de.unibi.techfak.jpredictor.gui
Class MotifMaker

java.lang.Object
  java.awt.Component
      java.awt.Container
          java.awt.Window
              java.awt.Dialog
                  javax.swing.JDialog
                      de.unibi.techfak.jpredictor.gui.MotifMaker

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible, javax.swing.event.ChangeListener, javax.swing.RootPaneContainer, javax.swing.WindowConstants

public class MotifMaker
extends javax.swing.JDialog
implements java.awt.event.ActionListener, javax.swing.event.ChangeListener

Dialog for editing motifs.

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class javax.swing.JDialog

javax.swing.JDialog.AccessibleJDialog

Nested classes/interfaces inherited from class java.awt.Dialog

java.awt.Dialog.AccessibleAWTDialog

Nested classes/interfaces inherited from class java.awt.Window

java.awt.Window.AccessibleAWTWindow

Nested classes/interfaces inherited from class java.awt.Container

java.awt.Container.AccessibleAWTContainer

Nested classes/interfaces inherited from class java.awt.Component

java.awt.Component.AccessibleAWTComponent, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

Field Summary

private int	ACTUAL_PANE The actual selected tabbed pane.
(package private) java.lang.Double[][]	backData The background probabilities for the table in the PSSM tab.
(package private) javax.swing.JButton	bCancel
(package private) javax.swing.JButton	bClearAllFields
(package private) javax.swing.JButton	bClearMotifFields
(package private) javax.swing.JButton	bClearMotifList
(package private) javax.swing.JButton	bClearMotifSel
(package private) javax.swing.JButton	bDoubleBuild
(package private) javax.swing.JButton	bEditMotif
(package private) javax.swing.JButton	bMultiAddDist
(package private) javax.swing.JButton	bMultiClr
(package private) javax.swing.JButton	bMultiDel
(package private) javax.swing.JButton	bMultiGT
(package private) javax.swing.JButton	bMultiGTGT
(package private) javax.swing.JButton	bMultiLT
(package private) javax.swing.JButton	bOk Global buttons list.
(package private) javax.swing.JButton	bOverwriteMotif
(package private) javax.swing.JButton	bPastePSPM
(package private) javax.swing.JButton	bPastePSSM
(package private) javax.swing.JButton	bRecalcPSPM
(package private) javax.swing.JButton	bRecalcPSSM
(package private) javax.swing.JButton	bRegisterMotif
(package private) javax.swing.JButton	bRemoveMotif
(package private) javax.swing.JButton	bReplaceMotif
(package private) java.lang.String[]	buttonTexts
(package private) javax.swing.JComboBox	cbAddMotifsList Contains a list of motif lists to be added, just like 'Add PREdictor motifs'.
(package private) java.lang.String[]	cbAddMotifsListTexts The strings for the combo box to insert.
(package private) javax.swing.JCheckBox	cbSelf The checkboxes and textfields shown in the multimotif pane
(package private) boolean	generatingBackground If the actual PSSM was generated using a valid background, this variable is set to true.
(package private) java.lang.String	generatingSequences The sequences pasted for the PSPM and PSSM motif.
(package private) MotifList	initialMotifList The initial MotifList, this class was created with.
(package private) static int	MAX_TABLE_LENGTH The maximal length of the PSPM or PSSM tables.
(package private) java.awt.Window	owner The parent of this JDialog.
(package private) static int	PANE_COUNT
(package private) static int	PANE_MULTI
(package private) static int	PANE_PSPM
(package private) static int	PANE_PSSM
(package private) static int	PANE_REGE
(package private) static int	PANE_SEQU Number of tabbed panes in the field
(package private) java.lang.Double[][]	rawDataProbs The raw data for the tables in the PSPM tab.
(package private) java.lang.Double[][]	rawDataScores The raw data for the tables either in the PSSM tab.
(package private) java.lang.Integer[]	rawPosProbs The positions in the PSPM table.
(package private) java.lang.Integer[]	rawPosScores The positions in the PSSM table.
(package private) javax.swing.JRadioButton	rbSDPSPMBoth
(package private) javax.swing.JRadioButton	rbSDPSPMMinus
(package private) javax.swing.JRadioButton	rbSDPSPMPlus
(package private) javax.swing.JRadioButton	rbSDPSSMBoth
(package private) javax.swing.JRadioButton	rbSDPSSMMinus
(package private) javax.swing.JRadioButton	rbSDPSSMPlus
(package private) javax.swing.JRadioButton	rbSDRegEBoth
(package private) javax.swing.JRadioButton	rbSDRegEMinus
(package private) javax.swing.JRadioButton	rbSDRegEPlus
(package private) javax.swing.JRadioButton	rbSDSequBoth
(package private) javax.swing.JRadioButton	rbSDSequMinus
(package private) javax.swing.JRadioButton	rbSDSequPlus The check boxes for the search direction
(package private) boolean	stateChangedByUser If the tabbed pane is selected by the user and not by the methods of this class.
(package private) javax.swing.JTabbedPane	tabbedPane The global tabbed pane.
(package private) javax.swing.JTable	tablePSPM The both tables, one for PSPM and one for PSSM
(package private) javax.swing.JTable	tablePSSM
(package private) javax.swing.JTextField[]	tfDesc
(package private) javax.swing.JTextField	tfErrorsRegE
(package private) javax.swing.JTextField	tfErrorsSequ
(package private) javax.swing.JTextField	tfMaxDist
(package private) javax.swing.JTextField	tfMinDist
(package private) javax.swing.JTextField	tfMotifRegE
(package private) javax.swing.JTextField	tfMotifSequ for SequenceMotif and RegExpMotif pane
(package private) javax.swing.JTextField[]	tfName For all tabbed panes: name, description, weight
(package private) javax.swing.JTextField	tfThresholdPSPM for PSPM motif pane and PSSM motif pane
(package private) javax.swing.JTextField	tfThresholdPSSM
(package private) javax.swing.JTextField[]	tfWeight
private java.awt.Toolkit	toolkit A toolkit to do something useful, like beep
(package private) MotifTree	treeView The tree of motifs to the left side.
(package private) MotifDistanceTree	treeViewMultiMotif The tree of motifs in the multi motif panel.

Fields inherited from class javax.swing.JDialog

accessibleContext, rootPane, rootPaneCheckingEnabled

Fields inherited from class java.awt.Component

BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT

Fields inherited from interface javax.swing.WindowConstants

DISPOSE_ON_CLOSE, DO_NOTHING_ON_CLOSE, EXIT_ON_CLOSE, HIDE_ON_CLOSE

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

MotifMaker(java.awt.Dialog owner, MotifList ml)
Constructor, that takes a motif list, which is used to initialize the listing window.

MotifMaker(java.awt.Frame owner, MotifList ml)
Constructor, that takes a motif list, which is used to initialize the listing window.

MotifMaker(MotifList ml)
Simple constructor.

Method Summary

void	actionPerformed(java.awt.event.ActionEvent e) Handles the events thrown when a button is pressed.
protected void	createAndShowGUI(MotifList ml) Creates the GUI for the MotifMaker.
MotifList	getMotifList() Returns the same MotifList as was given the constructor, or as was given to the setMotifList(MotifList)-method, respectively.
private javax.swing.JPanel	getPanelMultiMotif(MouseOverHintManager hints) Creates and returns the panel for the MultiMotif
private javax.swing.JPanel	getPanelPSPM(MouseOverHintManager hints) Creates and returns the panel for the PSPM-motif.
private javax.swing.JPanel	getPanelPSSM(MouseOverHintManager hints) Creates and returns the panel for the PSSM-motif
private javax.swing.JPanel	getPanelRegExpMotif(MouseOverHintManager hints) Creates and returns the panel for the regular expression motif
private javax.swing.JPanel	getPanelSequenceMotif(MouseOverHintManager hints) Creates and returns the panel for the sequence motif
private void	setFieldsForMultiMotif(javax.swing.JTabbedPane pane, MultiMotif motif) Sets the already initialized fields for the MultiMotif.
private void	setFieldsForPSPMotif(javax.swing.JTabbedPane pane, PSPMotif motif) Sets the already initialized fields for the PSPM motif.
private void	setFieldsForPSSMotif(javax.swing.JTabbedPane pane, PSSMotif motif) Sets the already initialized fields for the PSSM motif.
private void	setFieldsForRegExpMotif(javax.swing.JTabbedPane pane, RegularExpressionMotif motif) Sets the already initialized fields for the regular expression motif.
private void	setFieldsForSequenceMotif(javax.swing.JTabbedPane pane, SequenceMotif motif) Sets the already initialized fields for the sequence motif.
void	setMotifList(MotifList ml) Clears the tree view and adds the motifs to the tree.
void	stateChanged(javax.swing.event.ChangeEvent e) Handles the events thrown when a tabbed pane is changed.

Methods inherited from class javax.swing.JDialog

addImpl, createRootPane, dialogInit, getAccessibleContext, getContentPane, getDefaultCloseOperation, getGlassPane, getJMenuBar, getLayeredPane, getRootPane, isDefaultLookAndFeelDecorated, isRootPaneCheckingEnabled, paramString, processWindowEvent, remove, setContentPane, setDefaultCloseOperation, setDefaultLookAndFeelDecorated, setGlassPane, setJMenuBar, setLayeredPane, setLayout, setRootPane, setRootPaneCheckingEnabled, update

Methods inherited from class java.awt.Dialog

addNotify, getTitle, hide, isModal, isResizable, isUndecorated, setModal, setResizable, setTitle, setUndecorated, show

Methods inherited from class java.awt.Window

addPropertyChangeListener, addPropertyChangeListener, addWindowFocusListener, addWindowListener, addWindowStateListener, applyResourceBundle, applyResourceBundle, createBufferStrategy, createBufferStrategy, dispose, finalize, getBufferStrategy, getFocusableWindowState, getFocusCycleRootAncestor, getFocusOwner, getFocusTraversalKeys, getGraphicsConfiguration, getInputContext, getListeners, getLocale, getMostRecentFocusOwner, getOwnedWindows, getOwner, getToolkit, getWarningString, getWindowFocusListeners, getWindowListeners, getWindowStateListeners, isActive, isAlwaysOnTop, isFocusableWindow, isFocusCycleRoot, isFocused, isLocationByPlatform, isShowing, pack, postEvent, processEvent, processWindowFocusEvent, processWindowStateEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, setAlwaysOnTop, setBounds, setCursor, setFocusableWindowState, setFocusCycleRoot, setLocationByPlatform, setLocationRelativeTo, toBack, toFront

Methods inherited from class java.awt.Container

add, 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, paint, paintComponents, preferredSize, print, printComponents, processContainerEvent, remove, removeAll, removeContainerListener, removeNotify, setComponentZOrder, setFocusTraversalKeys, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setFont, 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, contains, createImage, createImage, createVolatileImage, createVolatileImage, disable, disableEvents, dispatchEvent, enable, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBackground, getBounds, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphics, 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, isOpaque, 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, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, repaint, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, reshape, resize, resize, setBackground, setBounds, setComponentOrientation, setDropTarget, setEnabled, setFocusable, setFocusTraversalKeysEnabled, setForeground, setIgnoreRepaint, setLocale, setLocation, setLocation, setMaximumSize, setMinimumSize, setName, setPreferredSize, setSize, setSize, setVisible, show, size, toString, transferFocus, transferFocusUpCycle

Methods inherited from class java.lang.Object

clone, equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

toolkit

private java.awt.Toolkit toolkit

A toolkit to do something useful, like beep

owner

java.awt.Window owner

The parent of this JDialog.

buttonTexts

java.lang.String[] buttonTexts

bOk

javax.swing.JButton bOk

Global buttons list.

bCancel

javax.swing.JButton bCancel

bEditMotif

javax.swing.JButton bEditMotif

bRemoveMotif

javax.swing.JButton bRemoveMotif

bClearMotifList

javax.swing.JButton bClearMotifList

bClearMotifSel

javax.swing.JButton bClearMotifSel

bReplaceMotif

javax.swing.JButton bReplaceMotif

bRegisterMotif

javax.swing.JButton bRegisterMotif

bOverwriteMotif

javax.swing.JButton bOverwriteMotif

bClearMotifFields

javax.swing.JButton bClearMotifFields

bClearAllFields

javax.swing.JButton bClearAllFields

bRecalcPSPM

javax.swing.JButton bRecalcPSPM

bRecalcPSSM

javax.swing.JButton bRecalcPSSM

bPastePSPM

javax.swing.JButton bPastePSPM

bPastePSSM

javax.swing.JButton bPastePSSM

bMultiGT

javax.swing.JButton bMultiGT

bMultiGTGT

javax.swing.JButton bMultiGTGT

bMultiLT

javax.swing.JButton bMultiLT

bMultiDel

javax.swing.JButton bMultiDel

bMultiClr

javax.swing.JButton bMultiClr

bDoubleBuild

javax.swing.JButton bDoubleBuild

bMultiAddDist

javax.swing.JButton bMultiAddDist

rbSDSequPlus

javax.swing.JRadioButton rbSDSequPlus

The check boxes for the search direction

rbSDRegEPlus

javax.swing.JRadioButton rbSDRegEPlus

rbSDPSPMPlus

javax.swing.JRadioButton rbSDPSPMPlus

rbSDPSSMPlus

javax.swing.JRadioButton rbSDPSSMPlus

rbSDSequMinus

javax.swing.JRadioButton rbSDSequMinus

rbSDRegEMinus

javax.swing.JRadioButton rbSDRegEMinus

rbSDPSPMMinus

javax.swing.JRadioButton rbSDPSPMMinus

rbSDPSSMMinus

javax.swing.JRadioButton rbSDPSSMMinus

rbSDSequBoth

javax.swing.JRadioButton rbSDSequBoth

rbSDRegEBoth

javax.swing.JRadioButton rbSDRegEBoth

rbSDPSPMBoth

javax.swing.JRadioButton rbSDPSPMBoth

rbSDPSSMBoth

javax.swing.JRadioButton rbSDPSSMBoth

tablePSPM

javax.swing.JTable tablePSPM

The both tables, one for PSPM and one for PSSM

tablePSSM

javax.swing.JTable tablePSSM

PANE_SEQU

static final int PANE_SEQU

Number of tabbed panes in the field

See Also:

Constant Field Values

PANE_REGE

static final int PANE_REGE

See Also:

Constant Field Values

PANE_PSPM

static final int PANE_PSPM

See Also:

Constant Field Values

PANE_PSSM

static final int PANE_PSSM

See Also:

Constant Field Values

PANE_MULTI

static final int PANE_MULTI

See Also:

Constant Field Values

PANE_COUNT

static final int PANE_COUNT

See Also:

Constant Field Values

ACTUAL_PANE

private int ACTUAL_PANE

The actual selected tabbed pane.

tfName

javax.swing.JTextField[] tfName

For all tabbed panes: name, description, weight

tfDesc

javax.swing.JTextField[] tfDesc

tfWeight

javax.swing.JTextField[] tfWeight

tfMotifSequ

javax.swing.JTextField tfMotifSequ

for SequenceMotif and RegExpMotif pane

tfMotifRegE

javax.swing.JTextField tfMotifRegE

tfErrorsSequ

javax.swing.JTextField tfErrorsSequ

tfErrorsRegE

javax.swing.JTextField tfErrorsRegE

tfThresholdPSPM

javax.swing.JTextField tfThresholdPSPM

for PSPM motif pane and PSSM motif pane

tfThresholdPSSM

javax.swing.JTextField tfThresholdPSSM

cbSelf

javax.swing.JCheckBox cbSelf

The checkboxes and textfields shown in the multimotif pane

tfMinDist

javax.swing.JTextField tfMinDist

tfMaxDist

javax.swing.JTextField tfMaxDist

tabbedPane

javax.swing.JTabbedPane tabbedPane

The global tabbed pane.

treeView

MotifTree treeView

The tree of motifs to the left side.

treeViewMultiMotif

MotifDistanceTree treeViewMultiMotif

The tree of motifs in the multi motif panel.

cbAddMotifsListTexts

java.lang.String[] cbAddMotifsListTexts

The strings for the combo box to insert.

cbAddMotifsList

javax.swing.JComboBox cbAddMotifsList

Contains a list of motif lists to be added, just like 'Add PREdictor motifs'.

MAX_TABLE_LENGTH

static final int MAX_TABLE_LENGTH

The maximal length of the PSPM or PSSM tables.

See Also:

Constant Field Values

rawPosProbs

java.lang.Integer[] rawPosProbs

The positions in the PSPM table.

rawPosScores

java.lang.Integer[] rawPosScores

The positions in the PSSM table.

rawDataScores

java.lang.Double[][] rawDataScores

The raw data for the tables either in the PSSM tab. All positions are scores.

rawDataProbs

java.lang.Double[][] rawDataProbs

The raw data for the tables in the PSPM tab. All positions are probabilities.

backData

java.lang.Double[][] backData

The background probabilities for the table in the PSSM tab.

initialMotifList

MotifList initialMotifList

The initial MotifList, this class was created with. Set in the constructor. This list is only changed, if the user clicks on the exit/ok-button.

generatingSequences

java.lang.String generatingSequences

The sequences pasted for the PSPM and PSSM motif. If the tables are edited, this sequences are set to null again.

generatingBackground

boolean generatingBackground

If the actual PSSM was generated using a valid background, this variable is set to true. When registering the motif, the background can be saved together with the motif. It is used only together with the generatingSequences.

stateChangedByUser

boolean stateChangedByUser

If the tabbed pane is selected by the user and not by the methods of this class.

Constructor Detail

MotifMaker

public MotifMaker(MotifList ml)

Simple constructor. This dialog will have no owner.

Parameters:

ml - The initial MotifList.

MotifMaker

public MotifMaker(java.awt.Frame owner,
                  MotifList ml)

Constructor, that takes a motif list, which is used to initialize the listing window.

Parameters:

owner - The parent frame.

ml - The initial MotifList.

MotifMaker

public MotifMaker(java.awt.Dialog owner,
                  MotifList ml)

Constructor, that takes a motif list, which is used to initialize the listing window.

Parameters:

owner - The parent dialog.

ml - The initial MotifList.

Method Detail

createAndShowGUI

protected void createAndShowGUI(MotifList ml)

Creates the GUI for the MotifMaker.

Parameters:

ml - The initial MotifList.

getPanelSequenceMotif

private javax.swing.JPanel getPanelSequenceMotif(MouseOverHintManager hints)

Creates and returns the panel for the sequence motif

Parameters:

hints - The hint manager to register components and texthints.

Returns:

The panel to show all componentes for the sequence motif.

getPanelRegExpMotif

private javax.swing.JPanel getPanelRegExpMotif(MouseOverHintManager hints)

Creates and returns the panel for the regular expression motif

Parameters:

hints - The hint manager to register components and texthints.

Returns:

The panel to show all componentes for the regexp motif.

getPanelPSPM

private javax.swing.JPanel getPanelPSPM(MouseOverHintManager hints)

Creates and returns the panel for the PSPM-motif.

Parameters:

hints - The hint manager to register components and texthints.

Returns:

The panel to show all componentes for the PSPM motif.

getPanelPSSM

private javax.swing.JPanel getPanelPSSM(MouseOverHintManager hints)

Creates and returns the panel for the PSSM-motif

Parameters:

hints - The hint manager to register components and texthints.

Returns:

The panel to show all componentes for the PSSM motif.

getPanelMultiMotif

private javax.swing.JPanel getPanelMultiMotif(MouseOverHintManager hints)

Creates and returns the panel for the MultiMotif

Parameters:

hints - The hint manager to register components and texthints.

Returns:

The panel to show all componentes for the multi motif.

setFieldsForSequenceMotif

private void setFieldsForSequenceMotif(javax.swing.JTabbedPane pane,
                                       SequenceMotif motif)

Sets the already initialized fields for the sequence motif.

Parameters:

pane - The JTabbedPane, which holds the fields.

motif - The sequence motif.

setFieldsForRegExpMotif

private void setFieldsForRegExpMotif(javax.swing.JTabbedPane pane,
                                     RegularExpressionMotif motif)

Sets the already initialized fields for the regular expression motif.

Parameters:

pane - The JTabbedPane, which holds the fields.

motif - The regular expression motif.

setFieldsForPSPMotif

private void setFieldsForPSPMotif(javax.swing.JTabbedPane pane,
                                  PSPMotif motif)

Sets the already initialized fields for the PSPM motif.

Parameters:

pane - The JTabbedPane, which holds the fields.

motif - The PSPM motif.

setFieldsForPSSMotif

private void setFieldsForPSSMotif(javax.swing.JTabbedPane pane,
                                  PSSMotif motif)

Sets the already initialized fields for the PSSM motif.

Parameters:

pane - The JTabbedPane, which holds the fields.

motif - The PSSM motif.

setFieldsForMultiMotif

private void setFieldsForMultiMotif(javax.swing.JTabbedPane pane,
                                    MultiMotif motif)

Sets the already initialized fields for the MultiMotif.

Parameters:

pane - The JTabbedPane, which holds the fields.

motif - The MultiMotif.

actionPerformed

public void actionPerformed(java.awt.event.ActionEvent e)

Handles the events thrown when a button is pressed. Must not be called from others than the event dispatching thread due to unintended behaviour.

Specified by:

actionPerformed in interface java.awt.event.ActionListener

Parameters:

e - The event description.

stateChanged

public void stateChanged(javax.swing.event.ChangeEvent e)

Handles the events thrown when a tabbed pane is changed. Must not be called from others than the event dispatching thread due to unintended behaviour.

Specified by:

stateChanged in interface javax.swing.event.ChangeListener

Parameters:

e - The event description.

setMotifList

public void setMotifList(MotifList ml)

Clears the tree view and adds the motifs to the tree. Note, that the given MotifList is not changed unless the user clicks the ok-Button. In case a null-value is given, the final list of motifs can be obtained by calling the getMotifList()-method.

Parameters:

ml - The list of motifs to add to the tree. If it is null, a new, empty list is created and used as initial list.

See Also:

getMotifList()

getMotifList

public MotifList getMotifList()

Returns the same MotifList as was given the constructor, or as was given to the setMotifList(MotifList)-method, respectively. Internally this class works with a separate MotifList, and thus the given list of motifs is only updated from the separate one, if the user clicked the 'ok'-button. This also means, that you cannot obtain a so-far changed MotifList while this dialog is shown, rather you have to wait until this dialog was disposed.
Furthermore, this method should only be called, if the constructor was called with MotifList = null, because the given list of motifs is anyway updated, as soon as the user clicked 'ok'.

Returns:

The initial motif list.

See Also:

setMotifList(MotifList)