public class VioletFrameCreate extends VioletFrameActions
VioletFrameChanges.setOptimumZoomFactorsThreadedjavax.swing.JFrame.AccessibleJFramejava.awt.Window.AccessibleAWTWindow, java.awt.Window.Typegoto_dlg, menuAddTracks, menuAddTracksFromServer, menuAutoFitTableView, menuBookmarks, menuDecreaseDNASize, menuDecreaseKinetogramSize, menuDecreaseTrackSize, menuDefaultScale, menuExit, menuExportMarkers, menuFitViewsToPanels, menuGoToDevnet, menuGoToLocation, menuGoToPacBio, menuGroupFile, menuGroupHelp, menuGroupTools, menuGroupView, menuGroupWindow, menuHelpAbout, menuHelpContent, menuIncreaseDNASize, menuIncreaseKinetogramSize, menuIncreaseTrackSize, menuInstallShortcut, menuLayoutAnnotate, menuLayoutDefault, menuLayoutDetails, menuLayoutOverview, menuLinkGenomeRegionPanels, menuLinkRegionDetailsPanels, menuLockRegionGenomicRangeM, menuLockRegionGenomicRangeS, menuNew, menuOpenJobDataFromServer, menuPanLeft, menuPanRight, menuPreviousScale, menuPrint, menuPrintSettings, menuProgramOptions, menuRemoveTrack, menuResetView, menuSaveAsGraphics, menuSaveSession, menuSelectNext, menuSelectPrevious, menuSessionInfo, menuShowAllInTableView, menuShowContigLabels, menuShowDetailsInTableView, menuShowMarkerLabels, menuShowRegionInTableView, menuShowTracks, menuViewInsertions, menuZoomBases, menuZoomIn, menuZoomOut, preferences_dlg, sortTableForBaseMods, statusBar, table_menu, toggleFilterByVariant, toggleShowDetails, toggleShowKinetics, toggleShowMapQV, toggleShowQV, toggleShowReads, toolBar, tooltipTableShowAll, tooltipTableShowDetails, tooltipTableShowRegionlast_selected_dockable_viewbFitRegionViewToWindowHeight, bFitToWindow, browser_panel, chromosomes_panel, chromosomes_scroller, chromosomes_views, circular_scroller, circular_view, currentMainFrameContig, default_workspace_layout, denovo_table_panel, details_scroller, details_view, docking_desktop, genomic_table_panel, heartbeat_timer, main_app, pageFormat, popmenu, printerJob, region_scroller, region_view, selection_panelaccessibleContext, EXIT_ON_CLOSE, rootPane, rootPaneCheckingEnabledCROSSHAIR_CURSOR, DEFAULT_CURSOR, E_RESIZE_CURSOR, HAND_CURSOR, ICONIFIED, MAXIMIZED_BOTH, MAXIMIZED_HORIZ, MAXIMIZED_VERT, MOVE_CURSOR, N_RESIZE_CURSOR, NE_RESIZE_CURSOR, NORMAL, NW_RESIZE_CURSOR, S_RESIZE_CURSOR, SE_RESIZE_CURSOR, SW_RESIZE_CURSOR, TEXT_CURSOR, W_RESIZE_CURSOR, WAIT_CURSORBOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT| Constructor and Description |
|---|
VioletFrameCreate(java.lang.String str) |
| Modifier and Type | Method and Description |
|---|---|
protected void |
addDockingDesktopListeners() |
protected void |
createCircularViewPanel() |
protected void |
createDeNovoTableViewPanel() |
protected void |
createDetailsViewPanel() |
protected void |
createDockableDesktop() |
protected void |
createDockableWholeGenomeScrollPanel(int num_chromosomes) |
protected void |
createDockingGUIFramework() |
protected void |
createGenericTableViewPanel() |
protected void |
createRegionViewPanel() |
protected void |
createSelectionInfoPanel() |
protected void |
createWebBrowserPanel() |
protected void |
createWholeGenomePanel(VioletFrameActions frame,
GenomicViewSingleContig[] chromosomes_views) |
protected java.awt.GridBagConstraints |
getMultiChromosomesPanelConstraints() |
protected void |
setDefaultViewPort(java.awt.Component panel,
double x,
double y) |
actionFileNew, actionGoToLocation, actionInstallSMRTView, actionLayout, actionMagnification, actionPerformed, actionProgramOptions, actionToggleFilterAnnotationsByVariants, actionToggleKinetics, actionToggleLinkPanels, actionToggleLockRegionGenomicRange, actionToggleRetrieveDetailedAnnotations, actionToggleShowMapQV, actionToggleShowQV, actionToggleShowReads, actionViewInsertions, createFileMenu, createHelpMenu, createMenuBar, createPopupMenu, createStatusbar, createToolbar, createToolsMenu, createViewMenu, createWindowMenu, getActiveView, getStatusBar, getTableMenu, getToolBar, onFrameClosing, onFrameCreated, onFrameStateChanged, setGoToDialog, setStatusBarBusy, setStatusBarDataInfoText, setStatusBarProgress, setStatusBarSysInfoText, setStatusBarText, showMemoryStats, updateToggleButtonsInGoToDialog, updateToggleButtonsInPrefDialog, updateToggleButtonsInToolbar, updateToggleMenuItemsactionFileAddTracksFromServer, actionFileExportAsGraphics, actionFileExportDataAsGFF, actionFileOpenData, actionFileOpenJobFromServer, actionFilePrint, actionFilePrinterSettings, actionFileRemoveTrack, actionFileSaveSession, actionSessionProperties, readDetailsOptionsFromSession, readProperties, rebuildAllViewsMarkerCollectionsAndUpdateViews, saveGraphicsFile, saveProperties, writeAllViewsToPDFFile, writeAllViewsToPNGFile, writePDFFile, writePNGFilecomponentHidden, componentMoved, componentResized, componentShown, dockableStateChanged, getActiveGenomicView, invalidateAndRepaintAllViews, selectionChanged, setOptimumZoomFactors, stateChanged, tableChanged, updateCircularView, updateDeNovoTablePanel, updateDetailsView, updateRegionView, updateRegionViewDetailsRange, updateSelectionPanel, updateTablePanelclearAllSlots, clearMarkersFromAllViews, getCircularScrollPanel, getCurrentMainFrameContig, getDataStorage, getDefaultWorkspaceLayout, getDeNovoTablePanel, getDetailsPanel, getDetailsView, getDockingDesktop, getGeneDB, getGenomePanel, getGenomeScrollPanel, getGenomicTablePanel, getIdeogramDB, getNumChromosomes, getPageFormat, getPrinterJob, getReferenceInfo, getRegionPanel, getRegionView, getSelectedSingleContigView, getSelectionPanel, getShowLabels, getShowMarkerLabels, getShowMarkers, getSingleContigsViews, getSlots, getVioletApp, getWebBrowserPanel, initLocals, normalCursor, resetVisibleGenomicRangeOfViews, saveDefaultLayout, setCurrentMainFrameContig, setDetailsViewMagnification, setFitRegionViewToWindowHeight, setMultiChromosomesViewMagnification, setPageFormat, setRegionViewMagnification, setShowGenes, setShowLabels, setShowMarkerLabels, setShowMarkers, updateWholeGenomeView, waitCursoraddImpl, createRootPane, frameInit, getAccessibleContext, getContentPane, getDefaultCloseOperation, getGlassPane, getGraphics, getJMenuBar, getLayeredPane, getRootPane, getTransferHandler, isDefaultLookAndFeelDecorated, isRootPaneCheckingEnabled, paramString, processWindowEvent, remove, repaint, setContentPane, setDefaultCloseOperation, setDefaultLookAndFeelDecorated, setGlassPane, setIconImage, setJMenuBar, setLayeredPane, setLayout, setRootPane, setRootPaneCheckingEnabled, setTransferHandler, updateaddNotify, getCursorType, getExtendedState, getFrames, getIconImage, getMaximizedBounds, getMenuBar, getState, getTitle, isResizable, isUndecorated, remove, removeNotify, setBackground, setCursor, setExtendedState, setMaximizedBounds, setMenuBar, setOpacity, setResizable, setShape, setState, setTitle, setUndecoratedaddPropertyChangeListener, addPropertyChangeListener, addWindowFocusListener, addWindowListener, addWindowStateListener, applyResourceBundle, applyResourceBundle, createBufferStrategy, createBufferStrategy, dispose, getBackground, getBufferStrategy, getFocusableWindowState, getFocusCycleRootAncestor, getFocusOwner, getFocusTraversalKeys, getIconImages, getInputContext, getListeners, getLocale, getModalExclusionType, getMostRecentFocusOwner, getOpacity, getOwnedWindows, getOwner, getOwnerlessWindows, getShape, getToolkit, getType, getWarningString, getWindowFocusListeners, getWindowListeners, getWindows, getWindowStateListeners, hide, isActive, isAlwaysOnTop, isAlwaysOnTopSupported, isAutoRequestFocus, isFocusableWindow, isFocusCycleRoot, isFocused, isLocationByPlatform, isOpaque, isShowing, isValidateRoot, pack, paint, postEvent, processEvent, processWindowFocusEvent, processWindowStateEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, reshape, setAlwaysOnTop, setAutoRequestFocus, setBounds, setBounds, setCursor, setFocusableWindowState, setFocusCycleRoot, setIconImages, setLocation, setLocation, setLocationByPlatform, setLocationRelativeTo, setMinimumSize, setModalExclusionType, setSize, setSize, setType, setVisible, show, toBack, toFrontadd, add, add, add, add, addContainerListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getAlignmentX, getAlignmentY, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalPolicy, getInsets, getLayout, getMaximumSize, getMinimumSize, getMousePosition, getPreferredSize, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, print, printComponents, processContainerEvent, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusTraversalKeys, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setFont, transferFocusDownCycle, validate, validateTreeaction, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, coalesceEvents, contains, contains, createImage, createImage, createVolatileImage, createVolatileImage, disable, disableEvents, dispatchEvent, enable, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBaseline, getBaselineResizeBehavior, getBounds, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphicsConfiguration, getHeight, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocation, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getSize, getTreeLock, getWidth, getX, getY, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isDoubleBuffered, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, prepareImage, prepareImage, printAll, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processKeyEvent, processMouseEvent, processMouseMotionEvent, processMouseWheelEvent, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resize, resize, revalidate, setComponentOrientation, setDropTarget, setEnabled, setFocusable, setFocusTraversalKeysEnabled, setForeground, setIgnoreRepaint, setLocale, setMaximumSize, setName, setPreferredSize, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycleprotected void createDockingGUIFramework()
protected void setDefaultViewPort(java.awt.Component panel,
double x,
double y)
panel - x - y - protected void createDockableDesktop()
protected void addDockingDesktopListeners()
protected void createDockableWholeGenomeScrollPanel(int num_chromosomes)
protected void createWholeGenomePanel(VioletFrameActions frame, GenomicViewSingleContig[] chromosomes_views)
protected java.awt.GridBagConstraints getMultiChromosomesPanelConstraints()
protected void createRegionViewPanel()
protected void createDetailsViewPanel()
protected void createCircularViewPanel()
protected void createSelectionInfoPanel()
protected void createWebBrowserPanel()
protected void createDeNovoTableViewPanel()
protected void createGenericTableViewPanel()
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