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# Serialized Form

Package biouml.model.htmlgen

Class biouml.model.htmlgen.GenerateHTMLAction extends javax.swing.AbstractAction implements Serializable

Class biouml.model.htmlgen.GenerateHTMLDialog extends OkCancelDialog implements Serializable

Serialized Fields

### content

    javax.swing.JPanel content

### module

    Module module

### diagram

    Diagram diagram

### modulesComboBox

    javax.swing.JComboBox modulesComboBox

### diagramsComboBox

    javax.swing.JComboBox diagramsComboBox

### diagramsLabal

    javax.swing.JLabel diagramsLabal

### outputFolderTextField

    javax.swing.JTextField outputFolderTextField

### templateTextField

    javax.swing.JTextField templateTextField

### scopeComboBox

    javax.swing.JComboBox scopeComboBox

Package biouml.plugins.matlab

Class biouml.plugins.matlab.MatlabEngineControl extends SimulationEnginePane implements Serializable

Serialized Fields

### closeAction

    javax.swing.Action closeAction

Class biouml.plugins.matlab.MatlabErrorDialog extends OkCancelDialog implements Serializable

Serialized Fields

### propertyInspector

    com.beanexplorer.swing.PropertyInspector propertyInspector

### diagramElement

    DiagramElement diagramElement

Class biouml.plugins.matlab.MatlabErrorPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### info

    javax.swing.JTextArea info

Package biouml.plugins.sbml

Class biouml.plugins.sbml.CreateDiagramElementDialog extends OkCancelDialog implements Serializable

Serialized Fields

### diagram

    Diagram diagram

### parent

    Compartment parent

### type

    java.lang.Class type

### resources

    MessageBundle resources

### nameField

    javax.swing.JTextField nameField

### specieType

    javax.swing.JComboBox specieType

### node

    Node node

Package biouml.plugins.sbml._test

Class biouml.plugins.sbml._test.AutoTest extends TestCase implements Serializable

Class biouml.plugins.sbml._test.SbmlJavaTest extends TestCase implements Serializable

Class biouml.plugins.sbml._test.SbmlMatlabTest extends TestCase implements Serializable

Class biouml.plugins.sbml._test.SbmlReaderTest extends TestCase implements Serializable

Class biouml.plugins.sbml._test.SbmlSemanticTest extends TestCase implements Serializable

Class biouml.plugins.sbml._test.SbmlWriterTest extends TestCase implements Serializable

Package biouml.plugins.simulation

Class biouml.plugins.simulation.RepositoryActionsProvider.ShowPlotAction extends javax.swing.AbstractAction implements Serializable

Class biouml.plugins.simulation.SimulationEnginePane extends EditorPartSupport implements Serializable

Serialized Fields

### log

    org.apache.log4j.Category log

### inspector

    com.beanexplorer.swing.PropertyInspector inspector

### categoryList

    java.lang.String[] categoryList

### appender

    TextPaneAppender appender

### simulationEngine

    SimulationEngine simulationEngine

### executableModel

    EModel executableModel

### view

    javax.swing.JComponent view

### model

    java.lang.Object model

### actions

    javax.swing.Action[] actions

### generateCodeAction

    javax.swing.Action generateCodeAction

### simulateAction

    javax.swing.Action simulateAction

### saveResultAction

    javax.swing.Action saveResultAction

### plotAction

    javax.swing.Action plotAction

### simulationResult

    SimulationResult simulationResult

Class biouml.plugins.simulation.SimulationPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### simulationControl

    SimulationControl simulationControl

### inspector

    com.beanexplorer.swing.PropertyInspector inspector

### appender

    TextPaneAppender appender

### jobControlPane

    JobControlPane jobControlPane

### dataset

    org.jfree.data.XYSeriesCollection dataset

### chart

    org.jfree.chart.JFreeChart chart

### startButton

    javax.swing.JButton startButton

### stopButton

    javax.swing.JButton stopButton

### progress

    javax.swing.JProgressBar progress

### legends

    java.util.HashMap legends

Package biouml.plugins.simulation.java

Class biouml.plugins.simulation.java.JavaEngineControl extends SimulationEnginePane implements Serializable

Package biouml.plugins.simulation.plot

Class biouml.plugins.simulation.plot.PlotDialog extends OkCancelDialog implements Serializable

Serialized Fields

### messageBundle

    MessageBundle messageBundle

### jTabPanel

    javax.swing.JTabbedPane jTabPanel

### editor

    PlotEditorPane editor

### chart

    PlotPane chart

Class biouml.plugins.simulation.plot.PlotEditorPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### messageBundle

    MessageBundle messageBundle

### plotEx

    PlotEx plotEx

### plotInspector

    com.beanexplorer.swing.PropertyInspector plotInspector

### tabSeriesInspector

    com.beanexplorer.swing.TabularPropertyInspector tabSeriesInspector

### resultName

    javax.swing.JComboBox resultName

### xVariable

    javax.swing.JComboBox xVariable

### yVariable

    javax.swing.JComboBox yVariable

### plotType

    javax.swing.JComboBox plotType

### addButton

    javax.swing.JButton addButton

### removeButton

    javax.swing.JButton removeButton

Class biouml.plugins.simulation.plot.PlotPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### chart

    org.jfree.chart.JFreeChart chart

### plot

    Plot plot

### resultCollection

    DataCollection resultCollection

### seriesChanged

    boolean seriesChanged

Package biouml.standard.diagram

Class biouml.standard.diagram.CreateDiagramElementDialog extends OkCancelDialog implements Serializable

Serialized Fields

### resources

    MessageBundle resources

### parent

    Compartment parent

### node

    Node node

### type

    java.lang.Class type

### cbName

    javax.swing.JComboBox cbName

### cbTitle

    javax.swing.JComboBox cbTitle

### cbTitleModel

    javax.swing.ComboBoxModel cbTitleModel

### explorerPane

    ExplorerPane explorerPane

### kernelDC

    DataCollection kernelDC

### selectedKernel

    Base selectedKernel

Class biouml.standard.diagram.CreateEdgeDialog extends OkCancelDialog implements Serializable

Serialized Fields

### content

    SemanticRelationPane content

Class biouml.standard.diagram.CreateReactionDialog extends OkCancelDialog implements Serializable

Serialized Fields

### reactionPane

    ReactionPane reactionPane

Class biouml.standard.diagram.DiagramElementSelector extends javax.swing.JPanel implements Serializable

Serialized Fields

### button

    javax.swing.JRadioButton button

### field

    javax.swing.JTextField field

### diagramElement

    DiagramElement diagramElement

Class biouml.standard.diagram.NoteLinkPane extends SemanticRelationPane implements Serializable

Class biouml.standard.diagram.ReactionPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### diagram

    Diagram diagram

### compartment

    Compartment compartment

### point

    java.awt.Point point

### viewEditor

    ViewEditorPane viewEditor

### adapter

    ViewPaneAdapter adapter

### componentName

    javax.swing.JTextField componentName

### variableName

    javax.swing.JTextField variableName

### componentRole

    javax.swing.JComboBox componentRole

### components

    com.beanexplorer.swing.table.DefaultRowModel components

### componentsTable

    com.beanexplorer.swing.TabularPropertyInspector componentsTable

### reactionRate

    javax.swing.JTextField reactionRate

### resources

    java.util.ResourceBundle resources

Class biouml.standard.diagram.SemanticRelationPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### inSelector

    DiagramElementSelector inSelector

### outSelector

    DiagramElementSelector outSelector

### relation

    Base relation

### parent

    Compartment parent

### viewEditor

    ViewEditorPane viewEditor

### adapter

    ViewPaneAdapter adapter

### okButton

    javax.swing.JButton okButton

Package biouml.standard.filter

Class biouml.standard.filter.ActionEditor.ActionComboBox extends com.beanexplorer.editors.ColorComboBox implements Serializable

Class biouml.standard.filter.ActionEditor.ActionRenderer extends javax.swing.JLabel implements Serializable

Serialized Fields

### action

    Action action

Package biouml.standard.type.access

Class biouml.standard.type.access.TitleSqlIndex extends java.util.HashMap implements Serializable

Serialized Fields

### sqlDC

    SqlDataCollection sqlDC

### titleList

    java.util.List titleList

### listenerList

    javax.swing.event.EventListenerList listenerList

### selectedItem

    java.lang.Object selectedItem

### index

    int index

Package biouml.workbench

Class biouml.workbench.AskIDDialog extends OkCancelDialog implements Serializable

Serialized Fields

### id

    javax.swing.JTextField id

### content

    javax.swing.JPanel content

Class biouml.workbench.BioUMLApplication extends ApplicationFrame implements Serializable

Serialized Fields

### diagramViewListener

    BioUMLApplication.DiagramViewListener diagramViewListener

Class biouml.workbench.NewDataElementAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.PreferencesAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.PreferencesDialog extends javax.swing.JDialog implements Serializable

Class biouml.workbench.RemoveDataElementAction extends javax.swing.AbstractAction implements Serializable

Package biouml.workbench.diagram

Class biouml.workbench.diagram.ClipboardView extends ViewPartSupport implements Serializable

Serialized Fields

### clipboardModel

    com.beanexplorer.swing.table.DefaultRowModel clipboardModel

### clipboardTable

    com.beanexplorer.swing.TabularPropertyInspector clipboardTable

### exploredDiagramElement

    DiagramElement exploredDiagramElement

### copyAction

    javax.swing.Action copyAction

### pasteAction

    javax.swing.Action pasteAction

### deleteAction

    javax.swing.Action deleteAction

### actions

    javax.swing.Action[] actions

Class biouml.workbench.diagram.CloseDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.ConvertDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.ConvertDiagramDialog extends ProcessDiagramDialog implements Serializable

Serialized Fields

### currentType

    javax.swing.JLabel currentType

### diagramType

    javax.swing.JComboBox diagramType

### conversions

    DiagramTypeConverterRegistry.Conversion[] conversions

Class biouml.workbench.diagram.DiagramDescriptionEditor extends HtmlEditor implements Serializable

Class biouml.workbench.diagram.DiagramsPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### tabbedPane

    javax.swing.JTabbedPane tabbedPane

### tabs

    java.util.HashMap tabs

Class biouml.workbench.diagram.ExportDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.ExportDiagramDialog extends ProcessDiagramDialog implements Serializable

Serialized Fields

### tfPath

    javax.swing.JTextField tfPath

### diagram

    Diagram diagram

### currentType

    javax.swing.JLabel currentType

### formatComboBox

    javax.swing.JComboBox formatComboBox

Class biouml.workbench.diagram.FilterView extends ViewPartSupport implements Serializable

Class biouml.workbench.diagram.ImportDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.ImportDiagramDialog extends ProcessDiagramDialog implements Serializable

Serialized Fields

### tfDiagramName

    javax.swing.JTextField tfDiagramName

### tfPath

    javax.swing.JTextField tfPath

### diagram

    Diagram diagram

### currentType

    javax.swing.JLabel currentType

### formatComboBox

    javax.swing.JComboBox formatComboBox

### module

    Module module

Class biouml.workbench.diagram.LegendView extends HtmlView implements Serializable

Class biouml.workbench.diagram.NewDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.NewDiagramDialog extends OkCancelDialog implements Serializable

Serialized Fields

### repository

    DataCollection repository

### moduleType

    javax.swing.JComboBox moduleType

### diagramName

    javax.swing.JTextField diagramName

### diagramType

    javax.swing.JComboBox diagramType

### diagramTypeDescription

    javax.swing.JEditorPane diagramTypeDescription

### diagramTypes

    java.lang.Class[] diagramTypes

### diagramCompleteName

    java.lang.String diagramCompleteName

Class biouml.workbench.diagram.OpenDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.ParametersTabularEditor extends TabularPropertiesEditor implements Serializable

Serialized Fields

### template

    java.lang.Object template

### executableModel

    EModel executableModel

Class biouml.workbench.diagram.ProcessDiagramDialog extends OkCancelDialog implements Serializable

Serialized Fields

### log

    org.apache.log4j.Category log

### appender

    TextPaneAppender appender

### diagram

    Diagram diagram

### messageBundle

    MessageBundle messageBundle

Class biouml.workbench.diagram.SaveAsDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.SaveDiagramAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.VariablesTabularEditor extends ParametersTabularEditor implements Serializable

Class biouml.workbench.diagram.ZoomInAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.diagram.ZoomOutAction extends javax.swing.AbstractAction implements Serializable

Package biouml.workbench.module

Class biouml.workbench.module.ExportModuleAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.module.ModuleExportDialog extends OkCancelDialog implements Serializable

Serialized Fields

### content

    javax.swing.JPanel content

### selectedFile

    java.io.File selectedFile

### manifest

    java.util.jar.Manifest manifest

### module

    Module module

### nameTextField

    javax.swing.JTextField nameTextField

### versionTextField

    javax.swing.JTextField versionTextField

### descTextField

    javax.swing.JTextField descTextField

### pathTextField

    javax.swing.JTextField pathTextField

Class biouml.workbench.module.ModuleInfoDialog extends OkCancelDialog implements Serializable

Serialized Fields

### content

    javax.swing.JPanel content

Class biouml.workbench.module.ModuleReplaceDialog extends OkCancelDialog implements Serializable

Serialized Fields

### content

    javax.swing.JPanel content

Class biouml.workbench.module.ModulesActivatingDialog extends OkCancelDialog implements Serializable

Serialized Fields

### mapping

    java.util.HashMap mapping

Class biouml.workbench.module.ModuleSetupAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.module.NewModuleAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.module.NewModuleDialog extends OkCancelDialog implements Serializable

Serialized Fields

### extensionMap

    java.util.HashMap extensionMap

  Hashmap for extensions: key=displayName, value= configuration element

### resources

    MessageBundle resources

### moduleName

    javax.swing.JTextField moduleName

### moduleType

    javax.swing.JComboBox moduleType

### moduleDescription

    javax.swing.JEditorPane moduleDescription

### content

    javax.swing.JPanel content

Class biouml.workbench.module.RemoveModuleAction extends javax.swing.AbstractAction implements Serializable

Class biouml.workbench.module.StatusInfoDialog extends OkCancelDialog implements Serializable

Serialized Fields

### appender

    TextPaneAppender appender

### infoLabel

    javax.swing.JLabel infoLabel

### progressBar

    javax.swing.JProgressBar progressBar

Package com.developmentontheedge.application

Class com.developmentontheedge.application.ApplicationFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

### documentManager

    DocumentManager documentManager

### panelManager

    PanelManager panelManager

### menuBar

    ApplicationMenuBar menuBar

### toolBar

    ApplicationToolBar toolBar

### statusBar

    ApplicationStatusBar statusBar

Class com.developmentontheedge.application.ApplicationMenu extends javax.swing.JMenu implements Serializable

Class com.developmentontheedge.application.ApplicationMenuBar extends javax.swing.JMenuBar implements Serializable

Class com.developmentontheedge.application.ApplicationPopupMenu extends javax.swing.JPopupMenu implements Serializable

Class com.developmentontheedge.application.ApplicationStatusBar extends javax.swing.JPanel implements Serializable

Serialized Fields

### label

    javax.swing.JLabel label

### preferredSize

    java.awt.Dimension preferredSize

### progressBar

    javax.swing.JProgressBar progressBar

### timer

    java.util.Timer timer

### target

    int target

Class com.developmentontheedge.application.ApplicationToolBar extends javax.swing.JToolBar implements Serializable

Serialized Fields

### buttons

    java.util.HashMap buttons

### mouseListener

    java.awt.event.MouseListener mouseListener

### border

    javax.swing.border.BevelBorder border

Class com.developmentontheedge.application.MapRegistry extends java.util.Properties implements Serializable

Class com.developmentontheedge.application.NamedPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

### label

    javax.swing.JLabel label

Class com.developmentontheedge.application.PanelManager extends javax.swing.JPanel implements Serializable

Serialized Fields

### infos

    java.util.HashMap infos

### defaultDividerSize

    int defaultDividerSize

### sizesDividerLocation

    java.util.HashMap sizesDividerLocation

Package com.developmentontheedge.application.action

Class com.developmentontheedge.application.action.ApplicationAction extends javax.swing.AbstractAction implements Serializable

Serialized Fields

### actionListeners

    java.util.Vector actionListeners

  Action listener

Class com.developmentontheedge.application.action.ApplicationAction.ActionAboutDialog extends ApplicationAction implements Serializable

Class com.developmentontheedge.application.action.ApplicationAction.ActionExit extends ApplicationAction implements Serializable

Class com.developmentontheedge.application.action.ApplicationAction.ActionHelp extends ApplicationAction implements Serializable

Class com.developmentontheedge.application.action.ApplicationAction.ActionPrint extends ApplicationAction implements Serializable

Class com.developmentontheedge.application.action.ApplicationAction.ActionPrintPreview extends ApplicationAction implements Serializable

Class com.developmentontheedge.application.action.ApplicationAction.ActionPrintSetup extends ApplicationAction implements Serializable

Class com.developmentontheedge.application.action.SeparatorAction extends javax.swing.AbstractAction implements Serializable

Class com.developmentontheedge.application.action.TogglePanelAction extends javax.swing.AbstractAction implements Serializable

Serialized Fields

### key

    java.lang.String key

### panelManager

    PanelManager panelManager

Package com.developmentontheedge.application.dialog

Class com.developmentontheedge.application.dialog.BrowseTextField extends TextButtonField implements Serializable

Serialized Fields

### selectedFile

    java.io.File selectedFile

### listeners

    java.util.Vector listeners

Class com.developmentontheedge.application.dialog.OkCancelDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

### mainPanel

    javax.swing.JPanel mainPanel

### buttonPanel

    javax.swing.JPanel buttonPanel

### okButton

    javax.swing.JButton okButton

  "Ok" button

### cancelButton

    javax.swing.JButton cancelButton

  "Cancel" button

### result

    boolean result

  Result of dialog executing

Class com.developmentontheedge.application.dialog.TextButtonField extends javax.swing.JPanel implements Serializable

Serialized Fields

### textField

    javax.swing.JTextField textField

### button

    javax.swing.JButton button

Package com.developmentontheedge.jobcontrol

Class com.developmentontheedge.jobcontrol.JobControlException extends java.lang.Exception implements Serializable

Serialized Fields

### status

    int status

### error

    java.lang.Throwable error

Class com.developmentontheedge.jobcontrol.JobControlPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### borderLayout1

    java.awt.BorderLayout borderLayout1

### toolBar

    com.developmentontheedge.jobcontrol.JobControlPane.MToolBar toolBar

### centerPanel

    javax.swing.JPanel centerPanel

### flowLayout1

    java.awt.FlowLayout flowLayout1

### progressBar

    javax.swing.JProgressBar progressBar

### gridBagLayout1

    java.awt.GridBagLayout gridBagLayout1

### labelPane

    javax.swing.JPanel labelPane

### statusLabel

    javax.swing.JLabel statusLabel

### label1

    javax.swing.JLabel label1

### remainingLabel

    javax.swing.JLabel remainingLabel

### elapsedLabel

    javax.swing.JLabel elapsedLabel

### titledBorder1

    javax.swing.border.TitledBorder titledBorder1

### jobControl

    JobControl jobControl

### actionTerminate

    JobAction actionTerminate

### actionPause

    JobAction actionPause

### actionStart

    JobAction actionStart

### cat

    org.apache.log4j.Category cat

Class com.developmentontheedge.jobcontrol.JobProgressBar extends javax.swing.JProgressBar implements Serializable

Package com.developmentontheedge.jobcontrol.action

Class com.developmentontheedge.jobcontrol.action.JobAction extends javax.swing.AbstractAction implements Serializable

Serialized Fields

### actionListeners

    java.util.Vector actionListeners

Package com.developmentontheedge.log

Class com.developmentontheedge.log.LogTextPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

### textArea

    javax.swing.JTextArea textArea

Package com.developmentontheedge.print

Class com.developmentontheedge.print.PagePreview extends javax.swing.JPanel implements Serializable

Serialized Fields

### component

    JPrintableComponent component

### format

    java.awt.print.PageFormat format

### index

    int index

Class com.developmentontheedge.print.PreviewDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

### componentToPreview

    javax.swing.JComponent componentToPreview

### toolbar

    javax.swing.JComponent toolbar

### previewPanel

    javax.swing.JComponent previewPanel

Class com.developmentontheedge.print.PrintAction extends javax.swing.AbstractAction implements Serializable

Class com.developmentontheedge.print.PrintPreviewAction extends javax.swing.AbstractAction implements Serializable

Class com.developmentontheedge.print.PrintSetupAction extends javax.swing.AbstractAction implements Serializable

Package ru.biosoft.access

Class ru.biosoft.access.CreateDataCollectionDefaultController extends javax.swing.JDialog implements Serializable

Serialized Fields

### borderLayout1

    java.awt.BorderLayout borderLayout1

### pButtons

    javax.swing.JPanel pButtons

### flowLayout1

    java.awt.FlowLayout flowLayout1

### bCancel

    javax.swing.JButton bCancel

### bYes

    javax.swing.JButton bYes

### bAll

    javax.swing.JButton bAll

### lMessage

    javax.swing.JLabel lMessage

### returnValue

    int returnValue

### bFirst

    boolean bFirst

To do:
  Document it

### jobControl

    FunctionJobControl jobControl

Class ru.biosoft.access.DataCollectionAddUndo extends DataCollectionRemoveUndo implements Serializable

Class ru.biosoft.access.DataCollectionEvent extends java.util.EventObject implements Serializable

Serialized Fields

### type

    int type

### dataElementName

    java.lang.String dataElementName

### owner

    DataCollection owner

### primaryEvent

    DataCollectionEvent primaryEvent

Class ru.biosoft.access.DataCollectionRemoveUndo extends javax.swing.undo.AbstractUndoableEdit implements Serializable

Serialized Fields

### element

    DataElement element

### parent

    DataCollection parent

Class ru.biosoft.access.DataCollectionVetoException extends java.lang.Exception implements Serializable

Class ru.biosoft.access.IndexTable extends java.util.Hashtable implements Serializable

Serialized Fields

### delimiters

    java.lang.String delimiters

  Delimiter characters.

  Default value is: `";\t\r\n"`.

### start

    java.lang.String start

  String from wich any entry is started. Default value is: `"ID"`.

### end

    java.lang.String end

  String by wich any entry is finished. Default value is: `"//"` .

### startKey

    java.lang.String startKey

  Name of indexed startKey.

### indexList

    java.util.Vector indexList

  The vector of sorted alphabetically field values.

### indexFile

    java.io.RandomAccessFile indexFile

  Index file.

### indexFileName

    java.io.File indexFileName

  Name of index file.

Class ru.biosoft.access.MemIndex extends java.util.HashMap implements Serializable

Serialized Fields

### indexFileName

    java.io.File indexFileName

  Name of index file

### valid

    boolean valid

To do:
  Document

Package ru.biosoft.access.repository

Class ru.biosoft.access.repository.RepositoryPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### model

    javax.swing.tree.TreeModel model

### jTree

    javax.swing.JTree jTree

### rootDataCollection

    DataCollection rootDataCollection

### actionsProvider

    ActionsProvider actionsProvider

### listeners

    java.util.Vector listeners

Package ru.biosoft.access.search

Class ru.biosoft.access.search.DataSearch extends javax.swing.JFrame implements Serializable

Serialized Fields

### primaryCollection

    DataCollection primaryCollection

### tabularInspector

    com.beanexplorer.swing.TabularPropertyInspector tabularInspector

### filterInspector

    com.beanexplorer.swing.PropertyInspector filterInspector

### columnsInspector

    com.beanexplorer.swing.PropertyInspector columnsInspector

### explorerPane

    ExplorerPane explorerPane

### filteringSettings

    FilteringSettings filteringSettings

### buttonsPanel

    javax.swing.JPanel buttonsPanel

### jobBar

    JobProgressBar jobBar

### startButton

    javax.swing.JButton startButton

### cancelButton

    javax.swing.JButton cancelButton

Class ru.biosoft.access.search.DataSearchAction extends javax.swing.AbstractAction implements Serializable

Package ru.biosoft.access.support

Class ru.biosoft.access.support.AbstractExportDialog extends OkCancelDialog implements Serializable

Serialized Fields

### frame

    ApplicationFrame frame

  A frame for dialog

### browseTextField

    BrowseTextField browseTextField

  Browse text

### comboBoxFormat

    javax.swing.JComboBox comboBoxFormat

  Format selection combobox

### nameCombobox

    javax.swing.JComboBox nameCombobox

  Name selection combobox

### checkBoxCopyFile

    javax.swing.JCheckBox checkBoxCopyFile

  copy file select box

### checkBoxSortingSites

    javax.swing.JCheckBox checkBoxSortingSites

### checkBoxExportSequence

    javax.swing.JCheckBox checkBoxExportSequence

### showFormatComboBox

    boolean showFormatComboBox

### showCheckBoxCopyFile

    boolean showCheckBoxCopyFile

### controlPane

    JobControlPane controlPane

  JobControlPane to control export process.

### appender

    TextPaneAppender appender

### dcNames

    java.util.Vector dcNames

### jobControl

    FunctionJobControl jobControl

Class ru.biosoft.access.support.AbstractExportDialog.MPanel extends javax.swing.JPanel implements Serializable

Class ru.biosoft.access.support.AbstractImportDialog extends OkCancelDialog implements Serializable

Serialized Fields

### controller

    CreateDataCollectionController controller

### frame

    ApplicationFrame frame

  A frame for dialog

### browseTextField

    BrowseTextField browseTextField

  Browse text

  Pendung:
    (cher) variable browseTextField ought to be initialized in inner classes in future

### comboBoxFormat

    javax.swing.JComboBox comboBoxFormat

  Format selection combobox

### editName

    javax.swing.JTextField editName

  Name editor text field

### checkBoxCopyFile

    javax.swing.JCheckBox checkBoxCopyFile

  copy file select box

### haveComboBox

    boolean haveComboBox

### haveCheckBox

    boolean haveCheckBox

### menu

    javax.swing.JMenuItem menu

  Menu item connected with import

### controlPane

    JobControlPane controlPane

  JobControlPane to control import process.

### appender

    TextPaneAppender appender

### categoryList

    java.lang.String[] categoryList

### jobControl

    FunctionJobControl jobControl

Class ru.biosoft.access.support.AbstractImportDialog.ImportController extends CreateDataCollectionDefaultController implements Serializable

Class ru.biosoft.access.support.AbstractImportDialog.MPanel extends javax.swing.JPanel implements Serializable

Class ru.biosoft.access.support.DataCollectionMultyChoiceDialog extends OkCancelDialog implements Serializable

Serialized Fields

### pane

    DataCollectionMultyChoicePane pane

Class ru.biosoft.access.support.DataCollectionMultyChoicePane extends javax.swing.JPanel implements Serializable

Serialized Fields

### dataCollection

    DataCollection dataCollection

  DataCollection from wich data element names are selected.

### possibleValuesModel

    javax.swing.ListModel possibleValuesModel

### selectedValuesModel

    javax.swing.DefaultListModel selectedValuesModel

### isSorted

    boolean isSorted

  Indicates whether selected values should be sorted.

### pPossibleValues

    javax.swing.JPanel pPossibleValues

### lPossibleValues

    javax.swing.JLabel lPossibleValues

### listPossibleValues

    javax.swing.JList listPossibleValues

### pButtons

    javax.swing.JPanel pButtons

### bAdd

    javax.swing.JButton bAdd

### bRemove

    javax.swing.JButton bRemove

### bRemoveAll

    javax.swing.JButton bRemoveAll

### bNew

    javax.swing.JButton bNew

### pSelectedValues

    javax.swing.JPanel pSelectedValues

### lSelectedValues

    javax.swing.JLabel lSelectedValues

### listSelectedValues

    javax.swing.JList listSelectedValues

Class ru.biosoft.access.support.NameListToComboBoxModelAdapter extends NameListToListModelAdapter implements Serializable

Serialized Fields

### selectedItem

    java.lang.Object selectedItem

Class ru.biosoft.access.support.NameListToListModelAdapter extends javax.swing.AbstractListModel implements Serializable

Serialized Fields

### dataCollection

    DataCollection dataCollection

### nameList

    java.util.List nameList

### index

    int index

Class ru.biosoft.access.support.NewDataElementDialog extends OkCancelDialog implements Serializable

Serialized Fields

### dc

    DataCollection dc

### de

    DataElement de

### id

    javax.swing.JTextField id

### content

    javax.swing.JPanel content

### propertyInspector

    com.beanexplorer.swing.PropertyInspector propertyInspector

Package ru.biosoft.graphics.editor

Class ru.biosoft.graphics.editor.InsertAction extends javax.swing.AbstractAction implements Serializable

Serialized Fields

### actionListeners

    java.util.Vector actionListeners

  Action listener

Class ru.biosoft.graphics.editor.ViewEditorPane extends ViewPane implements Serializable

Serialized Fields

### helper

    ViewEditorHelper helper

### insertActionListener

    java.awt.event.ActionListener insertActionListener

### insertMode

    java.lang.Class insertMode

### bg

    javax.swing.ButtonGroup bg

### selectbutton

    javax.swing.JToggleButton selectbutton

### toolbar

    javax.swing.JToolBar toolbar

### selectionEnabled

    boolean selectionEnabled

### initiated

    boolean initiated

### resizing

    boolean resizing

### initialRect

    java.awt.Rectangle initialRect

### resizingDirection

    int resizingDirection

### moving

    boolean moving

### startPoint

    java.awt.Point startPoint

### prevPoint

    java.awt.Point prevPoint

### selection

    CompositeView selection

### acceptingSelection

    View acceptingSelection

### listenerList

    javax.swing.event.EventListenerList listenerList

### selectionUndo

    ViewEditorPane.SelectionUndo selectionUndo

Class ru.biosoft.graphics.editor.ViewPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### mPanel

    ViewPane.MPanel mPanel

  Panel on which all views are painted

### at

    java.awt.geom.AffineTransform at

  Transformer for scaling of visual representation of all views

### scale

    double scale

### barHor

    javax.swing.JScrollBar barHor

### barVert

    javax.swing.JScrollBar barVert

### scrollPane

    javax.swing.JScrollPane scrollPane

### allignToX

    boolean allignToX

### allignToY

    boolean allignToY

### cView

    CompositeView cView

  Storage for views

### selectionManager

    SelectionManager selectionManager

### viewPaneListeners

    java.util.Vector viewPaneListeners

  listeners storage

### findModel

    java.lang.Object findModel

Class ru.biosoft.graphics.editor.ViewPane.MPanel extends javax.swing.JPanel implements Serializable

Class ru.biosoft.graphics.editor.ViewPaneEvent extends java.awt.event.MouseEvent implements Serializable

Serialized Fields

### viewSource

    View viewSource

  The object on which the Event initially occurred.

### viewPane

    ViewPane viewPane

Package ru.biosoft.graphics.font

Class ru.biosoft.graphics.font.FontChooser extends javax.swing.JComponent implements Serializable

Serialized Fields

### northPanel

    javax.swing.JPanel northPanel

### centerPanel

    javax.swing.JPanel centerPanel

### samplePanel

    FontChooser.SamplePanel samplePanel

### fontsList

    javax.swing.JList fontsList

### stylesList

    javax.swing.JList stylesList

### sizesList

    javax.swing.JList sizesList

### styles

    java.util.Hashtable styles

### color

    java.awt.Color color

Package ru.biosoft.gui

Class ru.biosoft.gui.DocumentPane extends javax.swing.JPanel implements Serializable

Serialized Fields

### tabbedPane

    javax.swing.JTabbedPane tabbedPane

### tabs

    java.util.HashMap tabs

Class ru.biosoft.gui.EditorPartSupport extends ViewPartSupport implements Serializable

Serialized Fields

### listenerList

    javax.swing.event.EventListenerList listenerList

Class ru.biosoft.gui.EditorsTabbedPane extends EditorPartSupport implements Serializable

Serialized Fields

### toolbar

    javax.swing.JToolBar toolbar

### tabPane

    javax.swing.JTabbedPane tabPane

### editorsManager

    EditorsManager editorsManager

### model

    java.lang.Object model

  Data (model) that is currently edited or explored.

### tabs

    java.util.Vector tabs

### tabActions

    javax.swing.Action[] tabActions

### tabActionsIndex

    int tabActionsIndex

### modelActions

    javax.swing.Action[] modelActions

### modelActionsIndex

    int modelActionsIndex

### modelActionProvider

    ActionsProvider modelActionProvider

Class ru.biosoft.gui.ExplorerPane extends EditorsTabbedPane implements Serializable

Serialized Fields

### propertiesView

    PropertiesView propertiesView

### propertiesEditor

    PropertiesEditor propertiesEditor

Class ru.biosoft.gui.HtmlEditor extends EditorPartSupport implements Serializable

Serialized Fields

### htmlEditor

    javax.swing.JEditorPane htmlEditor

### textEditor

    javax.swing.JEditorPane textEditor

### preview

    com.beanexplorer.web.HtmlPane preview

### view

    javax.swing.JTabbedPane view

### actions

    javax.swing.Action[] actions

Class ru.biosoft.gui.HtmlView extends com.beanexplorer.web.HtmlPane implements Serializable

Serialized Fields

### action

    javax.swing.Action action

### model

    java.lang.Object model

### document

    Document document

Class ru.biosoft.gui.LogPane extends ViewPartSupport implements Serializable

Serialized Fields

### appender

    TextPaneAppender appender

Class ru.biosoft.gui.PluggedEditorsTabbedPane extends EditorsTabbedPane implements Serializable

Class ru.biosoft.gui.PropertiesEditor extends com.beanexplorer.swing.PropertyInspector implements Serializable

Serialized Fields

### action

    javax.swing.Action action

### document

    Document document

### expansionLevel

    int expansionLevel

Class ru.biosoft.gui.PropertiesView extends com.beanexplorer.web.HtmlPropertyInspector implements Serializable

Serialized Fields

### action

    javax.swing.Action action

### document

    Document document

Class ru.biosoft.gui.RedoAction extends javax.swing.AbstractAction implements Serializable

Class ru.biosoft.gui.TabularPropertiesEditor extends com.beanexplorer.swing.TabularPropertyInspector implements Serializable

Serialized Fields

### action

    javax.swing.Action action

### model

    java.lang.Object model

### document

    Document document

Class ru.biosoft.gui.UndoAction extends javax.swing.AbstractAction implements Serializable

Class ru.biosoft.gui.ViewPartSupport extends javax.swing.JPanel implements Serializable

Serialized Fields

### action

    javax.swing.Action action

### modelValidator

    ModelValidator modelValidator

### model

    java.lang.Object model

### document

    Document document

Package ru.biosoft.gui.wizard

Class ru.biosoft.gui.wizard.WizardDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

### wizardPanel

    WizardPanel wizardPanel

Class ru.biosoft.gui.wizard.WizardFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

### wizardPanel

    WizardPanel wizardPanel

Class ru.biosoft.gui.wizard.WizardPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

### prevButton

    javax.swing.JButton prevButton

### nextButton

    javax.swing.JButton nextButton

### finishButton

    javax.swing.JButton finishButton

### doneButton

    javax.swing.JButton doneButton

### cancelButton

    javax.swing.JButton cancelButton

### toggleCheckBox

    javax.swing.JCheckBox toggleCheckBox

### mainPanel

    javax.swing.JPanel mainPanel

### stepView

    java.awt.Component stepView

### propertiesView

    javax.swing.JPanel propertiesView

### target

    WizardTarget target

### steps

    java.util.Vector steps

### currStep

    int currStep

### lastCompleted

    int lastCompleted

### result

    int result

### processing

    boolean processing

### preferredSize

    java.awt.Dimension preferredSize

### owner

    java.awt.Window owner

### nextEnabled

    boolean nextEnabled

### stepReady

    boolean stepReady

### bEnable

    boolean bEnable

### leftButtonPanel

    javax.swing.JPanel leftButtonPanel

### rightButtonPanel

    javax.swing.JPanel rightButtonPanel

Package ru.biosoft.math

Class ru.biosoft.math.ExpressionEditorDialog extends OkCancelDialog implements Serializable

Serialized Fields

### editorPane

    ExpressionEditorPane editorPane

Class ru.biosoft.math.ExpressionEditorPane extends PanelManager implements Serializable

Serialized Fields

### viewBuilder

    FormulaViewBuilder viewBuilder

### viewPane

    ViewPane viewPane

### textPane

    javax.swing.JTextPane textPane

### mathMLPane

    javax.swing.JTextPane mathMLPane

### logPane

    javax.swing.JTextPane logPane

### validateButton

    javax.swing.JButton validateButton

### dumpButton

    javax.swing.JButton dumpButton

### expression

    Expression expression

### okButton

    javax.swing.JButton okButton

  The dialog can set up this property and ExpressionEditorPane will enable or disable the button depending on the status of expression parsing.

### status

    int status

  Indicates whether edited expression is valid. Possible values: Parser.STATUS_OK, Parser.STATUS_WARNING, Parser.STATUS_ERRROR, Parser.STATUS_FATAL_ERROR or combination their combination (excluding Parser.STATUS_OK).

### source

    javax.swing.JTextPane source

  The source of DocumentEvent, text or mathML JTextPane.

Package ru.biosoft.math.parser

Class ru.biosoft.math.parser.ParseException extends java.lang.Exception implements Serializable

Serialized Fields

### specialConstructor

    boolean specialConstructor

  This variable determines which constructor was used to create this object and thereby affects the semantics of the "getMessage" method (see below).

### currentToken

    Token currentToken

  This is the last token that has been consumed successfully. If this object has been created due to a parse error, the token followng this token will (therefore) be the first error token.

### expectedTokenSequences

    int[][] expectedTokenSequences

  Each entry in this array is an array of integers. Each array of integers represents a sequence of tokens (by their ordinal values) that is expected at this point of the parse.

### tokenImage

    java.lang.String[] tokenImage

  This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred. This array is defined in the generated ...Constants interface.

### eol

    java.lang.String eol

  The end of line string for this machine.

Class ru.biosoft.math.parser.TokenMgrError extends java.lang.Error implements Serializable

Serialized Fields

### errorCode

    int errorCode

  Indicates the reason why the exception is thrown. It will have one of the above 4 values.

Package ru.biosoft.plugins.javascript

Class ru.biosoft.plugins.javascript.EvalTextArea extends javax.swing.JTextArea implements Serializable

Serialized Fields

### history

    java.util.Vector history

### historyIndex

    int historyIndex

### outputMark

    int outputMark

Class ru.biosoft.plugins.javascript.Global extends org.mozilla.javascript.ImporterTopLevel implements Serializable

Class ru.biosoft.plugins.javascript.JScriptConsole extends EditorPartSupport implements Serializable

Package ru.biosoft.util

Class ru.biosoft.util.ChainRuntimeException extends java.lang.RuntimeException implements Serializable

Serialized Fields

### ex

    java.lang.Exception ex

  Chained exception

Class ru.biosoft.util.ExProperties extends java.util.Properties implements Serializable

Class ru.biosoft.util.HashMapSoftValues extends java.util.HashMap implements Serializable

Serialized Fields

### checkCounter

    int checkCounter

To do:
  Doc

### queue

    java.lang.ref.ReferenceQueue queue

To do:
  Doc

Class ru.biosoft.util.HashMapWeakValues extends java.util.HashMap implements Serializable

Serialized Fields

### checkCounter

    int checkCounter

To do:
  Doc

### queue

    java.lang.ref.ReferenceQueue queue

To do:
  Doc

Class ru.biosoft.util.OkCancelDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

### result

    boolean result

  Result of dialog executing

### parent

    java.awt.Component parent

### mainPanel

    javax.swing.JPanel mainPanel

### buttonPanel

    javax.swing.JPanel buttonPanel

### okButton

    javax.swing.JButton okButton

### cancelButton

    javax.swing.JButton cancelButton

Package ru.biosoft.workbench

Class ru.biosoft.workbench.AboutAction extends javax.swing.AbstractAction implements Serializable

Class ru.biosoft.workbench.AboutDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

### tabbedPanel

    javax.swing.JTabbedPane tabbedPanel

### splashLabel

    javax.swing.JLabel splashLabel

### width

    int width

### height

    int height

### resources

    java.lang.String resources

### pluginDescriptor

    org.eclipse.core.runtime.IPluginDescriptor pluginDescriptor

Class ru.biosoft.workbench.HelpAction extends javax.swing.AbstractAction implements Serializable

Serialized Fields

### helpId

    java.lang.String helpId

Class ru.biosoft.workbench.PageManager extends javax.swing.JTabbedPane implements Serializable

Class ru.biosoft.workbench.WorkbenchPage extends PanelManager implements Serializable

Serialized Fields

### perspective

    PerspectiveDescriptor perspective

  Perspective that is used to fill the page content and its initial layout.

Class ru.biosoft.workbench.WorkbenchWindow extends ApplicationFrame implements Serializable

Serialized Fields

### pageManager

    PageManager pageManager

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