.actions.edit

MoveSubtreeDownAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.edit.MoveSubtreeDownAction

MoveSubtreeEdit - Class in info.bioinfweb.treegraph.document.undo.edit

MoveSubtreeEdit(Document, Node, boolean) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.MoveSubtreeEdit

MoveSubtreeUpAction - Class in info.bioinfweb.treegraph.gui.actions.edit

MoveSubtreeUpAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.edit.MoveSubtreeUpAction

moveUp(int) - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportNodeDataTableModel