org.biojava.bio.gui
Class FeatureTree

java.lang.Object
  extended by java.awt.Component
      extended by java.awt.Container
          extended by javax.swing.JComponent
              extended by javax.swing.JTree
                  extended by org.biojava.bio.gui.FeatureTree
All Implemented Interfaces:
ImageObserver, MenuContainer, Serializable, Accessible, Scrollable

public class FeatureTree
extends JTree

FeatureTree is GUI tree to display the features and annotations of the sequences in a SequenceDB Nested Features are displayed as expandable leaves.

Copyright: Copyright (c) 2002

Company: AgResearch

Version:
1.0
Author:
Mark Schreiber
See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from class javax.swing.JTree
JTree.AccessibleJTree, JTree.DropLocation, JTree.DynamicUtilTreeNode, JTree.EmptySelectionModel, JTree.TreeModelHandler, JTree.TreeSelectionRedirector
 
Nested classes/interfaces inherited from class javax.swing.JComponent
JComponent.AccessibleJComponent
 
Nested classes/interfaces inherited from class java.awt.Container
Container.AccessibleAWTContainer
 
Nested classes/interfaces inherited from class java.awt.Component
Component.AccessibleAWTComponent, Component.BaselineResizeBehavior, Component.BltBufferStrategy, Component.FlipBufferStrategy
 
Field Summary
 
Fields inherited from class javax.swing.JTree
ANCHOR_SELECTION_PATH_PROPERTY, CELL_EDITOR_PROPERTY, CELL_RENDERER_PROPERTY, cellEditor, cellRenderer, editable, EDITABLE_PROPERTY, EXPANDS_SELECTED_PATHS_PROPERTY, INVOKES_STOP_CELL_EDITING_PROPERTY, invokesStopCellEditing, LARGE_MODEL_PROPERTY, largeModel, LEAD_SELECTION_PATH_PROPERTY, ROOT_VISIBLE_PROPERTY, rootVisible, ROW_HEIGHT_PROPERTY, rowHeight, SCROLLS_ON_EXPAND_PROPERTY, scrollsOnExpand, SELECTION_MODEL_PROPERTY, selectionModel, selectionRedirector, SHOWS_ROOT_HANDLES_PROPERTY, showsRootHandles, TOGGLE_CLICK_COUNT_PROPERTY, toggleClickCount, TREE_MODEL_PROPERTY, treeModel, treeModelListener, VISIBLE_ROW_COUNT_PROPERTY, visibleRowCount
 
Fields inherited from class javax.swing.JComponent
accessibleContext, listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW
 
Fields inherited from class java.awt.Component
BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT
 
Fields inherited from interface java.awt.image.ImageObserver
ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH
 
Constructor Summary
FeatureTree()
          Create a new FeatureTree
 
Method Summary
 String convertValueToText(Object value, boolean selected, boolean expanded, boolean leaf, int row, boolean hasFocus)
          Labels Sequence objects with their name, Annotations with the tag Annotations, Features with the tag Features and other objects with the toString value.
 void setSequenceDB(SequenceDB db)
          Use this method to provide the sequences for the tree to work with.
 
Methods inherited from class javax.swing.JTree
addSelectionInterval, addSelectionPath, addSelectionPaths, addSelectionRow, addSelectionRows, addTreeExpansionListener, addTreeSelectionListener, addTreeWillExpandListener, cancelEditing, clearSelection, clearToggledPaths, collapsePath, collapseRow, createTreeModel, createTreeModelListener, expandPath, expandRow, fireTreeCollapsed, fireTreeExpanded, fireTreeWillCollapse, fireTreeWillExpand, fireValueChanged, getAccessibleContext, getAnchorSelectionPath, getCellEditor, getCellRenderer, getClosestPathForLocation, getClosestRowForLocation, getDefaultTreeModel, getDescendantToggledPaths, getDragEnabled, getDropLocation, getDropMode, getEditingPath, getExpandedDescendants, getExpandsSelectedPaths, getInvokesStopCellEditing, getLastSelectedPathComponent, getLeadSelectionPath, getLeadSelectionRow, getMaxSelectionRow, getMinSelectionRow, getModel, getNextMatch, getPathBetweenRows, getPathBounds, getPathForLocation, getPathForRow, getPreferredScrollableViewportSize, getRowBounds, getRowCount, getRowForLocation, getRowForPath, getRowHeight, getScrollableBlockIncrement, getScrollableTracksViewportHeight, getScrollableTracksViewportWidth, getScrollableUnitIncrement, getScrollsOnExpand, getSelectionCount, getSelectionModel, getSelectionPath, getSelectionPaths, getSelectionRows, getShowsRootHandles, getToggleClickCount, getToolTipText, getTreeExpansionListeners, getTreeSelectionListeners, getTreeWillExpandListeners, getUI, getUIClassID, getVisibleRowCount, hasBeenExpanded, isCollapsed, isCollapsed, isEditable, isEditing, isExpanded, isExpanded, isFixedRowHeight, isLargeModel, isPathEditable, isPathSelected, isRootVisible, isRowSelected, isSelectionEmpty, isVisible, makeVisible, paramString, removeDescendantSelectedPaths, removeDescendantToggledPaths, removeSelectionInterval, removeSelectionPath, removeSelectionPaths, removeSelectionRow, removeSelectionRows, removeTreeExpansionListener, removeTreeSelectionListener, removeTreeWillExpandListener, scrollPathToVisible, scrollRowToVisible, setAnchorSelectionPath, setCellEditor, setCellRenderer, setDragEnabled, setDropMode, setEditable, setExpandedState, setExpandsSelectedPaths, setInvokesStopCellEditing, setLargeModel, setLeadSelectionPath, setModel, setRootVisible, setRowHeight, setScrollsOnExpand, setSelectionInterval, setSelectionModel, setSelectionPath, setSelectionPaths, setSelectionRow, setSelectionRows, setShowsRootHandles, setToggleClickCount, setUI, setVisibleRowCount, startEditingAtPath, stopEditing, treeDidChange, updateUI
 
Methods inherited from class javax.swing.JComponent
addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPopupLocation, getPreferredSize, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, paintComponent, paintImmediately, paintImmediately, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setComponentPopupMenu, setDebugGraphicsOptions, setDefaultLocale, setDoubleBuffered, setEnabled, setFocusTraversalKeys, setFont, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, update
 
Methods inherited from class java.awt.Container
add, add, add, add, add, addContainerListener, addImpl, addPropertyChangeListener, addPropertyChangeListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalKeys, getFocusTraversalPolicy, getLayout, getMousePosition, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, printComponents, processContainerEvent, processEvent, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, transferFocusBackward, transferFocusDownCycle, validate, validateTree
 
Methods inherited from class java.awt.Component
action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, coalesceEvents, contains, createImage, createImage, createVolatileImage, createVolatileImage, disableEvents, dispatchEvent, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBackground, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getForeground, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocale, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, hide, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isShowing, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, postEvent, prepareImage, prepareImage, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusUpCycle
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Constructor Detail

FeatureTree

public FeatureTree()
Create a new FeatureTree

Method Detail

setSequenceDB

public void setSequenceDB(SequenceDB db)
                   throws BioException
Use this method to provide the sequences for the tree to work with.

Parameters:
db - A database of Sequences to display
Throws:
BioException - if information cannot be retrieved from db

convertValueToText

public String convertValueToText(Object value,
                                 boolean selected,
                                 boolean expanded,
                                 boolean leaf,
                                 int row,
                                 boolean hasFocus)
Labels Sequence objects with their name, Annotations with the tag Annotations, Features with the tag Features and other objects with the toString value.

Overrides:
convertValueToText in class JTree


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