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Uses of Class
info.bioinfweb.treegraph.document.Document

Packages that use Document

info.bioinfweb.treegraph.document	Contains the classes that represent the data structure of TreeGraph 2 (document elements and formats) as well as all edit operations in the undo-package to manipulate the data structure and classes to read and write a document from and to different formats (io- subpackage).
info.bioinfweb.treegraph.document.format	Contains classes that store format information of the different document elements.
info.bioinfweb.treegraph.document.io	Contains classes necessary to read and write the data structure of a TreeGraph 2 document from and to different formats.
info.bioinfweb.treegraph.document.io.newick	Contains classes implementing the import from and export to the Newick format.
info.bioinfweb.treegraph.document.io.nexus	Contains classes implementing the import from and export to the Nexus format.
info.bioinfweb.treegraph.document.io.phyloxml	Contains classes implementing the import from the phyloXML format.
info.bioinfweb.treegraph.document.io.tgf	The classes in this package were planned to allow the import of TGF files into TreeGraph 2.
info.bioinfweb.treegraph.document.io.xtg	Contains classes implementing reading and writing of TreeGraph 2 documents.
info.bioinfweb.treegraph.document.undo	Contains all document edits to manipulate the TreeGraph 2 data structure.
info.bioinfweb.treegraph.document.undo.edit
info.bioinfweb.treegraph.document.undo.file
info.bioinfweb.treegraph.document.undo.format
info.bioinfweb.treegraph.graphics.export	The classes in this package implement the export of a tree document to the different supported graphic formats.
info.bioinfweb.treegraph.graphics.positionpaint	The classes in this package implement the output of an TreeGraph 2 document with Graphics2D.
info.bioinfweb.treegraph.gui.actions	Contains the actions classes used in the TreeGraph 2 GUI.
info.bioinfweb.treegraph.gui.actions.edit
info.bioinfweb.treegraph.gui.actions.file
info.bioinfweb.treegraph.gui.actions.format
info.bioinfweb.treegraph.gui.actions.select
info.bioinfweb.treegraph.gui.actions.view
info.bioinfweb.treegraph.gui.actions.window
info.bioinfweb.treegraph.gui.dialogs	Contains dialogs of the TreeGraph 2 GUI.
info.bioinfweb.treegraph.gui.dialogs.elementformats
info.bioinfweb.treegraph.gui.dialogs.io.exporttographic
info.bioinfweb.treegraph.gui.mainframe	Contains all classes directly related to the main frame.
info.bioinfweb.treegraph.gui.treeframe	Contains all classes that make up a document window.

Uses of Document in info.bioinfweb.treegraph.document

Methods in info.bioinfweb.treegraph.document that return Document

Document

DocumentChangeEvent.getSource()

Methods in info.bioinfweb.treegraph.document with parameters of type Document

boolean	ContrastManager.ensureContrast(Document document, Label label) Checks the text color of the specified label regarding to its contrast to the background color of the document.
boolean	ContrastManager.ensureContrast(Document document, Label[] labels) Checks the text color of the specified labels regarding to their contrast to the background color of the document.
boolean	ContrastManager.ensureContrast(Document document, Legend legend) Checks the text color of the specified legend regarding to its contrast to the background color of the document.
boolean	ContrastManager.ensureContrast(Document document, Node root, Legend[] legends) Checks the colors of all elements in the subtree under root (including root and its afferent branch) regarding to their contrast to the background color of the document.
private boolean	ContrastManager.ensureLabelContrast(Document document, Label label) Internal method which does not set state = State.UNDEFINED.
private boolean	ContrastManager.ensureLegendContrast(Document document, Legend legend)
private boolean	ContrastManager.ensureSubtreeContrast(Document document, Node root) Rekursive method which contains the actual implementation.

Constructors in info.bioinfweb.treegraph.document with parameters of type Document

DocumentChangeEvent(Document document)

Uses of Document in info.bioinfweb.treegraph.document.format

Methods in info.bioinfweb.treegraph.document.format with parameters of type Document

static Node	FormatUtils.createNode(Document document) Creates a node with an afferent branch to be inserted in the specified document.
static Color	FormatUtils.getLineColor(Document document) Returns the default line color or its inversion depending in the background color of the specified document.
static Color	FormatUtils.getTextColor(Document document) Returns the default text color or its inversion depending in the background color of the specified document.

Uses of Document in info.bioinfweb.treegraph.document.io

Fields in info.bioinfweb.treegraph.document.io declared as Document

protected Document	AbstractDocumentWriter.document
protected Document	AbstractDocumentReader.document

Methods in info.bioinfweb.treegraph.document.io that return Document

Document	DocumentReader.read(File file, LoadLogger loadLogger)
Document	AbstractDocumentReader.read(File file, LoadLogger loadLogger)
Document	DocumentReader.read(File file, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter)
Document	AbstractDocumentReader.read(File file, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter)
Document	DocumentReader.read(File file, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternalNodes)
Document	AbstractDocumentReader.read(File file, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternalNodes) If you want to implement file specific functionalities you should override this method.
Document	DocumentReader.read(InputStream stream, LoadLogger loadLogger)
Document	AbstractDocumentReader.read(InputStream stream, LoadLogger loadLogger)
Document	DocumentReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter)
Document	AbstractDocumentReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter)
Document	DocumentReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternalNodes)

Methods in info.bioinfweb.treegraph.document.io with parameters of type Document

void	DocumentWriter.write(Document document, File file)
void	AbstractDocumentWriter.write(Document document, File file)
void	DocumentWriter.write(Document document, File file, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter leafAdapter, NodeBranchDataAdapter branchLengthAdapter)
void	AbstractDocumentWriter.write(Document document, File file, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter leafAdapter, NodeBranchDataAdapter branchLengthAdapter)
void	DocumentWriter.write(Document document, OutputStream stream)
void	DocumentWriter.write(Document document, OutputStream stream, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter leafAdapter, NodeBranchDataAdapter branchLengthAdapter)

Uses of Document in info.bioinfweb.treegraph.document.io.newick

Methods in info.bioinfweb.treegraph.document.io.newick that return Document

Document	NewickReader.read(File file, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternals)
Document	NewickReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternals)

Methods in info.bioinfweb.treegraph.document.io.newick with parameters of type Document

void	NewickWriter.write(Document document, OutputStream stream)
void	NewickWriter.write(Document document, OutputStream stream, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter leafAdapter, NodeBranchDataAdapter branchLengthAdapter)

Uses of Document in info.bioinfweb.treegraph.document.io.nexus

Methods in info.bioinfweb.treegraph.document.io.nexus that return Document

Document	NexusReader.read(File file, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthAdapter, TreeSelector selector, boolean translateInternalNodes)
Document	NexusReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthAdapter, TreeSelector selector, boolean translateInternalNodes)

Methods in info.bioinfweb.treegraph.document.io.nexus with parameters of type Document

void	NexusWriter.write(Document document, OutputStream stream)
void	NexusWriter.write(Document document, OutputStream stream, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter leafAdapter, NodeBranchDataAdapter branchLengthAdapter)

Uses of Document in info.bioinfweb.treegraph.document.io.phyloxml

Methods in info.bioinfweb.treegraph.document.io.phyloxml that return Document

Document

PhyloXMLReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternalNodes)

Uses of Document in info.bioinfweb.treegraph.document.io.tgf

Methods in info.bioinfweb.treegraph.document.io.tgf that return Document

Document

TGFReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternalNodes)

Uses of Document in info.bioinfweb.treegraph.document.io.xtg

Methods in info.bioinfweb.treegraph.document.io.xtg that return Document

Document	XTGReader.read(File file, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternalNodes)
Document	XTGReader.read(InputStream stream, LoadLogger loadLogger, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter branchLengthsAdapter, TreeSelector selector, boolean translateInternalNodes)

Methods in info.bioinfweb.treegraph.document.io.xtg with parameters of type Document

void

XTGWriter.write(Document document, OutputStream stream)

void

XTGWriter.write(Document document, OutputStream stream, NodeBranchDataAdapter internalAdapter, NodeBranchDataAdapter leafAdapter, NodeBranchDataAdapter branchLengthAdapter) A call of this method is identical with calling XTGWriter.write(info.bioinfweb.treegraph.document.Document, java.io.OutputStream) because the XTG format supports writing any number of labels by default and there is no need to replace internal node names by label values.

Uses of Document in info.bioinfweb.treegraph.document.undo

Fields in info.bioinfweb.treegraph.document.undo declared as Document

protected Document

DocumentEdit.document

Constructors in info.bioinfweb.treegraph.document.undo with parameters of type Document

ComplexDocumentEdit(Document document)

DocumentEdit(Document document)

NodeBranchDataEdit(Document document, NodeBranchDataAdapter adapter)

SaveLegendsEdit(Document document)

Uses of Document in info.bioinfweb.treegraph.document.undo.edit

Fields in info.bioinfweb.treegraph.document.undo.edit declared as Document

private Document

LegendPaster.document

Constructors in info.bioinfweb.treegraph.document.undo.edit with parameters of type Document

BranchLengthEdit(Document document, Branch branch, double newLength)

CalculateColumnEdit(Document document, NodeBranchDataAdapter targetAdapter, String expression)

ChangeLabelIDEdit(Document document, String newID, Label[] labels)

CollapseNodeEdit(Document document, Node node, boolean showWarnings)

CopyColumnEdit(Document document, NodeBranchDataAdapter source, NodeBranchDataAdapter dest, boolean includeLeafs)

CutEdit(Document document, ConcretePaintableElement[] elements)

DeleteColumnEdit(Document document, NodeBranchDataAdapter adapter)

DeleteEdit(Document document, ConcretePaintableElement[] elements, boolean showWarnings)

DeleteOutsideIntervalEdit(Document document, NodeBranchDataAdapter adapter, double lowerBorder, double upperBorder)

DeleteSubelementsEdit(Document document, Node root, boolean showWarnings)

EditNodeBranchDataEdit(Document document, Node newRoot)

InsertLabelEdit(Document document, Label label, Labels owner)

InsertLabelsEdit(Document document, Label label, Branch[] branches)

InsertLegendEdit(Document document, Legend legend, Node anchor0, Node anchor1)

InsertRemoveLabelEdit(Document document, Label label, Labels owner)

InsertRemoveLegendEdit(Document document, Legend legend, Node anchor0, Node anchor1)

InsertRemoveSubtreeEdit(Document document, Node parent, Node root, int index)

InsertSiblingEdit(Document document, Node firstSibling, Node newSibling)

InsertSubtreeEdit(Document document, Node parent, Node root, int index)

LadderizeEdit(Document document, Node root, boolean down)

LegendPaster(Document document, Legend[] legends)

MoveSubtreeEdit(Document document, Node root, boolean down)

PasteAllLabelsEdit(Document document, Branch branch, Label[] labelList)

PasteLabelEdit(Document document, Branch branch, Label label)

PasteLegendEdit(Document document, Node anchor1, Node anchor2, Legend legend)

PasteRootEdit(Document document, Node root, Legend[] legends)

PasteSiblingEdit(Document document, Node firstSibling, Node newSibling, Legend[] legends)

PasteSubtreeEdit(Document document, Node parent, Node root, Legend[] legends)

PieChartLabelIDsEdit(Document document, PieChartLabel[] labels, String[] newIDs)

RemoveLabelEdit(Document document, Label label, Labels owner)

RemoveLegendEdit(Document document, Legend legend)

RemoveSubtreeEdit(Document document, Node parent, Node root, int index, boolean showWarnings)

RenameDataIDEdit(Document document, String[] newIDs, String[] oldIDs)

ReplaceInNodeDataEdit(Document document, NodeBranchDataAdapter adapter, ReplaceInNodeDataEdit.InsertPosition position, String oldText, String newText, boolean caseSensitive, boolean wordsOnly)

RerootEdit(Document document, Branch rootingPoint)

RescaleNodeDataEdit(Document document, NodeBranchDataAdapter adapter, double factor, double addend)

SeparateBranchEdit(Document document, Branch branch)

SetColumnTypeEdit(Document document, TextElementDataAdapter adapter, boolean decimal)

TextElementEdit(Document document, TextElement element, TextElementData newData)

Uses of Document in info.bioinfweb.treegraph.document.undo.file

Fields in info.bioinfweb.treegraph.document.undo.file declared as Document

private Document

AddSupportValuesEdit.src

Methods in info.bioinfweb.treegraph.document.undo.file with parameters of type Document

static AddSupportValuesEdit

AddSupportValuesEdit.createInstance(Document document, Document src, TextElementDataAdapter terminalsAdapter, AddSupportValuesEdit.TargetType targetType, String idPrefix, boolean importNodeNames, boolean processRooted) Returns a new instance of AddSupportValuesEdit or null if the given source document contains internal node names that are not decimal.

Constructors in info.bioinfweb.treegraph.document.undo.file with parameters of type Document

AddSupportValuesEdit(Document document, Document src, TextElementDataAdapter terminalsAdapter, AddSupportValuesEdit.TargetType targetType, String idPrefix, NodeBranchDataAdapter sourceAdapter, boolean processRooted)

ApplyNameTableEdit(Document document, NodeBranchDataAdapter adapter, List<String> oldNames, List<String> newNames, boolean ignoreWhitespaces, boolean caseSensitive, boolean parseNumericValues)

ImportTableEdit(Document document, String[][] data, NodeBranchDataAdapter[] adapters)

Uses of Document in info.bioinfweb.treegraph.document.undo.format

Methods in info.bioinfweb.treegraph.document.undo.format with parameters of type Document

static ShowRootedEdit	ShowRootedEdit.createInstance(Document document, boolean showRooted)
static ShowHideScaleBarEdit	ShowHideScaleBarEdit.createInstance(Document document, boolean showScaleBar)

Constructors in info.bioinfweb.treegraph.document.undo.format with parameters of type Document

AutoPositionLabelsEdit(Document document, Branch[] branches)

ColorsByNodeBranchDataEdit(Document document, NodeBranchDataAdapter sourceAdapter, Color min, Color max, boolean changeUndefined, boolean inheritToTerminals, ColorAdapter[] targetAdapters)

DistanceValuesByNodeBranchDataEdit(Document document, NodeBranchDataAdapter sourceAdapter, float min, float max, boolean changeUndefined, boolean inheritToTerminals, DistanceAdapter[] targetAdapters)

GlobalFormatsEdit(Document document, GlobalFormats newFormats)

NodeBranchDataFormatEdit(Document document)

OperatorsEdit(Document document, PaintableElement[] applyElements, FormatOperator[] operators)

ReanchorLegendEdit(Document document, Legend legend, String newAnchor1, String newAnchor2)

ScaleBranchLengthsEdit(Document document, float length)

ScaleDistanceValuesEdit(Document document, Node root, float factor, DistanceAdapter[] targetAdapters)

ShowHideScaleBarEdit(Document document, GlobalFormats newFormats)

ShowRootedEdit(Document document, GlobalFormats newFormats)

Uses of Document in info.bioinfweb.treegraph.graphics.export

Methods in info.bioinfweb.treegraph.graphics.export with parameters of type Document

void	GraphicWriter.write(Document document, TreePainter painter, GraphicWriterHints hints, File file)
void	AbstractGraphicWriter.write(Document document, TreePainter painter, GraphicWriterHints hints, File file)
void	SVGTranscodeWriter.write(Document document, TreePainter painter, GraphicWriterHints hints, OutputStream stream) Writes the given document to the given stream in the graphic format provided by the transcoder-class specified in the constructor.
void	GraphicWriter.write(Document document, TreePainter painter, GraphicWriterHints hints, OutputStream stream)
void	FreeHEPWriter.write(Document document, TreePainter painter, GraphicWriterHints hints, OutputStream stream)

Uses of Document in info.bioinfweb.treegraph.graphics.positionpaint

Fields in info.bioinfweb.treegraph.graphics.positionpaint declared as Document

protected Document	RectangularCladogramPositioner.document
private Document	RectangularCladogramPainter.document

Methods in info.bioinfweb.treegraph.graphics.positionpaint with parameters of type Document

ConcretePaintableElement	TreePositioner.elementToPosition(Document document, float x, float y, float margin) Return the SelectableElement of the tree in which the given coordinates are located.
ConcretePaintableElement	RectangularCladogramPositioner.elementToPosition(Document document, float x, float y, float margin) Determines the element to a position defined by x- and y-coordinates (e.g. to select an element by mouse).
void	TreePainter.paintTree(Graphics2D g, Document document, TreeSelection selection, float pixelsPerMm, boolean transparent) Paints the whole specified document.
void	RectangularCladogramPainter.paintTree(Graphics2D g, Document document, TreeSelection selection, float pixelsPerMm, boolean transparent)
void	TreePainter.paintTree(Graphics2D g, Rectangle visibleRect, Document document, TreeSelection selection, float pixelsPerMm, boolean transparent) Paints the specified rectangle of the specified document.
void	RectangularCladogramPainter.paintTree(Graphics2D g, Rectangle visibleRect, Document document, TreeSelection selection, float pixelsPerMillimeter, boolean transparent)
void	TreePositioner.positionAll(Document document, float rescalingFactorX)
void	RectangularCladogramPositioner.positionAll(Document document, float rescalingFactorX)

Uses of Document in info.bioinfweb.treegraph.gui.actions

Methods in info.bioinfweb.treegraph.gui.actions with parameters of type Document

private void	ActionManagement.setActionStatusBySelection(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
abstract void	DocumentAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)

Uses of Document in info.bioinfweb.treegraph.gui.actions.edit

Methods in info.bioinfweb.treegraph.gui.actions.edit with parameters of type Document

static boolean	NewNodeAction.insertSubtree(Document document, Node parent, Node root) Inserts a new subelement as the last subelement of the given parent.
static boolean	NewNodeAction.insertSubtree(Document document, Node parent, Node root, int index) Inserts a new subelement at the given position.
void	UndoRedoToAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	UndoAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SetColumnTypeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SeparateBranchAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SearchTextAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	RerootAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ReplaceInNodeDataAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	RenameDataIDAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	RedoAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	PasteAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	NewTextLabelAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	NewPieChartLabelsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	NewNodeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	NewLegendAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	NewIconLabelsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	MoveSubtreeUpAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	MoveSubtreeDownAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	LadderizeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	EditTextElementAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	EditPieChartLabelIDsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	EditBranchLengthAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	DeleteSubelementsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	DeleteOutsideIntervalAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	DeleteElementAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	DeleteColumnAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	CopyElementAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	CopyColumnAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	CopyAllLabelsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	CollapseNodeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ChangeLabelIDAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	CalculateColumnAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)

Uses of Document in info.bioinfweb.treegraph.gui.actions.file

Methods in info.bioinfweb.treegraph.gui.actions.file with parameters of type Document

void	SaveAsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SaveAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	OpenAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	NewDocumentAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ImportTableAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ExportToPDFAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ExportToNewickNexusAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ExportToGraphicAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ExportTableAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ExitAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	CloseAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ApplyNameTableAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	AddSupportValuesAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)

Uses of Document in info.bioinfweb.treegraph.gui.actions.format

Methods in info.bioinfweb.treegraph.gui.actions.format with parameters of type Document

void	ShowRootedAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ShowHideScaleBarAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ScaleDistanceValuesAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ScaleBranchLengthsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ReanchorLegendAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	EditGlobalFormatsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	EditElementFormatsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	DistanceValuesByNodeBranchDataAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ColorsByNodeBranchDataAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	AutoPositionLabelsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)

Uses of Document in info.bioinfweb.treegraph.gui.actions.select

Methods in info.bioinfweb.treegraph.gui.actions.select with parameters of type Document

void	SelectTypeInSubtreeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectTypeInDocumentAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectSubtreeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectLegendsWithPosIndexAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectLegendsInSubtreeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectLegendsAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectLeafsInSubtreeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectLeafsInDocumentAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectLabelsWithIDAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectLabelsInSubtreeAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	SelectAllAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	InvertSelectionAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)

Uses of Document in info.bioinfweb.treegraph.gui.actions.view

Methods in info.bioinfweb.treegraph.gui.actions.view with parameters of type Document

void	SetZoomAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	ChangePainterIDAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)

Uses of Document in info.bioinfweb.treegraph.gui.actions.window

Methods in info.bioinfweb.treegraph.gui.actions.window with parameters of type Document

void	PreviousDocumentAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)
void	NextDocumentAction.setEnabled(Document document, TreeSelection selection, NodeBranchDataAdapter tableAdapter)

Uses of Document in info.bioinfweb.treegraph.gui.dialogs

Fields in info.bioinfweb.treegraph.gui.dialogs declared as Document

private Document

EditDialog.document

Methods in info.bioinfweb.treegraph.gui.dialogs that return Document

protected Document

EditDialog.getDocument()

Methods in info.bioinfweb.treegraph.gui.dialogs with parameters of type Document

boolean	EditDialog.execute(Document document, TreeSelection selection, NodeBranchDataAdapter selectedAdapter)
protected void	EditDialog.setDocument(Document document)
void	DataIDComboBox.setIDs(Document document)

Uses of Document in info.bioinfweb.treegraph.gui.dialogs.elementformats

Methods in info.bioinfweb.treegraph.gui.dialogs.elementformats that return Document

Document

ElementFormatsDialog.getDocument()

Uses of Document in info.bioinfweb.treegraph.gui.dialogs.io.exporttographic

Methods in info.bioinfweb.treegraph.gui.dialogs.io.exporttographic with parameters of type Document

boolean

ExportToGraphicDialog.execute(Document document, TreeSelection selection, NodeBranchDataAdapter selectedAdapter) This method throws a Runtime exception if it is called.

Uses of Document in info.bioinfweb.treegraph.gui.mainframe

Methods in info.bioinfweb.treegraph.gui.mainframe with parameters of type Document

TreeInternalFrame

MainFrame.addInternalFrame(Document document)

Uses of Document in info.bioinfweb.treegraph.gui.treeframe

Fields in info.bioinfweb.treegraph.gui.treeframe declared as Document

private Document	TreeViewPanel.document
private Document	TreeInternalFrame.document
private Document	DocumentTableModel.document

Methods in info.bioinfweb.treegraph.gui.treeframe that return Document

Document	TreeViewPanel.getDocument() Returns the currently associated document.
Document	TreeInternalFrame.getDocument()
Document	DocumentTableModel.getDocument()

Methods in info.bioinfweb.treegraph.gui.treeframe with parameters of type Document

void	TreeViewPanel.setDocument(Document document) Sets this view to a new model and repaints the element using the data of the new document.
void	DocumentTableModel.setDocument(Document document) Sets this view to a new model and repaints the element using the data of the new document.

Constructors in info.bioinfweb.treegraph.gui.treeframe with parameters of type Document

DocumentTableModel(Document document)
Creates a new DocumentTableModel which shows the tree contained in document.

TreeInternalFrame(Document document)
This is the xxx default constructor

TreeViewPanel(Document document)
Creates a new swing-panel which shows the tree contained in document.