aloneinterfaces
Class Interface1

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  aloneinterfaces.Interface
                      aloneinterfaces.Interface1

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.ListSelectionListener

public class Interface1
extends Interface
implements java.awt.event.ActionListener, javax.swing.event.ListSelectionListener

The most complex interface in graphic implementation. Mainly useful to make prediction computing more precisely and permit sequences choice into searching palindromes.
Progression Bar.
Launching prediction.

Author:

Stéfan Engelen (2006), Gabriel Chandesris (2008)

See Also:

Serialized Form

Nested Class Summary

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

javax.swing.JPanel.AccessibleJPanel

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

javax.swing.JComponent.AccessibleJComponent

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.BaselineResizeBehavior, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

Field Summary

private javax.swing.JLabel	aide
private javax.swing.JRadioButton	arnMessager
private javax.swing.JRadioButton	arnStructural
private SequenceListe	autresSequences List of tother sequences.
private Sequence	cible Identification of elements, which algorithm will work on.
private javax.swing.JLabel	cibleChoice
private javax.swing.JTextField	dec
private javax.swing.JLabel	GCeffect
private javax.swing.JLabel	GUeffect
private javax.swing.JLabel	GUGCeffect
private javax.swing.JLabel	homologCharac
private javax.swing.JLabel	homologChoice
private javax.swing.JLabel	homology
private javax.swing.JTextField	incert
private javax.swing.JLabel	indels
private javax.swing.JLabel	l10 private JLabel l9 = new JLabel("Nombre de predictions");
private javax.swing.JLabel	l10_aide
private javax.swing.JLabel	l11
private javax.swing.JLabel	l12
private javax.swing.JLabel	l13
private javax.swing.JLabel	l14
private javax.swing.JLabel	l15
private javax.swing.JLabel	label_critere
private javax.swing.JLabel	label_decalage
private javax.swing.JLabel	label_incertitude
private javax.swing.JLabel	label_lg
private javax.swing.JLabel	label_lg_boucle
private javax.swing.JLabel	label_lg_pal
private javax.swing.JLabel	label_type_arn
private javax.swing.JList	listeCible Graphical list of possible choice of cible sequences.
private javax.swing.JList[]	listeTest Tab of graphical lists of homologuous sequences.
private javax.swing.DefaultListModel	listModelCible
private javax.swing.DefaultListModel	listModelTest
private javax.swing.JRadioButton	longMutation
private javax.swing.JTextField	nbPred
private javax.swing.JRadioButton	plusieursStructures
private javax.swing.JRadioButton	pseudoNoeud
private javax.swing.JTextArea[]	scoreArea
private javax.swing.JScrollPane[]	scoreScroll
private javax.swing.JScrollPane	scrollListeCible Zone où s'affiche la liste des séquances cibles potentielles.
private javax.swing.JScrollPane[]	scrollListeTest Ensemble des listes où s'effectue la sélection des séquences tests.
private BooleanListe	selectionBool Test bool's selection (was a Vector of booleans (selected predictions)).
private IntegerListe[]	selectionInt Test int's selection (was a Vector of table of ints (selected items in prediction)).
private static long	serialVersionUID Interface Serial Number (1).
private javax.swing.JTextField	tailleBoucle
private javax.swing.JTextField	taillePal
private javax.swing.JRadioButton	tauxMutation
private javax.swing.ButtonGroup	typeARN
private javax.swing.ButtonGroup	typeCritere
private javax.swing.JRadioButton[]	unePrediction Tab of selection buttons to mae prediction with selection.

Fields inherited from class aloneinterfaces.Interface

fenetre, monlayout

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

Interface1(AloneProcessus processParent)
Constructeur.

Method Summary

private boolean	actionHelper() This function to rationalize and to factor some items.
void	actionPerformed(java.awt.event.ActionEvent e) Action which depends of item selected in selection menu.
void	ajouteProgressBar(javax.swing.JProgressBar progressBar) To add and vizualise progression bar on this interface.
void	effacer() To remove what interface's items contain.
int	getArnType()
SequenceListe	getAutreSequence()
int	getCritereType()
int	getNumberPredictionMax()
BooleanListe	getSelectionBool()
IntegerListe[]	getSelectionInt()
Sequence	getSequence() One part of the compexty of this class comes from that data is on different objects.
int	getTypeRecherche()
void	initialiser() To initialize interface's items.
void	initialiserToolTipText() To initalize contextual help messages.
boolean	isPlusieursPredictions()
boolean	isRecherchePseudonoeud()
void	retireProgressBar(javax.swing.JProgressBar progressBar) To remove the progression bar.
void	setAutreSequence(SequenceListe autresSequences)
void	setInterface() Not active here.
void	setListModelCible(SequenceListe tabAdnTest) To compute a JList containing only the names of Sequence's.
void	setListModelTest(Sequence cible, SequenceListe selection, int longueur) Visualization of homologuous sequences selection.
void	setSequence(Sequence sequence)
void	setSequence(java.lang.String nom, java.lang.String sequence)
void	valueChanged(javax.swing.event.ListSelectionEvent e)

Methods inherited from class aloneinterfaces.Interface

getDacodac, getFenetre, getMenu, getMonlayout, getProcessusParent, setDacodac, setFenetre, setMenu, setMonlayout, setProcessusParent

Methods inherited from class javax.swing.JPanel

getAccessibleContext, getUI, getUIClassID, paramString, setUI, 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, 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

Field Detail

serialVersionUID

private static final long serialVersionUID

Interface Serial Number (1).

See Also:

Constant Field Values

cible

private Sequence cible

Identification of elements, which algorithm will work on.
Paramter. Other elements have to be getted in graphical interface or when execution.

See Also:

Sequence

autresSequences

private SequenceListe autresSequences

List of tother sequences.

See Also:

SequenceListe

selectionInt

private IntegerListe[] selectionInt

Test int's selection (was a Vector of table of ints (selected items in prediction)).

selectionBool

private BooleanListe selectionBool

Test bool's selection (was a Vector of booleans (selected predictions)).

listeCible

private javax.swing.JList listeCible

Graphical list of possible choice of cible sequences.

listModelCible

private javax.swing.DefaultListModel listModelCible

listeTest

private javax.swing.JList[] listeTest

Tab of graphical lists of homologuous sequences.

unePrediction

private javax.swing.JRadioButton[] unePrediction

Tab of selection buttons to mae prediction with selection.

listModelTest

private javax.swing.DefaultListModel listModelTest

scoreArea

private javax.swing.JTextArea[] scoreArea

scoreScroll

private javax.swing.JScrollPane[] scoreScroll

dec

private javax.swing.JTextField dec

incert

private javax.swing.JTextField incert

nbPred

private javax.swing.JTextField nbPred

tauxMutation

private javax.swing.JRadioButton tauxMutation

longMutation

private javax.swing.JRadioButton longMutation

typeCritere

private javax.swing.ButtonGroup typeCritere

arnStructural

private javax.swing.JRadioButton arnStructural

arnMessager

private javax.swing.JRadioButton arnMessager

typeARN

private javax.swing.ButtonGroup typeARN

plusieursStructures

private javax.swing.JRadioButton plusieursStructures

pseudoNoeud

private javax.swing.JRadioButton pseudoNoeud

tailleBoucle

private javax.swing.JTextField tailleBoucle

taillePal

private javax.swing.JTextField taillePal

scrollListeCible

private javax.swing.JScrollPane scrollListeCible

Zone où s'affiche la liste des séquances cibles potentielles.

scrollListeTest

private javax.swing.JScrollPane[] scrollListeTest

Ensemble des listes où s'effectue la sélection des séquences tests.

cibleChoice

private javax.swing.JLabel cibleChoice

aide

private javax.swing.JLabel aide

homologChoice

private javax.swing.JLabel homologChoice

homologCharac

private javax.swing.JLabel homologCharac

GCeffect

private javax.swing.JLabel GCeffect

GUeffect

private javax.swing.JLabel GUeffect

GUGCeffect

private javax.swing.JLabel GUGCeffect

indels

private javax.swing.JLabel indels

homology

private javax.swing.JLabel homology

l10

private javax.swing.JLabel l10

private JLabel l9 = new JLabel("Nombre de predictions");

l10_aide

private javax.swing.JLabel l10_aide

l11

private javax.swing.JLabel l11

l12

private javax.swing.JLabel l12

l13

private javax.swing.JLabel l13

l14

private javax.swing.JLabel l14

l15

private javax.swing.JLabel l15

label_lg

private javax.swing.JLabel label_lg

label_lg_boucle

private javax.swing.JLabel label_lg_boucle

label_lg_pal

private javax.swing.JLabel label_lg_pal

label_decalage

private javax.swing.JLabel label_decalage

label_incertitude

private javax.swing.JLabel label_incertitude

label_critere

private javax.swing.JLabel label_critere

label_type_arn

private javax.swing.JLabel label_type_arn

Constructor Detail

Interface1

public Interface1(AloneProcessus processParent)

Constructeur.

Parameters:

processParent - AloneProcessus

Method Detail

getSequence

public Sequence getSequence()

One part of the compexty of this class comes from that data is on different objects. Part of centralization here (thanks to Object Oriented language)...

Returns:

Sequence (cible sequence)

getAutreSequence

public SequenceListe getAutreSequence()

getSelectionInt

public IntegerListe[] getSelectionInt()

getSelectionBool

public BooleanListe getSelectionBool()

getTypeRecherche

public int getTypeRecherche()

getCritereType

public int getCritereType()

getArnType

public int getArnType()

isRecherchePseudonoeud

public boolean isRecherchePseudonoeud()

isPlusieursPredictions

public boolean isPlusieursPredictions()

getNumberPredictionMax

public int getNumberPredictionMax()

setSequence

public void setSequence(Sequence sequence)

setSequence

public void setSequence(java.lang.String nom,
                        java.lang.String sequence)

setAutreSequence

public void setAutreSequence(SequenceListe autresSequences)

setListModelCible

public void setListModelCible(SequenceListe tabAdnTest)

To compute a JList containing only the names of Sequence's.

Parameters:

tabAdnTest - SequenceListe

setListModelTest

public void setListModelTest(Sequence cible,
                             SequenceListe selection,
                             int longueur)

Visualization of homologuous sequences selection. And visualization of computing between cible sequence choosen and whole selection fo others...

Parameters:

cible - Sequence

selection - SequenceListe

longueur - int (lengt of cible)

ajouteProgressBar

public void ajouteProgressBar(javax.swing.JProgressBar progressBar)

To add and vizualise progression bar on this interface.

Parameters:

progressBar - JProgressBar

retireProgressBar

public void retireProgressBar(javax.swing.JProgressBar progressBar)

To remove the progression bar.

Parameters:

progressBar - JProgressBar

initialiserToolTipText

public void initialiserToolTipText()

To initalize contextual help messages.

Overrides:

initialiserToolTipText in class Interface

See Also:

Interface.initialiserToolTipText(), aide, l10_aide, listeCible, homologChoice, tauxMutation, longMutation, plusieursStructures, pseudoNoeud, nbPred, dec, label_decalage, incert, label_incertitude, tailleBoucle, taillePal, homologChoice, homologCharac, GUeffect, GUGCeffect, indels, homology

initialiser

public void initialiser()

Description copied from class: Interface

To initialize interface's items.

Overrides:

initialiser in class Interface

effacer

public void effacer()

Description copied from class: Interface

To remove what interface's items contain.

Specified by:

effacer in class Interface

See Also:

Interface.initialiser()

setInterface

public void setInterface()

Not active here. To fix how works the interface.

Specified by:

setInterface in class Interface

See Also:

Interface0.setInterface(String), Interface3.setInterface(modele.Sequence, modele.SequenceListe[], modele.PalindromeListe), Interface5.setInterface(modele.Sequence, modele.SequenceListe[], int, int, int, int, int), Interface7.setInterface(modele.Sequence, modele.SequenceListe[], int, int, int), Interface9.setInterface(String, String, double), Interface12.setInterface(modele.SequenceListe, modele.Sequence, modele.Palindrome), AloneProcessus.avance()

actionHelper

private boolean actionHelper()

This function to rationalize and to factor some items.

Returns:

boolean

See Also:

actionPerformed(ActionEvent)

actionPerformed

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

Description copied from class: Interface

Action which depends of item selected in selection menu.

Specified by:

actionPerformed in interface java.awt.event.ActionListener

Overrides:

actionPerformed in class Interface

valueChanged

public void valueChanged(javax.swing.event.ListSelectionEvent e)

Specified by:

valueChanged in interface javax.swing.event.ListSelectionListener