Class PopupCondChooser

java.lang.Object
  |
  +--java.awt.Component
        |
        +--java.awt.Container
              |
              +--java.awt.Window
                    |
                    +--java.awt.Frame
                          |
                          +--PopupCondChooser

All Implemented Interfaces:

javax.accessibility.Accessible, java.awt.event.ActionListener, java.util.EventListener, java.awt.image.ImageObserver, java.awt.event.ItemListener, java.awt.MenuContainer, java.io.Serializable, java.awt.event.WindowListener

public class PopupCondChooser

extends java.awt.Frame

implements java.awt.event.ActionListener, java.awt.event.WindowListener, java.awt.event.ItemListener

Class PopupCondChooser - GUI to allow users to associate conditions with samples, define parameters of conditions and save within MAExplorer to be used in reports/plots etc. This lets the user create, and edit conditions and properties. A condition is an ordered list of HP samples with associated properties. The properties are shared across all conditions but each condition has a different set of values.

 Description:
 The user is given a list of condition names. They then select one which causes
 the listed sample data for that condition to be displayed in the 
 REMAINDER and SELECTED scrollable lists that are assigned to the 
 PopupCondChooserGUI (upper part of the window). The REMAINDER list of samples
 is the list of all HP samples less the SELECTED samples.

 Each condition has a corresponding (right & left) list of parameters which
 are placed into the  * NAME and VALUE paired entries in a scroll pane in the
 lower right.

 Saving a condition, copies the SELECTED samples to the named condition list
 using the mjaCondition methods. It also saves the associated parameter
 (name[],value[]) list for that condition using the mjaCondition methods.

 New conditions may be defined and the SELECTED list is set to empty and the
 associated parameter lists are set to empty.

 New parameters may be defined and are added to the end of the list. Since ALL
 conditions, use the same list of parameter names, then ALL condition parameter
 lists must be extended and saved when the conditions are saved.

 Condition Parameter data is read in (UserStata.java) or uses default values.

 It contains the following classes:
 1. CondData contains the active remainder and selected samples data for
    a condition instance.
 2. CondParamEditForm creates a ScrollPane of the (name,value) parameters
    for the condition instance.
 3. CondDialogBox is a dialog box with with two buttons yesMsg and noMsg that 
    will return true or false when pressed.
 4. PopupTextField is a simple "editor" for adding a string value. 

This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.

Version:

$Date: 2003/02/20 21:34:57 $ $Revision: $

Author:

G. Thornwall (SAIC), P. Lemkin (NCI), NCI-Frederick, Frederick, MD

See Also:

MAExplorer Home, Serialized Form

Inner Class Summary

(package private) class	PopupCondChooser.ChoiceList Class ChoiceList Allows user to pick an item in a list of items
(package private) class	PopupCondChooser.CondData Class CondData contains the active remainder and selected samples data for a condition instance.
(package private) class	PopupCondChooser.CondDialogBox Class CondDialogBox is a dialog box with with two buttons yesMsg and noMsg that will return true or false when pressed.
(package private) class	PopupCondChooser.CondParamEditForm Class CondParamEditForm creates a ScrollPane of the (name,value) parameters for the current condition instance.
(package private) class	PopupCondChooser.PopupTextField Class PopupTextField is a simple "editor" for entering a string value.

Inner classes inherited from class java.awt.Frame

java.awt.Frame.AccessibleAWTFrame

Inner classes inherited from class java.awt.Window

java.awt.Window.AccessibleAWTWindow

Inner classes inherited from class java.awt.Container

java.awt.Container.AccessibleAWTContainer

Inner classes inherited from class java.awt.Component

java.awt.Component.AccessibleAWTComponent, java.awt.Component.AWTTreeLock

Field Summary

private java.awt.Button	addCondButton Add condition
private java.awt.Button	addParamButton add condition parameter
private java.lang.String[]	allSampleNames list of ALL samples in the database
private java.lang.String	banner Title banner for the main window
static java.lang.String	BANNER
private java.awt.Font	buttonFont font for buttons
private java.awt.Button	cancelButton cancel
private PopupCondChooser.CondData[]	cd List [0:maxPossibleCond-1] of working condition data: name, selected and remainder samples, param form (name,value).
private java.awt.Panel	chooserPanel Panel for condition data
private java.awt.TextField	condErrorMsgTf error msg display
private java.awt.Font	condFont font for conditions
private java.awt.List	condList The working list of conditions for GUI
private java.lang.String[]	condListNames list of condition names
private java.awt.Panel	condPanel Panel to hold conditions list (LEFT) and Param Editor (RIGHT)
static boolean	CONSOLE_FLAG
private PopupCondChooser.CondParamEditForm	cpef CondParamEditForm instance
private java.lang.String	curCond The current condition name
private int	curCondIdx current cond index
private java.lang.String	curCondListName show current condition name
private java.awt.Label	curCondNameLabel show current condition name
private java.awt.Color	dataBkgrd Text data report background color that may be changed
private java.awt.Color	dataColor Text data report foreground color that may be changed
private java.awt.Font	dataFont font for data used in the Chooser GUI
static java.lang.String	DATE
static boolean	DBUG_FLAG
private java.awt.Button	doneButton done
static int	FATAL_MSG Error codes for reportMsg()
private java.lang.String	fontFamily Font family from MAExplorer - using mjaProperty.getReportFontFamily()
private java.awt.Font	labelFont font for labels
private java.awt.Button	listAllCondButton list all condition
private java.awt.Button	listCondButton list condition
static int	LOG_MSG Error codes for reportMsg()
private int	maxNbrSamples Maximum # of samples currently in the database.
private static int	maxPossibleCond maximum possible number of conditions
private static int	maxPossibleCondParam maximum possible number of Condition parameters
static int	maxPossibleSamples maximum possible number of hybridized saaples expected
static int	MIN_WINDOW_HEIGHT
static int	MIN_WINDOW_WIDTH MIN size of scrollable Canvas
private MJAcondition	mjaCondition MaeJavaAPI classes
private MJAfilter	mjaFilter
private MJAproperty	mjaProperty
private MJAreport	mjaReport
private MJAsample	mjaSample
private MJAutil	mjaUtil
private java.awt.Color	msgBkgrd Text message background color that may be changed
private java.awt.Color	msgColor Text message foreground color that may be changed
private java.awt.Font	msgFont font for title at the top of the main window
private java.awt.TextField	msgTF Text message report line
private int	nbrCondLists number of condition lists
private int	nbrParams # of condition parameters
static boolean	NEVER
private static PopupCondChooser	oldPCC previous instance if not null so can close it before starting new instance.
private PopupCondChooserGUI	oldPccgSample previous chooser GUI for sample data
private java.awt.Font	paramFont font for parameter Name and Value
private java.lang.String[]	paramNames list [0:nbrCondLists-1] of condition parameter names for CondParamEditForm.
private int	pccgHeight size for PopupCondChooserGUI
private PopupCondChooserGUI	pccgSample chooser GUI for sample data
private int	pccgWidth size for PopupCondChooserGUI
private java.awt.TextField	pccMsgTxtField1 msg display 1
private java.awt.TextField	pccMsgTxtField2 msg display 2
private java.awt.TextField	pccMsgTxtField3 msg display 3
private int	preferredHeight preferred height size of frame
private int	preferredWidth preferred width size of frame
private int	prevCPEFidx previous CondParamEditForm index
private java.awt.Button	removeCondButton remove condition
private java.lang.String[]	remSamplesTmp remaining sample names of condition before edit
private java.lang.String	remTitle title of remainder samples TextArea for PopupCondChooserGUI
static java.lang.String	REVISION
private java.awt.Button	rmvParamButton remove condition parameter
private java.awt.Button	saveButton save
private boolean	saveFlag see if saved ok
private boolean	saveReportAsTextFileFlag Flag enabled if doing "SaveAs"
private java.lang.String[]	selSamplesTmp selected sample names of condition before edit
private java.lang.String	selTitle title of selected samples TextArea for PopupCondChooserGUI
private java.awt.Font	titleFont font for labels
private boolean	valueChangedFlag if something is changed, need to save it so keep track
static java.lang.String	VERSION
static int	WARNING_MSG Error codes for reportMsg()

Fields inherited from class java.awt.Frame

base, CROSSHAIR_CURSOR, DEFAULT_CURSOR, E_RESIZE_CURSOR, frameSerializedDataVersion, HAND_CURSOR, icon, ICONIFIED, mbManagement, menuBar, MOVE_CURSOR, N_RESIZE_CURSOR, nameCounter, NE_RESIZE_CURSOR, NORMAL, NW_RESIZE_CURSOR, ownedWindows, resizable, S_RESIZE_CURSOR, SE_RESIZE_CURSOR, serialVersionUID, state, SW_RESIZE_CURSOR, TEXT_CURSOR, title, W_RESIZE_CURSOR, WAIT_CURSOR, weakThis

Fields inherited from class java.awt.Window

active, dbg, focusMgr, inputContext, inputContextLock, OPENED, ownedWindowList, showWithParent, warningString, windowListener, windowSerializedDataVersion

Fields inherited from class java.awt.Container

component, containerListener, containerSerializedDataVersion, dispatcher, layoutMgr, listeningBoundsChildren, listeningChildren, maxSize, ncomponents, printing, printingThreads

Fields inherited from class java.awt.Component

accessibleContext, actionListenerK, adjustmentListenerK, appContext, background, BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, changeSupport, componentListener, componentListenerK, componentOrientation, componentSerializedDataVersion, containerListenerK, cursor, dropTarget, enabled, eventMask, focusListener, focusListenerK, font, foreground, graphicsConfig, hasFocus, height, hierarchyBoundsListener, hierarchyBoundsListenerK, hierarchyListener, hierarchyListenerK, incRate, inputMethodListener, inputMethodListenerK, isInc, isPacked, itemListenerK, keyListener, keyListenerK, LEFT_ALIGNMENT, locale, LOCK, metrics, minSize, mouseListener, mouseListenerK, mouseMotionListener, mouseMotionListenerK, name, nameExplicitlySet, newEventsOnly, ownedWindowK, parent, peer, peerFont, popups, prefSize, privateKey, RIGHT_ALIGNMENT, textListenerK, TOP_ALIGNMENT, valid, visible, width, windowClosingException, windowListenerK, x, y

Fields inherited from interface java.awt.image.ImageObserver

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

Constructor Summary

PopupCondChooser(MaeJavaAPI mja, PopupCondChooser oldPCC)
PopupCondChooser() - Constructor

Method Summary

void	actionPerformed(java.awt.event.ActionEvent e) actionPerformed() - Handle Control panel button clicks
private void	addAllSamplesForCond(java.lang.String cond, int newCurIndex) addAllSamplesForCond() - Place samples data associated with new condition into ChooserGUI.
private void	addNewCondition() addNewCondition() - add new condition to local chooser database and leave it as the selected condition
void	addNewParameter() addNewParameter() - add a new parameter locally.
void	buildGUI() buildGUI() - build the graphical user interface for PopupCondChooser.
private java.lang.String[]	calcRemSamples(java.lang.String condListName, int curIndex) calcRemSamples() - compute remainder list of sample names (R = DB - Ci) where DB is all of the samples in the database, and Ci are the samples in condition Ci.
(package private) void	clearInfo() clearInfo() - clear info for the 3 msg areas in the PopupCondChooser
void	close() close() - close this popup
(package private) int	getCondIdxFromName(java.lang.String condName) getCondIdxFromName() - Look up and return index of current cond.
(package private) java.lang.String	getCondNameFromIdx(int condIdx) getCondNameFromIdx() - Look up and return name of current ocl.
private java.lang.String[]	getRemSamplesData(int index) getRemSamplesData() - get remainder data, locally.
private java.lang.String[]	getRemSamplesDataFromChooserGUI(int index) getRemSamplesDataFromChooserGUI() - get remainder data from chooserGUI
private int	getSampleNbrBySampleName(java.lang.String sampleName) getSampleNbrBySampleName() - lookup the sample # by its name
private java.lang.String[]	getSelSamplesData(int index) getSelSamplesData() - get Select data, locally.
private java.lang.String[]	getSelSamplesDataFromChooserGUI(int index) getSelSamplesDataFromChooserGUI() - get selected data from chooserGUI
boolean	handleEvent(java.awt.Event evt) handleEvent() - process special events
(package private) void	initData() initData() - initialize the database.
void	itemStateChanged(java.awt.event.ItemEvent ie) itemStateChanged() - user clicked on condtion in the condition list, must change CondParamEditForm data, remainder and selected data, save condForm data.
void	paint(java.awt.Graphics g) paint() - repaint full scrolled text area.
void	removeConditionLocally() removeConditionLocally() - remove user specified condition locally.
void	removeLocalParameter() removeLocalParameter() - remove parameter locally for all conditions
private void	saveAllCondsToMaeState() saveAllCondsToMaeState() - save all conditions to MAExplorer state
private boolean	saveCondState(PopupCondChooser.CondData[] cdList, int nCondLists) saveCondState() - saves all condition sample and param (N,V) data to MAE via MJAcondition.
void	setupCondData() setupCondData() - get remainder and selected condition data, & parameters from MJA (indirectly from mae) and set up the cd[] array of conditions data.
void	update(java.awt.Graphics g) update() - update window
void	updateCurGene(int mid) updateCurGene() - update any data since current gene has changed.
void	updateFilter() updateFilter() - update any dependent data since Filter has changed.
(package private) void	updateInfo(java.lang.String sampleName) updateInfo() - update the info text fields for selected HP.
void	updateLabels() updateLabels() - update any dependent data since global labels have changed.
void	updateSlider() updateSlider() - update any dependent data sincea threshold slider has changed.
void	windowActivated(java.awt.event.WindowEvent e)
void	windowClosed(java.awt.event.WindowEvent e)
void	windowClosing(java.awt.event.WindowEvent e) windowClosing() - close down the window.
void	windowDeactivated(java.awt.event.WindowEvent e)
void	windowDeiconified(java.awt.event.WindowEvent e)
void	windowIconified(java.awt.event.WindowEvent e)
void	windowOpened(java.awt.event.WindowEvent e)

Methods inherited from class java.awt.Frame

, addNotify, addToFrameList, constructComponentName, finalize, getAccessibleContext, getCursorType, getFrames, getIconImage, getMenuBar, getState, getTitle, initIDs, isResizable, paramString, postProcessKeyEvent, readObject, remove, removeFromFrameList, removeNotify, setCursor, setIconImage, setMenuBar, setResizable, setState, setTitle, writeObject

Methods inherited from class java.awt.Window

addOwnedWindow, addWindowListener, adjustListeningChildren, applyResourceBundle, applyResourceBundle, connectOwnedWindow, dispatchEventImpl, dispose, eventEnabled, getFocusOwner, getGraphicsConfiguration, getInputContext, getListeners, getLocale, getOwnedWindows, getOwner, getToolkit, getWarningString, hide, isActive, isShowing, nextFocus, ownedInit, pack, postEvent, postWindowEvent, preProcessKeyEvent, processEvent, processWindowEvent, removeOwnedWindow, removeWindowListener, resetGC, setCursor, setFocusOwner, setWarningString, show, toBack, toFront, transferFocus

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, addImpl, applyOrientation, checkGD, countComponents, createChildHierarchyEvents, createHierarchyEvents, deliverEvent, dispatchEventToSelf, doLayout, findComponentAt, findComponentAt, findComponentAt, getAccessibleAt, getAccessibleChild, getAccessibleChildrenCount, getAlignmentX, getAlignmentY, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents_NoClientCode, getComponents, getInsets, getLayout, getMaximumSize, getMinimumSize, getMouseEventTarget, getPreferredSize, getWindow, insets, invalidate, invalidateTree, isAncestorOf, layout, lightweightPaint, lightweightPrint, list, list, locate, minimumSize, numListening, paintComponents, paintHeavyweightComponents, postsOldMouseEvents, preferredSize, print, printComponents, printHeavyweightComponents, processContainerEvent, proxyEnableEvents, proxyRequestFocus, remove, remove, removeAll, removeContainerListener, setFont, setLayout, validate, validateTree

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addPropertyChangeListener, addPropertyChangeListener, areInputMethodsEnabled, bounds, checkImage, checkImage, checkWindowClosingException, coalesceEvents, contains, contains, createImage, createImage, disable, disableEvents, dispatchEvent, enable, enable, enableEvents, enableInputMethods, firePropertyChange, getAccessibleIndexInParent, getAccessibleStateSet, getBackground, getBounds, getBounds, getColorModel, getComponentOrientation, getCursor, getDropTarget, getFont_NoClientCode, getFont, getFontMetrics, getForeground, getGraphics, getHeight, getInputMethodRequests, getLocation, getLocation, getLocationOnScreen_NoTreeLock, getLocationOnScreen, getName, getNativeContainer, getParent_NoClientCode, getParent, getPeer, getSize, getSize, getToolkitImpl, getTreeLock, getWidth, getWindowForObject, getX, getY, gotFocus, hasFocus, imageUpdate, inside, isDisplayable, isDoubleBuffered, isEnabled, isEnabledImpl, isFocusTraversable, isLightweight, isOpaque, isRecursivelyVisible, 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, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, repaint, requestFocus, reshape, resize, resize, setBackground, setBounds, setBounds, setComponentOrientation, setDropTarget, setEnabled, setForeground, setLocale, setLocation, setLocation, setName, setSize, setSize, setVisible, show, size, toString, transferFocus

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.awt.MenuContainer

getFont, postEvent

Field Detail

DBUG_FLAG

public static final boolean DBUG_FLAG

DATE

public static final java.lang.String DATE

REVISION

public static final java.lang.String REVISION

VERSION

public static final java.lang.String VERSION

BANNER

public static final java.lang.String BANNER

CONSOLE_FLAG

public static final boolean CONSOLE_FLAG

NEVER

public static final boolean NEVER

FATAL_MSG

public static final int FATAL_MSG

Error codes for reportMsg()

WARNING_MSG

public static final int WARNING_MSG

Error codes for reportMsg()

LOG_MSG

public static final int LOG_MSG

Error codes for reportMsg()

MIN_WINDOW_WIDTH

public static final int MIN_WINDOW_WIDTH

MIN size of scrollable Canvas

MIN_WINDOW_HEIGHT

public static final int MIN_WINDOW_HEIGHT

maxPossibleCond

private static int maxPossibleCond

maximum possible number of conditions

maxPossibleCondParam

private static int maxPossibleCondParam

maximum possible number of Condition parameters

maxPossibleSamples

public static int maxPossibleSamples

maximum possible number of hybridized saaples expected

oldPCC

private static PopupCondChooser oldPCC

previous instance if not null so can close it before starting new instance.

mjaCondition

private MJAcondition mjaCondition

MaeJavaAPI classes

mjaFilter

private MJAfilter mjaFilter

mjaProperty

private MJAproperty mjaProperty

mjaReport

private MJAreport mjaReport

mjaUtil

private MJAutil mjaUtil

mjaSample

private MJAsample mjaSample

addCondButton

private java.awt.Button addCondButton

Add condition

removeCondButton

private java.awt.Button removeCondButton

remove condition

listCondButton

private java.awt.Button listCondButton

list condition

listAllCondButton

private java.awt.Button listAllCondButton

list all condition

addParamButton

private java.awt.Button addParamButton

add condition parameter

rmvParamButton

private java.awt.Button rmvParamButton

remove condition parameter

saveButton

private java.awt.Button saveButton

save

doneButton

private java.awt.Button doneButton

done

cancelButton

private java.awt.Button cancelButton

cancel

pccgWidth

private int pccgWidth

size for PopupCondChooserGUI

pccgHeight

private int pccgHeight

size for PopupCondChooserGUI

preferredHeight

private int preferredHeight

preferred height size of frame

preferredWidth

private int preferredWidth

preferred width size of frame

fontFamily

private java.lang.String fontFamily

Font family from MAExplorer - using mjaProperty.getReportFontFamily()

dataFont

private java.awt.Font dataFont

font for data used in the Chooser GUI

buttonFont

private java.awt.Font buttonFont

font for buttons

labelFont

private java.awt.Font labelFont

font for labels

titleFont

private java.awt.Font titleFont

font for labels

msgFont

private java.awt.Font msgFont

font for title at the top of the main window

paramFont

private java.awt.Font paramFont

font for parameter Name and Value

condFont

private java.awt.Font condFont

font for conditions

msgTF

private java.awt.TextField msgTF

Text message report line

msgColor

private java.awt.Color msgColor

Text message foreground color that may be changed

msgBkgrd

private java.awt.Color msgBkgrd

Text message background color that may be changed

dataColor

private java.awt.Color dataColor

Text data report foreground color that may be changed

dataBkgrd

private java.awt.Color dataBkgrd

Text data report background color that may be changed

condList

private java.awt.List condList

The working list of conditions for GUI

chooserPanel

private java.awt.Panel chooserPanel

Panel for condition data

condPanel

private java.awt.Panel condPanel

Panel to hold conditions list (LEFT) and Param Editor (RIGHT)

pccMsgTxtField1

private java.awt.TextField pccMsgTxtField1

msg display 1

pccMsgTxtField2

private java.awt.TextField pccMsgTxtField2

msg display 2

pccMsgTxtField3

private java.awt.TextField pccMsgTxtField3

msg display 3

condErrorMsgTf

private java.awt.TextField condErrorMsgTf

error msg display

banner

private java.lang.String banner

Title banner for the main window

cd

private PopupCondChooser.CondData[] cd

List [0:maxPossibleCond-1] of working condition data: name, selected and remainder samples, param form (name,value).

nbrCondLists

private int nbrCondLists

number of condition lists

cpef

private PopupCondChooser.CondParamEditForm cpef

CondParamEditForm instance

curCond

private java.lang.String curCond

The current condition name

paramNames

private java.lang.String[] paramNames

list [0:nbrCondLists-1] of condition parameter names for CondParamEditForm.

nbrParams

private int nbrParams

# of condition parameters

saveReportAsTextFileFlag

private boolean saveReportAsTextFileFlag

Flag enabled if doing "SaveAs"

saveFlag

private boolean saveFlag

see if saved ok

valueChangedFlag

private boolean valueChangedFlag

if something is changed, need to save it so keep track

remTitle

private java.lang.String remTitle

title of remainder samples TextArea for PopupCondChooserGUI

selTitle

private java.lang.String selTitle

title of selected samples TextArea for PopupCondChooserGUI

prevCPEFidx

private int prevCPEFidx

previous CondParamEditForm index

curCondIdx

private int curCondIdx

current cond index

condListNames

private java.lang.String[] condListNames

list of condition names

curCondNameLabel

private java.awt.Label curCondNameLabel

show current condition name

curCondListName

private java.lang.String curCondListName

show current condition name

maxNbrSamples

private int maxNbrSamples

Maximum # of samples currently in the database. This is the largest size (in # samples) a condition list can be.

allSampleNames

private java.lang.String[] allSampleNames

list of ALL samples in the database

remSamplesTmp

private java.lang.String[] remSamplesTmp

remaining sample names of condition before edit

selSamplesTmp

private java.lang.String[] selSamplesTmp

selected sample names of condition before edit

pccgSample

private PopupCondChooserGUI pccgSample

chooser GUI for sample data

oldPccgSample

private PopupCondChooserGUI oldPccgSample

previous chooser GUI for sample data

Constructor Detail

PopupCondChooser

public PopupCondChooser(MaeJavaAPI mja,
                        PopupCondChooser oldPCC)

PopupCondChooser() - Constructor

Parameters:

mja - interface with MAExplorer via API.

oldPCC - is previous instance if not null

See Also:

initDataAndGUI

Method Detail

initData

void initData()

initData() - initialize the database.

See Also:

MJAcondition.getCondListsNames(), MJAcondition.getCondListsSizes(), MJAcondition.getMaxCondListSize(), MJAcondition.getNbrCondLists(), buildGUI, PopupCondChooser.CondParamEditForm, setupCondData

setupCondData

public void setupCondData()

setupCondData() - get remainder and selected condition data, & parameters from MJA (indirectly from mae) and set up the cd[] array of conditions data.

See Also:

buildGUI(), s@ee MJAcondition#getCondParamValues, MJAcondition.getSampleNamesInCondList(java.lang.String), MJAcondition.getNbrCondLists(), calcRemSamples, PopupCondChooser.CondData, PopupCondChooser.CondParamEditForm

calcRemSamples

private java.lang.String[] calcRemSamples(java.lang.String condListName,
                                          int curIndex)

calcRemSamples() - compute remainder list of sample names (R = DB - Ci) where DB is all of the samples in the database, and Ci are the samples in condition Ci.

Parameters:

condListName - is the condition list Ci name

curIndex - is the index of the current condition to use if not -1

Returns:

list of remainder sample names, else null if failed.

See Also:

MJAcondition.getSampleNamesInCondList(java.lang.String)

buildGUI

public void buildGUI()

buildGUI() - build the graphical user interface for PopupCondChooser.

See Also:

MJAcondition#PopupCondChooserGUI, getCondIdxFromName(java.lang.String), MJAcondition.getCondListsNames(), MJAcondition.getCurCondition(), MJAcondition.getMaxCondListSize(), MJAcondition.getNbrCondLists(), MJAcondition.getSampleNamesInCondList(java.lang.String), buildPopupCondChooserGUI, PopupCondChooser.CondParamEditForm

addAllSamplesForCond

private void addAllSamplesForCond(java.lang.String cond,
                                  int newCurIndex)

addAllSamplesForCond() - Place samples data associated with new condition into ChooserGUI. Save old samples data, remove samples data and then add new data.

Parameters:

cond - Condition set to add samples

newCurIndex - index for data

See Also:

PopupCondChooserGUI.buildPopupCondChooserGUI(), MJAcondition.getAllSampleNamesInDB(), getRemSamplesData, getSelSamplesData, PopupCondChooserGUI

getRemSamplesDataFromChooserGUI

private java.lang.String[] getRemSamplesDataFromChooserGUI(int index)

getRemSamplesDataFromChooserGUI() - get remainder data from chooserGUI

Parameters:

index - which

Returns:

list of remainder data

getSelSamplesDataFromChooserGUI

private java.lang.String[] getSelSamplesDataFromChooserGUI(int index)

getSelSamplesDataFromChooserGUI() - get selected data from chooserGUI

Parameters:

index - which condition index

Returns:

list of selected data

getSelSamplesData

private java.lang.String[] getSelSamplesData(int index)

getSelSamplesData() - get Select data, locally.

Parameters:

index - which condition index

Returns:

list of selected data

getRemSamplesData

private java.lang.String[] getRemSamplesData(int index)

getRemSamplesData() - get remainder data, locally.

Parameters:

index - which condition index

Returns:

list of remainder data

getCondIdxFromName

int getCondIdxFromName(java.lang.String condName)

getCondIdxFromName() - Look up and return index of current cond.

Parameters:

condName - name of condition list

Returns:

index or -1 for none.

getCondNameFromIdx

java.lang.String getCondNameFromIdx(int condIdx)

getCondNameFromIdx() - Look up and return name of current ocl.

Parameters:

oclIdx - of ordered condition list

Returns:

name or null for none.

paint

public void paint(java.awt.Graphics g)

paint() - repaint full scrolled text area.

Overrides:

paint in class java.awt.Container

update

public void update(java.awt.Graphics g)

update() - update window

Overrides:

update in class java.awt.Container

Parameters:

g - is graphics context

getSampleNbrBySampleName

private int getSampleNbrBySampleName(java.lang.String sampleName)

getSampleNbrBySampleName() - lookup the sample # by its name

Parameters:

sampleName - is the sample number tolookup

Returns:

the index if found, else return -1

updateInfo

void updateInfo(java.lang.String sampleName)

updateInfo() - update the info text fields for selected HP. If the sample does not exist in the database, then it is a NO-OP.

Parameters:

sampleName - is the sample number to be displayed

See Also:

Component.repaint()

saveAllCondsToMaeState

private void saveAllCondsToMaeState()

saveAllCondsToMaeState() - save all conditions to MAExplorer state

addNewCondition

private void addNewCondition()

addNewCondition() - add new condition to local chooser database and leave it as the selected condition

removeConditionLocally

public void removeConditionLocally()

removeConditionLocally() - remove user specified condition locally.

See Also:

getCondNameFromIdx(int), MJAcondition.setCurCondition(java.lang.String)

addNewParameter

public void addNewParameter()

addNewParameter() - add a new parameter locally. Popup window for new condition parameter name.

removeLocalParameter

public void removeLocalParameter()

removeLocalParameter() - remove parameter locally for all conditions

clearInfo

void clearInfo()

clearInfo() - clear info for the 3 msg areas in the PopupCondChooser

itemStateChanged

public void itemStateChanged(java.awt.event.ItemEvent ie)

itemStateChanged() - user clicked on condtion in the condition list, must change CondParamEditForm data, remainder and selected data, save condForm data.

Specified by:

itemStateChanged in interface java.awt.event.ItemListener

Parameters:

ie - ItemEvent

See Also:

addAllSamplesForCond, PopupCondChooser.CondParamEditForm.saveData()

handleEvent

public boolean handleEvent(java.awt.Event evt)

handleEvent() - process special events

Overrides:

handleEvent in class java.awt.Component

Parameters:

evt - is special events

actionPerformed

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

actionPerformed() - Handle Control panel button clicks

Specified by:

actionPerformed in interface java.awt.event.ActionListener

Parameters:

e - is ActionEvent

saveCondState

private boolean saveCondState(PopupCondChooser.CondData[] cdList,
                              int nCondLists)

saveCondState() - saves all condition sample and param (N,V) data to MAE via MJAcondition. This replaces the old MAExplorer condition lists with the new ones.

Parameters:

cdList - is list of all conditions

condLen - size of cdList

See Also:

MJAcondition.createNewCondList(java.lang.String), MJAcondition.setCondParamNames(java.lang.String[]), MJAcondition.setCondParamValue(java.lang.String, java.lang.String[]), MJAcondition.setSamplesInCondList(java.lang.String, java.lang.String[], int)

close

public void close()

close() - close this popup

windowClosing

public void windowClosing(java.awt.event.WindowEvent e)

windowClosing() - close down the window.

Specified by:

windowClosing in interface java.awt.event.WindowListener

Parameters:

e - Window Event

windowOpened

public void windowOpened(java.awt.event.WindowEvent e)

Specified by:

windowOpened in interface java.awt.event.WindowListener

windowActivated

public void windowActivated(java.awt.event.WindowEvent e)

Specified by:

windowActivated in interface java.awt.event.WindowListener

windowClosed

public void windowClosed(java.awt.event.WindowEvent e)

Specified by:

windowClosed in interface java.awt.event.WindowListener

windowDeactivated

public void windowDeactivated(java.awt.event.WindowEvent e)

Specified by:

windowDeactivated in interface java.awt.event.WindowListener

windowDeiconified

public void windowDeiconified(java.awt.event.WindowEvent e)

Specified by:

windowDeiconified in interface java.awt.event.WindowListener

windowIconified

public void windowIconified(java.awt.event.WindowEvent e)

Specified by:

windowIconified in interface java.awt.event.WindowListener

updateCurGene

public void updateCurGene(int mid)

updateCurGene() - update any data since current gene has changed. This is invoked from the PopupRegistry

Parameters:

mid - is the MID (Master Gene ID) that is the new current gene.

updateFilter

public void updateFilter()

updateFilter() - update any dependent data since Filter has changed. This is invoked from the PopupRegistry

updateSlider

public void updateSlider()

updateSlider() - update any dependent data sincea threshold slider has changed. This is invoked from the PopupRegistry.

updateLabels

public void updateLabels()

updateLabels() - update any dependent data since global labels have changed. This is invoked from the PopupRegistry.