Class PopupEditRscript

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

All Implemented Interfaces:

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

class PopupEditRscript

extends java.awt.Frame

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

The PopupEditRscript class creates a popup window for editing the current RLO by invoking editRLO(), or creating a new RLO by the newRLO() method. The Demo RLOs (rloID < nDemoAnalyses) have the GenR checkboxes activated.

See Also:

Serialized Form

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

(package private) java.awt.Button	cancelButton "Cancel" window button
(package private) java.awt.Panel	centerPanel Center Panel to hold the text area and the wizard panel.
(package private) java.awt.Button	closeButton "Close" window button
(package private) java.awt.Button	closeGenRButton "Close" window button for DEMO GenR edit
(package private) java.awt.Panel	controlPanel Control Panel to hold buttons and GenR checkboxes in popup window.
(package private) int	cursorLoc keep track of cursor location within textarea
(package private) int[]	demoWizardList List of wizards for Demo Wizard of pre-constructed RLOs
private static int	EDIT_WINDOW_HEIGHT
private static int	EDIT_WINDOW_WIDTH MIN size of scrollable Canvas
(package private) java.awt.Panel	editButtonsPanel Control Panel to hold buttons in popup window.
(package private) java.lang.String	editedRscriptFile edited Load .R script File
(package private) boolean	editingRLOflag Flag set if editing a RLO
(package private) java.lang.String	editRscriptText .R text or help message
(package private) java.awt.TextArea	editRscriptTextArea Text area to draw editRscriptText in popup window.
(package private) static java.lang.String	EPILOGUE_END fixed epilogue end string
(package private) static java.lang.String	EPILOGUE_START fixed epilogue start string
(package private) int[]	fullWizardList List of wizards for full Wizard of new RLOs
(package private) java.awt.Button	generateTemplateButton Generate R template code button
(package private) int	genRbits GenR Bits is a bit pattern of selected (R_GENR_xxxx) options used during .R script generation.
(package private) java.lang.String	helpStr The help message
(package private) java.awt.Button	importRfileButton "Import .R file"
(package private) java.lang.String[]	inputDataFileNames Name of input file if any (if not null)
(package private) int[]	inputDataTypes R_DATA_TYPE_xxxx type of input file if any
(package private) java.awt.Choice[]	inputTypesChoice Input data type Choices [0:MAX_WIZ_CHOICES-1]
(package private) java.lang.String[]	inputTypesChoiceNames Input data types Choice names [0:nInputTypes-1]
(package private) int[]	inputTypesChoiceValues data types Choice values [0:nInputTypes-1].
(package private) boolean	isNewRLOflag Flag that indicates we are editing a new RLO or editing an old one
(package private) java.awt.Label[]	labelWizard Wizard title labels [0:MAX_WIZ_ROWS-1]
(package private) int	lastWizardNbr
(package private) java.lang.String[]	legalMenuStubNames
(package private) java.awt.Panel	mainWizardPanel main wizard panel, separates top label from grid of TF and labels
(package private) java.awt.Label	mainWizardPanelLabel main label for wizard panel
(package private) static int	MAX_WIZ_INPUT_CHOICES Maximum # rows of Input Choices in the wizard grid
(package private) static int	MAX_WIZ_OUTPUT_CHOICES Maximum # rows of Input Choices in the wizard grid
(package private) static int	MAX_WIZ_R2M Maximum # rows of R2Client Choices in the wizard grid
(package private) static int	MAX_WIZ_ROWS Maximum # rows in the wizard grid ([#rows,2]
(package private) static int	MAXRLO Maximum # of array slots for editing
(package private) java.lang.String	menuName Analysis menu name
(package private) java.awt.Choice	menuStubChoice menu stub choice widget
(package private) java.lang.String	menuStubName Desired Client menu stub.
(package private) MJAutil	mjaUtil
(package private) MJAReval	mr short form instance of mjaReval
(package private) java.awt.TextField	msgTextField Text field to hold popup edit messages.
(package private) java.awt.Button	nextButton "Next" wizard button
(package private) int	nInputFiles # of input files if any, 0 if none
(package private) int	nInputTypesValues # of input data type values
(package private) int	nMenuStubNames # of menu stub names
(package private) int	nOutputFiles # of output files if any, 0 if none
(package private) int	nOutputTypeValues # of input data types
(package private) int	nProcessCB # of Process checkbox entries
(package private) int	nr2ClientActionValues # of R2Client action Choice values
(package private) int	nSetR2ClientFiles # of output files used to set R to client data if any, 0 if none
private int	nUseGenRCB Rscript generation GUI for DEMO only: # of entries
(package private) int	nWizards # of wizards
(package private) java.lang.String[]	outputDataFileNames List of output files if any, null if none
(package private) int[]	outputDataTypes List of R_FILE_TYPE_xxxx types of output files if any, null if none.
(package private) java.awt.Choice[]	outputTypesChoice Output data type Choices [0:MAX_WIZ_CHOICES-1]
(package private) java.lang.String[]	outputTypesChoiceNames Output data types Choice names [0:nOutputTypes-1]
(package private) int[]	outputTypesChoiceValues Output data types Choice values [0:nOutputTypes-1].
(package private) java.lang.String	outsideLoadRscriptFile outside Load .R script File
private int	preferredHeight preferred height size of frame
private int	preferredWidth preferred width size of frame
(package private) java.awt.Button	prevButton "Prev" wizard button
(package private) int	processBits Process Bits is a bit pattern of selected (R_PB_xxxx) options used during processing
(package private) int[]	processCBbits Process checkbox processBits [0:nProcessCB-1] from R_PB_xxxx.
(package private) java.lang.String[]	processCBname Process checkbox names [0:nProcessCB-1]
(package private) java.awt.Checkbox[]	processCheckbox Process bits checkboxes [0:nProcessCB-1]
(package private) static java.lang.String	PROLOGUE_END fixed prologue end string
(package private) static java.lang.String	PROLOGUE_START fixed prologue start string
(package private) java.awt.Choice[]	r2ClientActionChoice R2Client action Choices [0:MAX_WIZ_CHOICES-1]
(package private) java.lang.String[]	r2ClientActionChoiceNames R2Client action Choice names [0:nr2ClientActions-1]
(package private) int[]	R2ClientTypesChoiceValues R2Client action Choice values [0:nr2ClientActions-1]
(package private) int	relWizardNbr relative index through either fullWizardList[] or demoWizardList[] to then access wizardNames[].
(package private) RgenDemo	rgd R demo code generator
(package private) int	rloID sequence # of description
(package private) java.awt.Label	rloMenuNameLabel current RLO being edited
(package private) java.lang.String	rloMenuNameMsg RLO edit menuName msg
(package private) java.awt.Label	rloTitleLabel title label
(package private) java.lang.String	rloTitleMsg RLO edit title label msg
(package private) java.lang.String	RscriptName Name of .R script file
(package private) java.lang.String	RscriptText .R text
(package private) RtestBase	rtb instance of the parent
(package private) java.awt.Button	saveRLOButton "Save RLO" window button
(package private) java.lang.String	scriptSpecificRoptions Optional script Specific R startup options.
(package private) java.lang.String[]	setR2ClientFileNames List of output file names used to set R to client data if any, null if none
(package private) java.lang.String[]	setR2ClientObjNames List of Client object names used to set R to client data if any, null if none.
(package private) int[]	setR2ClientObjTypes List of R_SET_R2Client_xxxx types of output files if any, null if none.
(package private) java.awt.Checkbox	showHelpCheckbox Show Help message text box.
(package private) boolean	showHelpFlag Flag to display help message
(package private) int	templateValue selected template value # from R_DATA_TYPE_xxxx Note: this is the type of the 1st input file
(package private) java.awt.TextField[]	textFieldWizard Wizard title text fields [0:MAX_WIZ_ROWS-1]
(package private) java.awt.Panel	topEditPanel
(package private) int[]	useGenRbit Rscript generation GUI for DEMO only: add separate method generators
private java.awt.Checkbox[]	useGenRcheckbox Rscript generation GUI for DEMO only: add separate method generators
private java.lang.String[]	useGenRname Rscript generation GUI for DEMO only: add separate method generators
(package private) java.awt.Choice	wizardChoice Wizard choice widget
(package private) java.lang.String[]	wizardNames List of Wizard options
(package private) int	wizardNbr default wizard to use at startup index wizardNames[]
(package private) java.awt.Panel	wizardPanel Wizard Panel

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

(package private)

PopupEditRscript(RtestBase rtb) PopupEditRscript() - build the popup window to edit R scripts

Method Summary

void	actionPerformed(java.awt.event.ActionEvent e) actionPerformed() - Handle Control panel button clicks
(package private) void	allocLocalRLOstate() allocLocalRLOstate() - create empty local edit state variables for the RLO database.
(package private) void	changeWizardMenuMode(boolean demoModeFlag) changeWizardMenuMode() - change Wizard menu between Demo or non-demo RLO.
(package private) boolean	checkWellFormedEditRLO() checkWellFormedEditRLO() - check if current edit RLO is well formed
(package private) void	closeRLOedit(boolean saveRLOflag) closeRLOedit() - popdown the window and clear the edit state.
(package private) void	editRLO(int rloId) editRLO() - edit an existing RLO database entry.
java.lang.String	extractUserRscript(java.lang.String completeRscript) extractUserRscript() - extract user R script from center of complete.
(package private) java.lang.String	genEpilogue() genEpilogue() - generate epilogue R script to write data commands to put R created data into Temp/ folder for reading by MAExplorer when required by actions in the RLO specification.
(package private) java.lang.String	genPrologue() genPrologue() - generate prologue R script to read data commands.
(package private) java.lang.String	getHelpStr() getHelpStr() - get popup edit help message.
java.awt.Dimension	getPreferredSize() getPreferredSize() - get the preferred size
(package private) java.lang.String	getRscriptByRLOid(int rloID) getRscriptByRLOid() - generate or read the current Rscript into RscriptText.
boolean	handleEvent(java.awt.Event evt) handleEvent() - process special events
void	itemStateChanged(java.awt.event.ItemEvent e) itemStateChanged() - handle item state changed eventsms.
void	keyPressed(java.awt.event.KeyEvent e) keyPressed() - key pressed in TextField
void	keyReleased(java.awt.event.KeyEvent e) keyReleased() - key released in TextField
void	keyTyped(java.awt.event.KeyEvent e) keyTyped() - key typed in TextField
(package private) int	newRLO() newRLO() - create a new local RLO instance.
java.lang.String	onlyOnePrologueEpilogueTag(java.lang.String str) onlyOnePrologueEpilogueTag() - Omit extra prologue/epilogue tags, save only the first one encountered.
void	paint(java.awt.Graphics g) paint() - update window
private boolean	rebuildWizardPanel(int newWizardNbr) rebuildWizardPanel() - rebuild Wizard elements and the new wizardLabel in the wizardPanel.
(package private) void	resetEditRLObuttons(boolean flag) resetEditRLObuttons() - enable/disable Edit Buttons.
(package private) void	setPopupEditVisible(boolean flag) setPopupEditVisible() - enable/disable popup edit RLO window
(package private) boolean	setRLOdbFromRLOedit() setRLOdbFromRLOedit() - set the RLO database from the edit state for current RLO.
(package private) void	setRLOeditFromRLOdb() setRLOeditFromRLOdb() - set the local RLO edit state from current RLO.
(package private) void	setupGenRcheckboxesStates() setupGenRcheckboxesStates() - set all genRbits checkbox states based on RLO state
(package private) void	setupProcessCheckboxesStates() setupProcessCheckboxesStates() - set all processBits checkbox states based on RLO state
(package private) void	showPEmsg(java.lang.String msg) showPEmsg() - draw text in Popup Edit message line
(package private) void	showPEmsg(java.lang.String msg, java.awt.Color fgColor, java.awt.Color bgColor) showPEmsg() - draw text in Popup Edit message line
void	textValueChanged(java.awt.event.TextEvent e) textValueChanged() - event handler for TextArea
void	update(java.awt.Graphics g) update() - update window
(package private) void	updateTitleMsgs() updateTitleMsgs() - update the title messages
private void	validateInFileListsSize(int size) validateInFileListsSize() - grow or create RLO Input File lists size
private void	validateOutFileListsSize(int size) validateOutFileListsSize() - grow or create RLO Output File lists Sizes
private void	validateR2ClientlistsSize(int size) validateR2ClientlistsSize() - grow or create R2Client lists Sizes
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 after saving the RLO
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, 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

rtb

RtestBase rtb

instance of the parent

mr

MJAReval mr

short form instance of mjaReval

mjaUtil

MJAutil mjaUtil

rgd

RgenDemo rgd

R demo code generator

MAXRLO

static final int MAXRLO

Maximum # of array slots for editing

MAX_WIZ_ROWS

static final int MAX_WIZ_ROWS

Maximum # rows in the wizard grid ([#rows,2]

MAX_WIZ_INPUT_CHOICES

static final int MAX_WIZ_INPUT_CHOICES

Maximum # rows of Input Choices in the wizard grid

MAX_WIZ_OUTPUT_CHOICES

static final int MAX_WIZ_OUTPUT_CHOICES

Maximum # rows of Input Choices in the wizard grid

MAX_WIZ_R2M

static final int MAX_WIZ_R2M

Maximum # rows of R2Client Choices in the wizard grid

EDIT_WINDOW_WIDTH

private static final int EDIT_WINDOW_WIDTH

MIN size of scrollable Canvas

EDIT_WINDOW_HEIGHT

private static final int EDIT_WINDOW_HEIGHT

preferredHeight

private int preferredHeight

preferred height size of frame

preferredWidth

private int preferredWidth

preferred width size of frame

PROLOGUE_START

static final java.lang.String PROLOGUE_START

fixed prologue start string

PROLOGUE_END

static final java.lang.String PROLOGUE_END

fixed prologue end string

EPILOGUE_START

static final java.lang.String EPILOGUE_START

fixed epilogue start string

EPILOGUE_END

static final java.lang.String EPILOGUE_END

fixed epilogue end string

editingRLOflag

boolean editingRLOflag

Flag set if editing a RLO

editRscriptTextArea

java.awt.TextArea editRscriptTextArea

Text area to draw editRscriptText in popup window.

msgTextField

java.awt.TextField msgTextField

Text field to hold popup edit messages.

showHelpCheckbox

java.awt.Checkbox showHelpCheckbox

Show Help message text box.

showHelpFlag

boolean showHelpFlag

Flag to display help message

helpStr

java.lang.String helpStr

The help message

topEditPanel

java.awt.Panel topEditPanel

centerPanel

java.awt.Panel centerPanel

Center Panel to hold the text area and the wizard panel.

controlPanel

java.awt.Panel controlPanel

Control Panel to hold buttons and GenR checkboxes in popup window.

editButtonsPanel

java.awt.Panel editButtonsPanel

Control Panel to hold buttons in popup window.

mainWizardPanel

java.awt.Panel mainWizardPanel

main wizard panel, separates top label from grid of TF and labels

wizardPanel

java.awt.Panel wizardPanel

Wizard Panel

lastWizardNbr

int lastWizardNbr

mainWizardPanelLabel

java.awt.Label mainWizardPanelLabel

main label for wizard panel

labelWizard

java.awt.Label[] labelWizard

Wizard title labels [0:MAX_WIZ_ROWS-1]

textFieldWizard

java.awt.TextField[] textFieldWizard

Wizard title text fields [0:MAX_WIZ_ROWS-1]

wizardChoice

java.awt.Choice wizardChoice

Wizard choice widget

fullWizardList

int[] fullWizardList

List of wizards for full Wizard of new RLOs

demoWizardList

int[] demoWizardList

List of wizards for Demo Wizard of pre-constructed RLOs

wizardNames

java.lang.String[] wizardNames

List of Wizard options

nWizards

int nWizards

# of wizards

wizardNbr

int wizardNbr

default wizard to use at startup index wizardNames[]

relWizardNbr

int relWizardNbr

relative index through either fullWizardList[] or demoWizardList[] to then access wizardNames[].

menuStubChoice

java.awt.Choice menuStubChoice

menu stub choice widget

legalMenuStubNames

java.lang.String[] legalMenuStubNames

nMenuStubNames

int nMenuStubNames

# of menu stub names

generateTemplateButton

java.awt.Button generateTemplateButton

Generate R template code button

templateValue

int templateValue

selected template value # from R_DATA_TYPE_xxxx Note: this is the type of the 1st input file

importRfileButton

java.awt.Button importRfileButton

"Import .R file"

saveRLOButton

java.awt.Button saveRLOButton

"Save RLO" window button

prevButton

java.awt.Button prevButton

"Prev" wizard button

nextButton

java.awt.Button nextButton

"Next" wizard button

cancelButton

java.awt.Button cancelButton

"Cancel" window button

closeButton

java.awt.Button closeButton

"Close" window button

rloTitleLabel

java.awt.Label rloTitleLabel

title label

rloMenuNameLabel

java.awt.Label rloMenuNameLabel

current RLO being edited

rloTitleMsg

java.lang.String rloTitleMsg

RLO edit title label msg

rloMenuNameMsg

java.lang.String rloMenuNameMsg

RLO edit menuName msg

inputTypesChoice

java.awt.Choice[] inputTypesChoice

Input data type Choices [0:MAX_WIZ_CHOICES-1]

inputTypesChoiceNames

java.lang.String[] inputTypesChoiceNames

Input data types Choice names [0:nInputTypes-1]

inputTypesChoiceValues

int[] inputTypesChoiceValues

data types Choice values [0:nInputTypes-1]. All values >= 1

nInputTypesValues

int nInputTypesValues

# of input data type values

outputTypesChoice

java.awt.Choice[] outputTypesChoice

Output data type Choices [0:MAX_WIZ_CHOICES-1]

outputTypesChoiceNames

java.lang.String[] outputTypesChoiceNames

Output data types Choice names [0:nOutputTypes-1]

outputTypesChoiceValues

int[] outputTypesChoiceValues

Output data types Choice values [0:nOutputTypes-1]. All values >= 1

nOutputTypeValues

int nOutputTypeValues

# of input data types

r2ClientActionChoice

java.awt.Choice[] r2ClientActionChoice

R2Client action Choices [0:MAX_WIZ_CHOICES-1]

r2ClientActionChoiceNames

java.lang.String[] r2ClientActionChoiceNames

R2Client action Choice names [0:nr2ClientActions-1]

R2ClientTypesChoiceValues

int[] R2ClientTypesChoiceValues

R2Client action Choice values [0:nr2ClientActions-1]

nr2ClientActionValues

int nr2ClientActionValues

# of R2Client action Choice values

processCheckbox

java.awt.Checkbox[] processCheckbox

Process bits checkboxes [0:nProcessCB-1]

processCBname

java.lang.String[] processCBname

Process checkbox names [0:nProcessCB-1]

processCBbits

int[] processCBbits

Process checkbox processBits [0:nProcessCB-1] from R_PB_xxxx. All values >= 1

nProcessCB

int nProcessCB

# of Process checkbox entries

useGenRcheckbox

private java.awt.Checkbox[] useGenRcheckbox

Rscript generation GUI for DEMO only: add separate method generators

useGenRname

private java.lang.String[] useGenRname

Rscript generation GUI for DEMO only: add separate method generators

useGenRbit

int[] useGenRbit

Rscript generation GUI for DEMO only: add separate method generators

nUseGenRCB

private int nUseGenRCB

Rscript generation GUI for DEMO only: # of entries

closeGenRButton

java.awt.Button closeGenRButton

"Close" window button for DEMO GenR edit

isNewRLOflag

boolean isNewRLOflag

Flag that indicates we are editing a new RLO or editing an old one

outsideLoadRscriptFile

java.lang.String outsideLoadRscriptFile

outside Load .R script File

editedRscriptFile

java.lang.String editedRscriptFile

edited Load .R script File

editRscriptText

java.lang.String editRscriptText

.R text or help message

RscriptText

java.lang.String RscriptText

.R text

rloID

int rloID

sequence # of description

menuName

java.lang.String menuName

Analysis menu name

menuStubName

java.lang.String menuStubName

Desired Client menu stub. If null or "", then put in (Plugins | RLO methods submenu)

RscriptName

java.lang.String RscriptName

Name of .R script file

nInputFiles

int nInputFiles

# of input files if any, 0 if none

inputDataFileNames

java.lang.String[] inputDataFileNames

Name of input file if any (if not null)

inputDataTypes

int[] inputDataTypes

R_DATA_TYPE_xxxx type of input file if any

processBits

int processBits

Process Bits is a bit pattern of selected (R_PB_xxxx) options used during processing

genRbits

int genRbits

GenR Bits is a bit pattern of selected (R_GENR_xxxx) options used during .R script generation.

nOutputFiles

int nOutputFiles

# of output files if any, 0 if none

outputDataFileNames

java.lang.String[] outputDataFileNames

List of output files if any, null if none

outputDataTypes

int[] outputDataTypes

List of R_FILE_TYPE_xxxx types of output files if any, null if none.

nSetR2ClientFiles

int nSetR2ClientFiles

# of output files used to set R to client data if any, 0 if none

setR2ClientFileNames

java.lang.String[] setR2ClientFileNames

List of output file names used to set R to client data if any, null if none

setR2ClientObjNames

java.lang.String[] setR2ClientObjNames

List of Client object names used to set R to client data if any, null if none. E.g., If the object is a gene set (condition list), then this is the gene set (condition list) name

setR2ClientObjTypes

int[] setR2ClientObjTypes

List of R_SET_R2Client_xxxx types of output files if any, null if none.

cursorLoc

int cursorLoc

keep track of cursor location within textarea

scriptSpecificRoptions

java.lang.String scriptSpecificRoptions

Optional script Specific R startup options. These can include things like "--vsize=20M", or "--nsize=200k", etc. See the R reference manual for specific options.

Constructor Detail

PopupEditRscript

PopupEditRscript(RtestBase rtb)

PopupEditRscript() - build the popup window to edit R scripts

Method Detail

getPreferredSize

public java.awt.Dimension getPreferredSize()

getPreferredSize() - get the preferred size

Overrides:

getPreferredSize in class java.awt.Container

Returns:

preferred size of window

showPEmsg

void showPEmsg(java.lang.String msg,
               java.awt.Color fgColor,
               java.awt.Color bgColor)

showPEmsg() - draw text in Popup Edit message line

Parameters:

msg - tod display

fgColor - foreground color

bgColor - background color

showPEmsg

void showPEmsg(java.lang.String msg)

showPEmsg() - draw text in Popup Edit message line

Parameters:

msg - tod display

getHelpStr

java.lang.String getHelpStr()

getHelpStr() - get popup edit help message.

allocLocalRLOstate

void allocLocalRLOstate()

allocLocalRLOstate() - create empty local edit state variables for the RLO database.

editRLO

void editRLO(int rloId)

editRLO() - edit an existing RLO database entry.

Parameters:

rloID - to edit (existing RLO)

See Also:

MJAReval.setCurrentRLO(int), changeWizardMenuMode(boolean), resetEditRLObuttons(boolean), setRLOeditFromRLOdb()

newRLO

int newRLO()

newRLO() - create a new local RLO instance. This will be populated by the "Edit RLO" wizard interaction. Note: the RLO is not added to the RLO database until the user does a "Save RLO" or "Close".

See Also:

MJAReval.newRLO(), allocLocalRLOstate(), changeWizardMenuMode(boolean), resetEditRLObuttons(boolean), setPopupEditVisible(boolean)

setRLOeditFromRLOdb

void setRLOeditFromRLOdb()

setRLOeditFromRLOdb() - set the local RLO edit state from current RLO.

See Also:

MJAReval.getCurrentRLOid(), MJAReval.getCurrentRLOmenuName(), MJAReval.getInputDataFileNames(), MJAReval.getInputDataTypes(), MJAReval.getAllProcessBits(), MJAReval.getOutputDataFileNames(), MJAReval.getOutputDataTypes(), MJAReval.getSetR2ClientFileNames(), MJAReval.getSetR2ClientObjNames(), MJAReval.getSetR2ClientObjTypes(), MJAReval.getRstartupOptions(), MJAReval.getRscriptBasePath(), MJAReport#readTextToFile, Rtest#createDemoRscript

getRscriptByRLOid

java.lang.String getRscriptByRLOid(int rloID)

getRscriptByRLOid() - generate or read the current Rscript into RscriptText. Also set the editRLOflag to false. If it is a demo script, it will regenerate it and write it to the installRscriptBase path.

Parameters:

rloID - - of script to get

Returns:

RscriptText if succeed

updateTitleMsgs

void updateTitleMsgs()

updateTitleMsgs() - update the title messages

setRLOdbFromRLOedit

boolean setRLOdbFromRLOedit()

setRLOdbFromRLOedit() - set the RLO database from the edit state for current RLO. Only set the database if the RLO is well formed, else no-op.

Returns:

true if succeed in update, false if failed or no update required.

See Also:

MJAReval.setRLO(int, java.lang.String, java.lang.String, java.lang.String, java.lang.String[], int[], int, int, java.lang.String[], int[], java.lang.String[], java.lang.String[], int[], java.lang.String)

checkWellFormedEditRLO

boolean checkWellFormedEditRLO()

checkWellFormedEditRLO() - check if current edit RLO is well formed

 1. The RscriptName must be defined and well formed (".R" ext).
 2. The Menu name must be defined
 3. [TODO] check rest of RLO fields if necessary

Returns:

true if well formed

setPopupEditVisible

void setPopupEditVisible(boolean flag)

setPopupEditVisible() - enable/disable popup edit RLO window

Parameters:

flag - to enable/disable

paint

public void paint(java.awt.Graphics g)

paint() - update window

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

handleEvent

public boolean handleEvent(java.awt.Event evt)

handleEvent() - process special events

Overrides:

handleEvent in class java.awt.Component

closeRLOedit

void closeRLOedit(boolean saveRLOflag)

closeRLOedit() - popdown the window and clear the edit state.

Parameters:

saveRLOflag - save RLO to file if set

See Also:

setPopupEditVisible(boolean)

onlyOnePrologueEpilogueTag

public java.lang.String onlyOnePrologueEpilogueTag(java.lang.String str)

onlyOnePrologueEpilogueTag() - Omit extra prologue/epilogue tags, save only the first one encountered. [TODO] this is being redone to take into account the actual way nested P/Es are used.

 For example:
  if the input is P1E1P2codeE2 it will return P1E1, 
  if the input is P1P2codeE2E1 it will return P1E1,

Note: Must input string str must not contain '\r's so the must be remapped to '\n's prior to this call.

Parameters:

str - String to be checked for extra starts/ends

Returns:

String, filtered of extra starts/ends

genPrologue

java.lang.String genPrologue()

genPrologue() - generate prologue R script to read data commands. Generate the Rscript. It calls genClientReaderPrologue() to generate the code.

Returns:

Rscript if OK, else null. Then sMsg contains error message

See Also:

#genClientReaderPrologue

genEpilogue

java.lang.String genEpilogue()

genEpilogue() - generate epilogue R script to write data commands to put R created data into Temp/ folder for reading by MAExplorer when required by actions in the RLO specification.

If tabDelimReportFile exists and an objAction is specified, then it will write out the following R object with write.table().

It calls genClientEpilogue() to generate the code.

Returns:

Rscript if OK, else null. Then sMsg contains error message

See Also:

#genClientEpilogue

extractUserRscript

public java.lang.String extractUserRscript(java.lang.String completeRscript)

extractUserRscript() - extract user R script from center of complete.

 R script. It is defined as the code between
   PROLOGUE_END
 and
   EPILOGUE_START

If no template code is there, just return what is there.

Parameters:

completeRscript - is complete R script with (prologue, userRscript,epilogue)

Returns:

user R script from complete R script

actionPerformed

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

actionPerformed() - Handle Control panel button clicks

Specified by:

actionPerformed in interface java.awt.event.ActionListener

See Also:

MJAReport#readTextToFile, showPEmsg(java.lang.String, java.awt.Color, java.awt.Color), closeRLOedit(boolean), setRLOdbFromRLOedit()

itemStateChanged

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

itemStateChanged() - handle item state changed eventsms.

Specified by:

itemStateChanged in interface java.awt.event.ItemListener

Parameters:

e - is ItemEvent

See Also:

MJAReval.clearGenRbit(int), MJAReval.setGenRbit(int), MJAReval.getCurrentRLOid(), Rtest#createDemoRscript

textValueChanged

public void textValueChanged(java.awt.event.TextEvent e)

textValueChanged() - event handler for TextArea

Specified by:

textValueChanged in interface java.awt.event.TextListener

rebuildWizardPanel

private boolean rebuildWizardPanel(int newWizardNbr)

rebuildWizardPanel() - rebuild Wizard elements and the new wizardLabel in the wizardPanel.

Parameters:

newWizardNbr - (1 to 8) to specify elements to set in wizardPanel We use the numbering (1 to 8) of the wizards in the wizardName[] array.

Returns:

true if succeed

setupProcessCheckboxesStates

void setupProcessCheckboxesStates()

setupProcessCheckboxesStates() - set all processBits checkbox states based on RLO state

See Also:

MJAReval.isProcessBit(int)

setupGenRcheckboxesStates

void setupGenRcheckboxesStates()

setupGenRcheckboxesStates() - set all genRbits checkbox states based on RLO state

See Also:

MJAReval.isGenRbit(int)

changeWizardMenuMode

void changeWizardMenuMode(boolean demoModeFlag)

changeWizardMenuMode() - change Wizard menu between Demo or non-demo RLO. If demo mode, just make wizard7Panel active and disable the choice. If non-demo mode, start with wizard0Panel active and activate choice.

Parameters:

demoModeFlag - to set the checkboxes

resetEditRLObuttons

void resetEditRLObuttons(boolean flag)

resetEditRLObuttons() - enable/disable Edit Buttons. Do NOT disable close button.

Parameters:

flag - to set the buttons

keyPressed

public void keyPressed(java.awt.event.KeyEvent e)

keyPressed() - key pressed in TextField

Specified by:

keyPressed in interface java.awt.event.KeyListener

keyReleased

public void keyReleased(java.awt.event.KeyEvent e)

keyReleased() - key released in TextField

Specified by:

keyReleased in interface java.awt.event.KeyListener

keyTyped

public void keyTyped(java.awt.event.KeyEvent e)

keyTyped() - key typed in TextField

Specified by:

keyTyped in interface java.awt.event.KeyListener

validateInFileListsSize

private void validateInFileListsSize(int size)

validateInFileListsSize() - grow or create RLO Input File lists size

Parameters:

size - is new size for the list

validateOutFileListsSize

private void validateOutFileListsSize(int size)

validateOutFileListsSize() - grow or create RLO Output File lists Sizes

Parameters:

size - is new size for the list

validateR2ClientlistsSize

private void validateR2ClientlistsSize(int size)

validateR2ClientlistsSize() - grow or create R2Client lists Sizes

Parameters:

size - is new size for the list

windowClosing

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

windowClosing() - close down the window after saving the RLO

Specified by:

windowClosing in interface java.awt.event.WindowListener

See Also:

closeRLOedit(boolean)

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