Serialized Form (Geneious Public API)

Package com.biomatters.geneious.publicapi.components
- Class com.biomatters.geneious.publicapi.components.AlertPanel extends GPanel implements Serializable
  - Serialized Fields
    - cardLayout
      
      java.awt.CardLayout cardLayout
    - cardLayoutPanel
      
      GPanel cardLayoutPanel
    - moreDetailsComponent
      
      javax.swing.JComponent moreDetailsComponent
    - moreDetailsMessage
      
      java.lang.String moreDetailsMessage
    - summaryLine
      
      javax.swing.JLabel summaryLine
- Class com.biomatters.geneious.publicapi.components.AlertPanel.RoundedAlertBorder extends javax.swing.border.AbstractBorder implements Serializable
  - Serialized Fields
    - borderColour
      
      java.awt.Color borderColour
- Class com.biomatters.geneious.publicapi.components.BorderlessScrollPane extends javax.swing.JScrollPane implements Serializable
- Class com.biomatters.geneious.publicapi.components.DialogButtonPanel extends GPanel implements Serializable
  - Serialized Fields
    - allButtons
      
      java.util.List<GButton> allButtons
    - cancelButton
      
      GButton cancelButton
    - okButton
      
      GButton okButton
- Class com.biomatters.geneious.publicapi.components.GButton extends javax.swing.JButton implements Serializable
  - Serialized Fields
    - ancestorListener
      
      javax.swing.event.AncestorListener ancestorListener
    - isSmall
      
      boolean isSmall
    - originalFont
      
      java.awt.Font originalFont
    - showBorderListener
      
      java.awt.event.MouseListener showBorderListener
- Class com.biomatters.geneious.publicapi.components.GCheckBox extends javax.swing.JCheckBox implements Serializable
  - Serialized Fields
    - originalFont
      
      java.awt.Font originalFont
- Class com.biomatters.geneious.publicapi.components.GComboBox extends javax.swing.JComboBox<E> implements Serializable
  - Serialized Fields
    - fastRoughCalculationOfDropdownWidth
      
      boolean fastRoughCalculationOfDropdownWidth
    - list
      
      javax.swing.JList<E> list
    - originalFont
      
      java.awt.Font originalFont
- Class com.biomatters.geneious.publicapi.components.GComboBox.DefaultModelWhereSetSelectedItemDoesntFireContentsChanged extends javax.swing.DefaultComboBoxModel<E> implements Serializable
  - Serialized Fields
    - isEditableComboBox
      
      boolean isEditableComboBox
    - selectedObjectField
      
      java.lang.reflect.Field selectedObjectField
- Class com.biomatters.geneious.publicapi.components.GDefaultTreeCellRenderer extends javax.swing.tree.DefaultTreeCellRenderer implements Serializable
  - Serialized Fields
    - dropTargetNode
      
      javax.swing.tree.TreeNode dropTargetNode
- Class com.biomatters.geneious.publicapi.components.GDialog extends org.virion.jam.framework.JeblDialog implements Serializable
  - Serialized Fields
    - maxDimensions
      
      java.awt.Dimension maxDimensions
- Class com.biomatters.geneious.publicapi.components.GEditorPane extends javax.swing.JEditorPane implements Serializable
- Class com.biomatters.geneious.publicapi.components.GeneiousActionToolbar extends GPanel implements Serializable
  - Serialized Fields
    - allComponents
      
      java.util.Map<GeneiousAction,javax.swing.JComponent> allComponents
    - autoHideLabels
      
      boolean autoHideLabels
    - buttonFocusListener
      
      java.awt.event.ActionListener buttonFocusListener
    - defaultLabels
      
      boolean defaultLabels
    - defaultLarge
      
      boolean defaultLarge
    - displayLargeLabelsHorizontal
      
      boolean displayLargeLabelsHorizontal
    - dividerCount
      
      int dividerCount
    - dividerIds
      
      java.util.Map<java.lang.String,java.lang.String> dividerIds
    - focusComponent
      
      javax.swing.JComponent focusComponent
    - groupedActions
      
      java.util.Map<java.lang.String,java.util.List<GeneiousAction>> groupedActions
    - groupedComponents
      
      java.util.Map<java.lang.String,java.util.List<javax.swing.JComponent>> groupedComponents
    - groupedLabels
      
      java.util.Map<java.lang.String,GLabel> groupedLabels
    - groupedPanels
      
      java.util.Map<java.lang.String,GPanel> groupedPanels
    - hiddenActions
      
      java.util.List<GeneiousAction> hiddenActions
      
      Actions that have been hidden by the user unchecking it in the popup.
    - iconSizeEnabled
      
      boolean iconSizeEnabled
    - iconSizeItem
      
      javax.swing.JCheckBoxMenuItem iconSizeItem
    - mainToolBar
      
      javax.swing.JToolBar mainToolBar
    - originalActions
      
      java.util.Map<java.lang.String,GeneiousAction> originalActions
    - overridePosition
      
      boolean overridePosition
    - popupAction
      
      GeneiousAction.SubMenu popupAction
    - popupActions
      
      java.util.List<GeneiousAction> popupActions
      
      Actions that can't fit in the toolbar so they have been put under a popup menu
    - popupButton
      
      javax.swing.AbstractButton popupButton
    - popupComponents
      
      java.util.List<javax.swing.JComponent> popupComponents
      
      Components that can't fit in the toolbar so they have been put under a popup menu
    - popupEnabled
      
      boolean popupEnabled
    - popupMouseListener
      
      java.awt.event.MouseListener popupMouseListener
    - popupToolBar
      
      javax.swing.JToolBar popupToolBar
    - preferencesAbsolutePath
      
      java.lang.String preferencesAbsolutePath
    - rightToolBar
      
      javax.swing.JToolBar rightToolBar
    - rightToolBarActions
      
      java.util.List<GeneiousAction> rightToolBarActions
    - rightToolBarComponents
      
      java.util.List<javax.swing.JComponent> rightToolBarComponents
    - showLabelsItem
      
      javax.swing.JCheckBoxMenuItem showLabelsItem
    - toolBarActions
      
      java.util.List<GeneiousAction> toolBarActions
      
      Actions in toolbar (as apposed to the popup) in the order they are in the toolbar
    - toolBarComponents
      
      java.util.List<javax.swing.JComponent> toolBarComponents
      
      Components in the main toolbar (as apposed to the popup) in the order they are in the toolbar
    - toolbars
      
      java.util.Set<javax.swing.JToolBar> toolbars
    - widthListener
      
      java.awt.event.ComponentAdapter widthListener
- Class com.biomatters.geneious.publicapi.components.GLabel extends javax.swing.JLabel implements Serializable
  - Serialized Fields
    - originalFont
      
      java.awt.Font originalFont
- Class com.biomatters.geneious.publicapi.components.GMenuItem extends javax.swing.JMenuItem implements Serializable
- Class com.biomatters.geneious.publicapi.components.GPanel extends javax.swing.JPanel implements Serializable
- Class com.biomatters.geneious.publicapi.components.GPopupMenu extends javax.swing.JPopupMenu implements Serializable
  - Serialized Fields
    - menuChangeListeners
      
      java.util.Map<javax.swing.JMenu,javax.swing.event.ChangeListener> menuChangeListeners
    - parentFrame
      
      javax.swing.JFrame parentFrame
    - windowListener
      
      java.awt.event.WindowAdapter windowListener
- Class com.biomatters.geneious.publicapi.components.GScrollPane extends javax.swing.JScrollPane implements Serializable
- Class com.biomatters.geneious.publicapi.components.GSpinnerNumberModel extends javax.swing.SpinnerNumberModel implements Serializable
- Class com.biomatters.geneious.publicapi.components.GTable extends javax.swing.JTable implements Serializable
  - Serialized Fields
    - hoveredRow
      
      int hoveredRow
- Class com.biomatters.geneious.publicapi.components.GTextArea extends javax.swing.JTextArea implements Serializable
- Class com.biomatters.geneious.publicapi.components.GTextField extends javax.swing.JTextField implements Serializable
- Class com.biomatters.geneious.publicapi.components.GTextPane extends javax.swing.JTextPane implements Serializable
- Class com.biomatters.geneious.publicapi.components.HyperlinkButton extends GButton implements Serializable
  - Serialized Fields
    - caption
      
      java.lang.String caption
    - colorWhenMouseNotOver
      
      java.awt.Color colorWhenMouseNotOver
    - isProOnly
      
      boolean isProOnly
- Class com.biomatters.geneious.publicapi.components.MoreOptionsButton extends GButton implements Serializable
  - Serialized Fields
    - changeListeners
      
      org.virion.jam.util.SimpleListenerManager changeListeners
    - isMore
      
      boolean isMore
    - lessText
      
      java.lang.String lessText
    - moreText
      
      java.lang.String moreText
- Class com.biomatters.geneious.publicapi.components.OptionsPanel extends javax.swing.JPanel implements Serializable
  - Serialized Fields
    - componentAnchor
      
      int componentAnchor
    - componentVisibilityCopiers
      
      java.util.List<com.biomatters.geneious.publicapi.components.OptionsPanel.ComponentVisibilityCopier> componentVisibilityCopiers
    - constraints
      
      java.awt.GridBagConstraints constraints
    - defaultWeightY
      
      double defaultWeightY
    - horizontallyCompact
      
      boolean horizontallyCompact
    - labelAnchor
      
      int labelAnchor
    - leftAlignEverything
      
      boolean leftAlignEverything
    - panel
      
      javax.swing.JPanel panel
    - rightSpacingWeight
      
      double rightSpacingWeight
    - subPanel
      
      OptionsPanel subPanel
    - verticalSpacingAbove
      
      int verticalSpacingAbove
    - verticalSpacingBelow
      
      int verticalSpacingBelow
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.Button extends GButton implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
    - proMode
      
      boolean proMode
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.CheckBox extends GCheckBox implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
    - name
      
      java.lang.String name
    - showProOnlyText
      
      ProOnlyComponents.CheckBox.ProOnlySuffix showProOnlyText
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.CheckBoxMenuItem extends javax.swing.JCheckBoxMenuItem implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.ComboBox extends GComboBox implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.Label extends GLabel implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
    - name
      
      java.lang.String name
    - showProOnlyText
      
      boolean showProOnlyText
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.Menu extends javax.swing.JMenu implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.MenuItem extends GMenuItem implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.Panel extends javax.swing.JPanel implements Serializable
  - Serialized Fields
    - component
      
      javax.swing.JComponent component
    - proOnlyLabel
      
      javax.swing.JLabel proOnlyLabel
- Class com.biomatters.geneious.publicapi.components.ProOnlyComponents.ToggleButton extends javax.swing.JToggleButton implements Serializable
  - Serialized Fields
    - enabled
      
      boolean enabled
    - proMode
      
      boolean proMode
- Class com.biomatters.geneious.publicapi.components.ScrollPaneLayoutThatCorrectlyAccountsForVerticalScrollbarWidth extends javax.swing.ScrollPaneLayout implements Serializable
- Class com.biomatters.geneious.publicapi.components.ZoomChangeEvent extends javax.swing.event.ChangeEvent implements Serializable
  - Serialized Fields
    - fitToScreen
      
      boolean fitToScreen
    - zoomLevel
      
      double zoomLevel
- Class com.biomatters.geneious.publicapi.components.ZoomPanel extends javax.swing.JPanel implements Serializable
  - Serialized Fields
    - bigZoomFactor
      
      double bigZoomFactor
    - fitToScreen
      
      javax.swing.JButton fitToScreen
    - fitToScreenZoomLevel
      
      double fitToScreenZoomLevel
    - forceFitToScreenButtonEnabled
      
      boolean forceFitToScreenButtonEnabled
    - listeners
      
      java.util.Vector<javax.swing.event.ChangeListener> listeners
    - maxZoomLevel
      
      double maxZoomLevel
    - minZoomLevel
      
      double minZoomLevel
    - settingSpinner
      
      boolean settingSpinner
    - slider
      
      javax.swing.JSlider slider
    - targetZoomLevel
      
      double targetZoomLevel
    - zoomFactor
      
      double zoomFactor
    - zoomIn
      
      javax.swing.JButton zoomIn
    - zoomLevel
      
      double zoomLevel
    - zoomOut
      
      javax.swing.JButton zoomOut
    - zoomSpinnerModel
      
      javax.swing.SpinnerNumberModel zoomSpinnerModel
    - zoomTo100Percent
      
      javax.swing.JButton zoomTo100Percent
    - zoomToSelection
      
      javax.swing.JButton zoomToSelection
Package com.biomatters.geneious.publicapi.databaseservice
- Class com.biomatters.geneious.publicapi.databaseservice.DatabaseServiceException extends java.lang.Exception implements Serializable
  - Serialized Fields
    - isNetworkConnectionError
      
      boolean isNetworkConnectionError
    - isTransientConnectionError
      
      boolean isTransientConnectionError
    - userMessage
      
      java.lang.String userMessage
- Class com.biomatters.geneious.publicapi.databaseservice.DatabaseServiceException.Canceled extends DatabaseServiceException implements Serializable
- Class com.biomatters.geneious.publicapi.databaseservice.SearchIndexCorruptOrMissingException extends DatabaseServiceException implements Serializable
Package com.biomatters.geneious.publicapi.documents
- Class com.biomatters.geneious.publicapi.documents.MalformedURNException extends java.lang.Exception implements Serializable
- Class com.biomatters.geneious.publicapi.documents.XMLSerializationException extends java.lang.Exception implements Serializable
Package com.biomatters.geneious.publicapi.implementations
- Class com.biomatters.geneious.publicapi.implementations.EValue extends java.lang.Number implements Serializable
  - Serialized Fields
    - decimalPlacesDisplayed
      
      java.lang.Integer decimalPlacesDisplayed
    - value
      
      java.lang.Double value
- Class com.biomatters.geneious.publicapi.implementations.Percentage extends java.lang.Number implements Serializable
  - Serialized Fields
    - decimalPlacesDisplayed
      
      int decimalPlacesDisplayed
    - value
      
      double value
Package com.biomatters.geneious.publicapi.laf
- Class com.biomatters.geneious.publicapi.laf.UI.ThemeInvertedColor extends java.awt.Color implements Serializable
Package com.biomatters.geneious.publicapi.plugin
- Class com.biomatters.geneious.publicapi.plugin.DocumentImportException extends java.lang.Exception implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.DocumentImportException.Canceled extends DocumentImportException implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.DocumentOperationException extends java.lang.Exception implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.DocumentOperationException.Canceled extends com.biomatters.geneious.publicapi.plugin.DocumentOperationException implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.GeneiousAction extends javax.swing.AbstractAction implements Serializable
  - Serialized Fields
    - actionOptions
      
      GeneiousActionOptions actionOptions
    - buttonPropertyListeners
      
      java.util.List<com.biomatters.geneious.publicapi.plugin.GeneiousAction.ButtonPropertyListener> buttonPropertyListeners
    - freeUpMemoryNow
      
      java.lang.Runnable freeUpMemoryNow
    - internalAction
      
      GeneiousAction internalAction
- Class com.biomatters.geneious.publicapi.plugin.GeneiousAction.Divider extends GeneiousAction implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.GeneiousAction.SubMenu extends GeneiousAction implements Serializable
  - Serialized Fields
    - actionsChangedListeners
      
      org.virion.jam.util.SimpleListenerManager actionsChangedListeners
    - lastPopupCanceled
      
      long lastPopupCanceled
    - popupIcons
      
      Icons popupIcons
    - subActions
      
      java.util.List<GeneiousAction> subActions
- Class com.biomatters.geneious.publicapi.plugin.GeneiousAction.ToggleAction extends GeneiousAction implements Serializable
  - Serialized Fields
    - isSelected
      
      boolean isSelected
- Class com.biomatters.geneious.publicapi.plugin.RuntimeDocumentOperationException extends java.lang.RuntimeException implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.SequenceSelection.SequenceIndex.SelectionWrongForDocumentsException extends SequenceSelectionWithDocuments.SelectedDocumentsModifiedException implements Serializable
  - Serialized Fields
    - documents
      
      java.util.List<AnnotatedPluginDocument> documents
      
      Deprecated.
- Class com.biomatters.geneious.publicapi.plugin.SequenceSelectionWithDocuments.DocumentsInvalidException extends com.biomatters.geneious.publicapi.plugin.DocumentOperationException implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.SequenceSelectionWithDocuments.SelectedDocumentsModifiedException extends java.lang.IllegalStateException implements Serializable
- Class com.biomatters.geneious.publicapi.plugin.WritableDatabaseServiceTree extends javax.swing.JTree implements Serializable
  - Serialized Fields
    - disabledServices
      
      java.util.Set<GeneiousService> disabledServices
Package com.biomatters.geneious.publicapi.utilities
- Class com.biomatters.geneious.publicapi.utilities.InvalidZipEntryException extends java.io.IOException implements Serializable
  - Serialized Fields
    - entry
      
      java.lang.String entry
- Class com.biomatters.geneious.publicapi.utilities.ProgressInputStream.ProgressInterruptedIOException extends java.io.InterruptedIOException implements Serializable

Serialized Form

Package com.biomatters.geneious.publicapi.components

Class com.biomatters.geneious.publicapi.components.AlertPanel extends GPanel implements Serializable

Serialized Fields

cardLayout

cardLayoutPanel

moreDetailsComponent

moreDetailsMessage

summaryLine

Class com.biomatters.geneious.publicapi.components.AlertPanel.RoundedAlertBorder extends javax.swing.border.AbstractBorder implements Serializable

Serialized Fields

borderColour

Class com.biomatters.geneious.publicapi.components.BorderlessScrollPane extends javax.swing.JScrollPane implements Serializable

Class com.biomatters.geneious.publicapi.components.DialogButtonPanel extends GPanel implements Serializable

Serialized Fields

allButtons

cancelButton

okButton

Class com.biomatters.geneious.publicapi.components.GButton extends javax.swing.JButton implements Serializable

Serialized Fields

ancestorListener

isSmall

originalFont

showBorderListener

Class com.biomatters.geneious.publicapi.components.GCheckBox extends javax.swing.JCheckBox implements Serializable

Serialized Fields

originalFont

Class com.biomatters.geneious.publicapi.components.GComboBox extends javax.swing.JComboBox<E> implements Serializable

Serialized Fields

fastRoughCalculationOfDropdownWidth

list

originalFont

Class com.biomatters.geneious.publicapi.components.GComboBox.DefaultModelWhereSetSelectedItemDoesntFireContentsChanged extends javax.swing.DefaultComboBoxModel<E> implements Serializable

Serialized Fields

isEditableComboBox

selectedObjectField

Class com.biomatters.geneious.publicapi.components.GDefaultTreeCellRenderer extends javax.swing.tree.DefaultTreeCellRenderer implements Serializable

Serialized Fields

dropTargetNode

Class com.biomatters.geneious.publicapi.components.GDialog extends org.virion.jam.framework.JeblDialog implements Serializable

Serialized Fields

maxDimensions

Class com.biomatters.geneious.publicapi.components.GEditorPane extends javax.swing.JEditorPane implements Serializable

Class com.biomatters.geneious.publicapi.components.GeneiousActionToolbar extends GPanel implements Serializable

Serialized Fields

allComponents

autoHideLabels

buttonFocusListener

defaultLabels

defaultLarge

displayLargeLabelsHorizontal

dividerCount

dividerIds

focusComponent

groupedActions

groupedComponents

groupedLabels

groupedPanels

hiddenActions

iconSizeEnabled

iconSizeItem

mainToolBar

originalActions

overridePosition

popupAction

popupActions

popupButton

popupComponents

popupEnabled

popupMouseListener

popupToolBar

preferencesAbsolutePath

rightToolBar

rightToolBarActions

rightToolBarComponents

showLabelsItem

toolBarActions

toolBarComponents

toolbars

widthListener