char altLoc
float[] anisoBorU
java.lang.String atomName
int atomSerial
int atomSetIndex
int atomSite
float bfactor
BS bsSymmetry
int chainID
short elementNumber
java.lang.String elementSymbol
float foccupancy
int formalCharge
java.lang.String group3
boolean ignoreSymmetry
int index
char insertionCode
boolean isHetero
float partialCharge
float radius
int sequenceNumber
javajs.util.Lst<java.lang.Object> tensors
javajs.util.V3 vib
java.awt.Color bgcolor
int clockBaseline
int clockWidth
int clockX
java.awt.Font font
int fontAscent
int fontHeight
java.awt.FontMetrics fontMetrics
int fontSize
boolean isSigned
java.awt.MediaTracker mediaTracker
boolean needToCompleteInitialization
int preloadClassIndex
java.lang.String[] preloadClassNames
java.awt.Image preloadImage
java.lang.String preloadImageName
boolean preloadImagePainted
boolean preloadImageReadyForDisplay
java.lang.String preloadTextMessage
int preloadThreadCount
java.lang.String previousClassName
long startTime
java.awt.Color textColor
WrappedApplet wrappedApplet
int opacity
java.awt.Canvas canvas
JmolAppConsoleInterface console
java.awt.Image image
java.util.Map<java.lang.String,javajs.api.GenericImageDialog> imageMap
javax.swing.JMenuBar menubar
java.lang.String title
Viewer vwr
java.lang.String key
java.lang.String key
java.lang.String key
java.lang.String key
java.lang.String key
javax.swing.text.SimpleAttributeSet attEcho
javax.swing.text.SimpleAttributeSet attError
javax.swing.text.SimpleAttributeSet attHighlight
javax.swing.JPanel buttonPanel
javax.swing.JButton checkButton
javax.swing.JButton clearButton
javax.swing.JButton closeButton
javax.swing.JButton consoleButton
ScriptEditor.EditorTextPane editor
java.lang.String filename
javax.swing.JButton fontButton
int fontSize
javax.swing.JButton haltButton
JmolConsole jmolConsole
javax.swing.JButton loadButton
javax.swing.JButton openButton
ScriptContext parsedContext
java.lang.String parsedData
javax.swing.JButton pauseButton
javax.swing.JButton resumeButton
javax.swing.JButton runButton
javax.swing.JButton stateButton
javax.swing.JButton stepButton
java.lang.String title
javax.swing.JButton topButton
Viewer vwr
javax.swing.JComboBox<java.lang.String> cb
java.lang.String choice
java.lang.String dialogType
java.lang.String extension
java.lang.String[] extensions
java.lang.String[] imageChoices
java.lang.String[] imageExtensions
java.lang.String imageType
java.io.File initialFile
java.lang.String inputFileName
FilePreview openPreview
java.lang.String outputFileName
javax.swing.JPanel qPanelJPEG
javax.swing.JPanel qPanelPNG
javax.swing.JSlider qSliderJPEG
javax.swing.JSlider qSliderPNG
int qualityJ
int qualityP
Viewer vwr
javax.swing.JDialog dialog
java.awt.Point dialogLocation
java.awt.Dimension dialogSize
javax.swing.JCheckBox active
javax.swing.JCheckBox append
javax.swing.JCheckBox cartoons
javax.swing.JFileChooser chooser
FilePreview.FPPanel display
Viewer vwr
char altloc
short atomicAndIsotopeNumber
byte atomID
int atomSite
BS atomSymmetry
Bond[] bonds
int clickabilityFlags
short colixAtom
byte formalChargeAndFlags
Group group
short madAtom
int nBackbonesDisplayed
int nBondsDisplayed
byte paletteID
int shapeVisibilityFlags
float userDefinedVanDerWaalRadius
byte valence
ScriptEval eval
boolean isError
java.lang.String message
java.lang.String untranslated
boolean aromaticAmbiguous
float atomClass
int atomicMass
int atomNumber
int atomSite
java.lang.String atomType
java.lang.String bioAtomName
char bioType
int bondCount
SmilesBond[] bonds
int charge
int component
int connectivity
int covalentHydrogenCount
int degree
boolean elementDefined
int elementNumber
int explicitHydrogenCount
boolean hasSubpattern
boolean hasSymbol
int implicitHydrogenCount
int index
int iNested
char insCode
boolean isAND
boolean isAromatic
boolean isBioAtom
boolean isBioAtomWild
boolean isBioResidue
boolean isFirst
boolean isLeadAtom
boolean isTopoAtom
int jmolIndex
int mapIndex
int matchingComponent
int matchingIndex
Node matchingNode
int missingHydrogenCount
int nonhydrogenDegree
boolean not
int notBondedIndex
boolean notCrossLinked
int nSubAtoms
SmilesAtom parent
java.lang.String pattern
int primitiveType
java.lang.String referance
java.lang.String residueChar
java.lang.String residueName
int residueNumber
int ringConnectivity
int ringMembership
int ringSize
boolean selected
SmilesStereo stereo
SmilesAtom[] subAtoms
java.lang.String symbol
int valence
float[] axesLengths
boolean enabled
double fileOcc
javajs.util.M3 gammaE
javajs.util.Matrix gammaIinv
java.util.Map<java.lang.String,java.lang.Float> htUij
java.lang.String id
int iop
boolean isCommensurate
boolean isQ
boolean isSubsystem
ModulationSet modCalc
javajs.util.Lst<Modulation> mods
javajs.util.V3 mxyz
int nOps
boolean occAbsolute
double[] occParams
double occSiteMultiplicity
float occValue
javajs.util.P3 ptTemp
javajs.util.P3 qtOffset
javajs.util.P3 r0
javajs.util.Matrix rI
javajs.util.Matrix rsvs
float scale
javajs.util.Matrix sigma
float spinOp
java.lang.String strop
SymmetryInterface symmetry
javajs.util.Matrix tau
javajs.util.Matrix tFactorInv
javajs.util.V3 v0
Vibration vib
float vOcc
int i
short mi
short sD
int sX
int sY
int sZ
int modDim
float modScale
boolean showTrace
javajs.util.P3[] trace
int tracePt
java.lang.String fileName
javax.swing.JButton browseButton
java.awt.Checkbox checkFilenames
java.awt.Checkbox checkSigned
java.awt.Checkbox checkSubs
javax.swing.JTextField chimePath
javax.swing.JFileChooser chooser
boolean doFixFilenames
boolean doSubdirectories
boolean doUseSigned
javax.swing.JButton goButton
javax.swing.JTextArea logArea
javax.swing.JScrollPane logScrollPane
java.io.File myDir
int nDir
int nFiles
java.io.File oldDir
java.util.List<java.io.File> pages
java.lang.String rootDir
javax.swing.JSlider amplitudeSlider
java.lang.Thread animThread
int currentIndex
javax.swing.JSlider fpsSlider
int[] indexes
javax.swing.JLabel infoLabel
javax.swing.JSlider periodSlider
javax.swing.JTextArea propertiesTextArea
javax.swing.JSlider radiusSlider
int radiusValue
javax.swing.JCheckBox repeatCheckBox
javax.swing.JFileChooser saveChooser
javax.swing.JSlider scaleSlider
javax.swing.JSlider selectSlider
javax.swing.JTree tree
javax.swing.tree.DefaultTreeModel treeModel
Viewer vwr
javax.swing.Action axesAction
java.awt.Point border
javax.swing.Action bottomAction
javax.swing.Action boundboxAction
javax.swing.AbstractButton buttonModelkit
javax.swing.AbstractButton buttonRotate
DisplayPanel.DefineCenterAction defineCenterAction
javax.swing.Action deleteAction
java.awt.Dimension dimSize
java.lang.String displaySpeed
javax.swing.JFrame frame
javax.swing.Action frontAction
boolean haveBorder
boolean haveDisplay
DisplayPanel.HomeAction homeAction
javax.swing.Action hydrogensAction
JmolPanel jmolPanel
int lastMotionEventNumber
javax.swing.Action leftAction
javax.swing.Action measurementsAction
MeasurementTable measurementTable
javax.swing.Action perspectiveAction
java.awt.Rectangle rectClip
javax.swing.Action rightAction
boolean showPaintTime
java.awt.Dimension startupDimension
StatusBar status
long timeBegin
javax.swing.ButtonGroup toolbarButtonGroup
javax.swing.Action topAction
Viewer vwr
javax.swing.Action xlateAction
javax.swing.Action zoomAction
javax.swing.JComboBox<java.lang.String> basisBox
java.lang.String charge
javax.swing.JSpinner chargeSpinner
java.lang.String check
javax.swing.JTextField checkField
javax.swing.JButton closeButton
javax.swing.JPanel container
javax.swing.JComboBox<java.lang.String> dfBox
javax.swing.JTextPane editArea
javax.swing.JScrollPane editPane
java.lang.String file
javax.swing.JButton fileButton
javax.swing.JFileChooser fileChooser
javax.swing.JTextField fileField
int iscroll
java.lang.String mem
javax.swing.JComboBox<java.lang.String> memBox
java.lang.String meth
javax.swing.JComboBox<java.lang.String> methBox
java.lang.String mult
javax.swing.JSpinner multSpinner
javax.swing.JTextField optsField
java.lang.String proc
javax.swing.JSpinner procSpinner
javax.swing.JButton refreshButton
java.lang.String route
javax.swing.JButton saveButton
java.lang.String select
javax.swing.JTextField selectField
Viewer vwr
javax.swing.JEditorPane html
java.lang.String appletContext
AtomSetChooser atomSetChooser
java.util.Map<java.lang.String,javax.swing.Action> commands
javax.swing.JFrame consoleframe
JmolPanel.CopyImageAction copyImageAction
JmolPanel.CopyScriptAction copyScriptAction
javax.swing.Action[] defaultActions
DisplayPanel display
JmolPanel.ExecuteScriptAction executeScriptAction
JmolPanel.ExportAction exportAction
javax.swing.JFrame frame
GaussianDialog gaussianDialog
GuiMap guimap
java.lang.String imageType
JmolApp jmolApp
java.util.Map<java.lang.String,javax.swing.JMenuItem> menuItems
JmolAdapter modelAdapter
StatusListener myStatusListener
NBODialog nboDialog
NBOService nboService
JmolPanel.PasteClipboardAction pasteClipboardAction
java.beans.PropertyChangeSupport pcs
JmolPanel.PovrayAction povrayAction
PreferencesDialog preferencesDialog
JmolPanel.PrintAction printAction
int qualityJPG
int qualityPNG
RecentFilesDialog recentFiles
JsonNioServer serverService
JsonNioServer service
SplashInterface splash
int startupHeight
int startupWidth
StatusBar status
SurfaceTool surfaceTool
JmolPanel.SurfaceToolAction surfaceToolAction
javax.swing.JToolBar toolbar
JmolPanel.ToWebAction toWebAction
JmolPanel.ViewMeasurementTableAction viewMeasurementTableAction
Viewer vwr
java.util.Map<java.lang.String,java.lang.Object> vwrOptions
WebExport webExport
JmolPanel.WriteAction writeAction
javax.swing.JButton deleteAllButton
javax.swing.JButton deleteButton
javax.swing.JTable measurementTable
MeasurementTable.MeasurementTableModel measurementTableModel
int selectedMeasurementRow
java.lang.Class<? extends java.lang.String> stringClass
Viewer vwr
javax.swing.JCheckBox allFramesCheck
javax.swing.JCheckBox antiAliasCheck
javax.swing.JCheckBox displayWhileRenderingCheck
javax.swing.JButton goButton
javax.swing.JLabel imageSizeHeight
javax.swing.JCheckBox imageSizeRatioBox
javax.swing.JComboBox<java.lang.String> imageSizeRatioCombo
javax.swing.JFormattedTextField imageSizeTextHeight
javax.swing.JFormattedTextField imageSizeTextWidth
javax.swing.JLabel imageSizeWidth
javax.swing.JCheckBox mosaicPreviewCheck
javax.swing.JComboBox<java.lang.String> mosaicPreviewComboEnd
javax.swing.JComboBox<java.lang.String> mosaicPreviewComboStart
javax.swing.JLabel mosaicPreviewEnd
javax.swing.JLabel mosaicPreviewStart
javax.swing.JCheckBox outputAlphaCheck
java.lang.String outputExtension
java.lang.String outputFileType
javax.swing.JCheckBox outputFormatCheck
javax.swing.JComboBox<java.lang.String> outputFormatCombo
int outputHeight
int outputWidth
javax.swing.JButton povrayPathButton
javax.swing.JTextField povrayPathLabel
javax.swing.JCheckBox runPovCheck
javax.swing.JTextField saveField
javax.swing.JTextField savePathLabel
javax.swing.JRadioButton abNo
javax.swing.JRadioButton abYes
javax.swing.JButton applyButton
boolean autoBond
boolean axesOrientationRasmol
javax.swing.JButton bButton
javax.swing.JSlider bdSlider
int bondingVersion
float bondTolerance
javax.swing.JSlider btSlider
javax.swing.JSlider bwSlider
javax.swing.JButton cancelButton
javax.swing.JCheckBox cbAxesOrientationRasmol
javax.swing.JCheckBox cbClearHistory
javax.swing.JCheckBox cbOpenFilePreview
javax.swing.JCheckBox cbPerspectiveDepth
javax.swing.JCheckBox cbShowAxes
javax.swing.JCheckBox cbShowBoundingBox
javax.swing.JCheckBox cH
java.awt.event.ItemListener checkBoxListener
boolean clearHistory
javax.swing.JCheckBox cM
java.util.Map<java.lang.String,javax.swing.Action> commands
java.util.Properties currentProperties
javax.swing.JButton eButton
int fontScale
GuiMap guimap
JmolPanel jmol
java.util.Properties jmolDefaultProperties
javax.swing.JButton jmolDefaultsButton
short marBond
float minBondDistance
javax.swing.JButton okButton
boolean openFilePreview
java.util.Properties originalSystemProperties
javax.swing.JButton pButton
int percentVdwAtom
boolean perspectiveDepth
PreferencesDialog.PrefsAction prefsAction
javax.swing.JButton rasmolDefaultsButton
boolean showAxes
boolean showBoundingBox
boolean showHydrogens
boolean showMeasurements
javax.swing.JButton tButton
javax.swing.JButton vButton
javax.swing.JSlider vdwPercentSlider
Viewer vwr
int imgHeight
int imgWidth
java.awt.Image splashImage
java.lang.String status
int statusTop
int textY
javax.swing.JLabel bannerLabel
boolean isSet
javax.swing.JTextField jtRawInput
javax.swing.JTextField appletPath
ArrayListTransferHandler arrayListHandler
javax.swing.JFileChooser fc
javax.swing.JButton FileButton
javax.swing.JButton movetoTime
javax.swing.JButton PathButton
javax.swing.JButton StateButton
javax.swing.JButton StringtoScriptButton
Viewer vwr