Serialized Form (GINsim 3.0.0b-SNAPSHOT API)

Package org.colomoto.biolqm.io.avatar
- Class org.colomoto.biolqm.io.avatar.AvatarLogicalModelException extends IOException implements Serializable
  
  serialVersionUID:
  
  1L
Package org.ginsim.common.application
- Class org.ginsim.common.application.GsException extends Exception implements Serializable
  
  serialVersionUID:
  
  7755661204275237367L
  - Serialized Fields
    - gravity
```
int gravity
```
    - message
```
List<E> message
```
    - exception
```
Exception exception
```
Package org.ginsim.common.utils
- Class org.ginsim.common.utils.ArraySet extends ArrayList<T> implements Serializable
Package org.ginsim.common.xml
- Class org.ginsim.common.xml.ParsingWarningReport extends ArrayList<ParsingWarning> implements Serializable
Package org.ginsim.commongui.dialog
- Class org.ginsim.commongui.dialog.ResultsDialog extends SimpleDialog implements Serializable
  
  serialVersionUID:
  
  -4012429687480688324L
  - Serialized Fields
    - mainPanel
```
JPanel mainPanel
```
    - results
```
String results
```
    - resultsPane
```
JTextArea resultsPane
```
- Class org.ginsim.commongui.dialog.SimpleDialog extends JDialog implements Serializable
  
  serialVersionUID:
  
  -460464845250055098L
  - Serialized Fields
    - id
```
String id
```
    - gui
```
SavingGUI gui
```
    - actionListener
```
Action actionListener
```
    - saveAction
```
Action saveAction
```
Package org.ginsim.commongui.utils
- Class org.ginsim.commongui.utils.DefaultTableHeaderCellRenderer extends DefaultTableCellRenderer implements Serializable
  - Serialized Fields
    - horizontalTextPositionSet
```
boolean horizontalTextPositionSet
```
- Class org.ginsim.commongui.utils.VerticalTableHeaderCellRenderer extends DefaultTableHeaderCellRenderer implements Serializable
Package org.ginsim.core.annotation
- Class org.ginsim.core.annotation.Annotation extends ArrayList<AnnotationLink> implements Serializable
  - Serialized Fields
    - comment
```
String comment
```
    - ref
```
Pattern ref
```
Package org.ginsim.core.graph.backend
- Class org.ginsim.core.graph.backend.JgraphtBackendImpl extends org.jgrapht.graph.DefaultListenableGraph<V,E extends Edge<V>> implements Serializable
  
  serialVersionUID:
  
  -7766943723639796018L
  - Serialized Fields
    - base
```
GsJGraphtBaseGraph<V,E extends Edge<V>> base
```
    - viewListener
```
GraphViewListener viewListener
```
    - evsmap
```
Map<K,V> evsmap
```
    - defaultEdgeStyle
```
EdgeStyle<V,E extends Edge<V>> defaultEdgeStyle
```
Package org.ginsim.core.graph.hierarchicaltransitiongraph
- Class org.ginsim.core.graph.hierarchicaltransitiongraph.HierarchicalNodeSet extends HashSet<HierarchicalNode> implements Serializable
  - Serialized Fields
    - hashCode
```
int hashCode
```
Package org.ginsim.core.graph.regulatorygraph.logicalfunction
- Class org.ginsim.core.graph.regulatorygraph.logicalfunction.LogicalParameterList extends ArrayList<LogicalParameter> implements Serializable
  
  serialVersionUID:
  
  5768653095418077753L
  - Serialized Fields
    - manualp
```
Collection<E> manualp
```
    - functionp
```
Collection<E> functionp
```
    - updateDup
```
boolean updateDup
```
    - nbDup
```
int nbDup
```
Package org.ginsim.core.graph.regulatorygraph.namedstates
- Class org.ginsim.core.graph.regulatorygraph.namedstates.NamedStateList extends ListenableNamedList<NamedState> implements Serializable
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - prefix
```
String prefix
```
Package org.ginsim.core.graph.regulatorygraph.perturbation
- Class org.ginsim.core.graph.regulatorygraph.perturbation.ListOfPerturbations extends ArrayList<Perturbation> implements Serializable
  - Serialized Fields
    - perturbationUsers
```
Map<K,V> perturbationUsers
```
    - aliases
```
Map<K,V> aliases
```
    - lrg
```
RegulatoryGraph lrg
```
Package org.ginsim.core.graph.view.css
- Class org.ginsim.core.graph.view.css.CSSSyntaxException extends Exception implements Serializable
  
  serialVersionUID:
  
  -178881160709719504L
Package org.ginsim.core.graph.view.shapes
- Class org.ginsim.core.graph.view.shapes.SVGEllipse extends Ellipse2D.Double implements Serializable
- Class org.ginsim.core.graph.view.shapes.SVGPolygon extends Polygon implements Serializable
- Class org.ginsim.core.graph.view.shapes.SVGRectangle extends Rectangle implements Serializable
Package org.ginsim.core.utils.data
- Class org.ginsim.core.utils.data.HashSetForSet extends HashSet implements Serializable
  
  serialVersionUID:
  
  3304535120427566273L
  - Serialized Fields
    - myid
```
int myid
```
- Class org.ginsim.core.utils.data.ListenableNamedList extends NamedList<T extends NamedObject> implements Serializable
  - Serialized Fields
    - listeners
```
List<E> listeners
```
- Class org.ginsim.core.utils.data.NamedList extends ArrayList<T extends NamedObject> implements Serializable

Package org.ginsim.gui

Class org.ginsim.gui.WhatToDoWithGraph extends Frame implements Serializable

Serialized Fields

contentPane
```
JPanel contentPane
```
graph
```
Graph<V,E extends Edge<V>> graph
```
buttonGroup
```
ButtonGroup buttonGroup
```
rdbtn_view
```
JRadioButton rdbtn_view
```
rdbtn_applyLayoutAndOpen
```
JRadioButton rdbtn_applyLayoutAndOpen
```
rdbtn_ApplyATool
```
JRadioButton rdbtn_ApplyATool
```
rdbtn_Save
```
JRadioButton rdbtn_Save
```
rdbtn_Export
```
JRadioButton rdbtn_Export
```
comboBox_Layouts
```
JComboBox<E> comboBox_Layouts
```
comboBox_Tools
```
JComboBox<E> comboBox_Tools
```
comboBox_Exports
```
JComboBox<E> comboBox_Exports
```
availableLayoutActions
```
List<E> availableLayoutActions
```
availableToolActions
```
List<E> availableToolActions
```
availableExportActions
```
List<E> availableExportActions
```

Package org.ginsim.gui.annotation
- Class org.ginsim.gui.annotation.AnnotationPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -8542547209276966234L
  - Serialized Fields
    - graph
```
Graph<V,E extends Edge<V>> graph
```
    - currentNote
```
Annotation currentNote
```
    - listenChanges
```
boolean listenChanges
```
    - linkList
```
List<E> linkList
```
    - helper
```
org.ginsim.gui.annotation.LinkListHelper helper
```
    - linkListPanel
```
ListPanel<T,L extends List<T>> linkListPanel
```
    - jTextArea
```
JTextArea jTextArea
```
    - pinfo
```
GenericPropertyInfo pinfo
```
Package org.ginsim.gui.graph.canvas
- Class org.ginsim.gui.graph.canvas.CanvasHelpAction extends AbstractAction implements Serializable
  - Serialized Fields
    - canvas
```
SimpleCanvas canvas
```
- Class org.ginsim.gui.graph.canvas.SimpleCanvas extends JComponent implements Serializable
  - Serialized Fields
    - renderer
```
CanvasRenderer renderer
```
    - mouseListener
```
org.ginsim.gui.graph.canvas.CanvasEventListener mouseListener
```
    - scrollPane
```
VirtualScrollPane scrollPane
```
    - zoom
```
double zoom
```
      zoom factor
    - tr_x
```
int tr_x
```
      translation: the top-left corner is (-tr_x, -tr_y). Only negative translations are accepted
    - tr_y
```
int tr_y
```
      translation: the top-left corner is (-tr_x, -tr_y). Only negative translations are accepted
    - img
```
BufferedImage img
```
      cached image for double buffering and easy overlay
    - damagedRegion
```
Rectangle damagedRegion
```
      part of the canvas that was changed and should be repainted
    - prevDamaged
```
Rectangle prevDamaged
```
    - visibleArea
```
Rectangle visibleArea
```
    - virtualDimension
```
Dimension virtualDimension
```
    - visibleAreaUpdated
```
boolean visibleAreaUpdated
```
    - virtualDimensionUpdated
```
boolean virtualDimensionUpdated
```
    - backgroundColor
```
Color backgroundColor
```
    - showHelp
```
boolean showHelp
```
- Class org.ginsim.gui.graph.canvas.VirtualScrollPane extends JPanel implements Serializable
  - Serialized Fields
    - hmodel
```
BoundedRangeModel hmodel
```
    - vmodel
```
BoundedRangeModel vmodel
```
    - view
```
VirtualScrollable view
```
    - width
```
int width
```
    - height
```
int height
```
    - x
```
int x
```
    - y
```
int y
```
    - dx
```
int dx
```
    - dy
```
int dy
```
    - updating
```
boolean updating
```
Package org.ginsim.gui.graph.dynamicgraph
- Class org.ginsim.gui.graph.dynamicgraph.DynamicItemAttributePanel extends AbstractParameterPanel implements Serializable
  
  serialVersionUID:
  
  9208992495538557201L
  - Serialized Fields
    - tableModel
```
DynamicItemModel tableModel
```
- Class org.ginsim.gui.graph.dynamicgraph.DynamicItemCellRenderer extends DefaultTableCellRenderer implements Serializable
  
  serialVersionUID:
  
  -2173326249965764544L
- Class org.ginsim.gui.graph.dynamicgraph.DynamicItemModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  8860415338236400531L
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - extraNames
```
String[] extraNames
```
    - graph
```
DynamicGraph graph
```
    - state
```
byte[] state
```
    - extraState
```
byte[] extraState
```
    - extraNext
```
byte[][] extraNext
```
    - extraPrev
```
byte[][] extraPrev
```
    - nextState
```
DynamicNode[] nextState
```
    - prevState
```
DynamicNode[] prevState
```
    - go2Next
```
JButton[] go2Next
```
    - len
```
int len
```
    - fullLength
```
int fullLength
```
    - nbNext
```
int nbNext
```
    - nbRelated
```
int nbRelated
```
- Class org.ginsim.gui.graph.dynamicgraph.StableTableModel extends AbstractTableModel implements Serializable
  - Serialized Fields
    - states
```
org.colomoto.biolqm.helper.state.StateList states
```
    - components
```
org.colomoto.biolqm.NodeInfo[] components
```
    - istates
```
NamedStateList istates
```
    - state
```
byte[] state
```
- Class org.ginsim.gui.graph.dynamicgraph.StateActionPanel extends JPanel implements Serializable
  - Serialized Fields
    - exportAction
```
Action exportAction
```
    - extraAction
```
Action extraAction
```
- Class org.ginsim.gui.graph.dynamicgraph.StateTransitionGraphEditor extends JPanel implements Serializable
  - Serialized Fields
    - graph
```
DynamicGraph graph
```
    - nodeList
```
List<E> nodeList
```
    - nameField
```
StatusTextField nameField
```
    - annotationPanel
```
AnnotationPanel annotationPanel
```
    - nodePanel
```
ListPanel<T,L extends List<T>> nodePanel
```
Package org.ginsim.gui.graph.hierarchicaltransitiongraph
- Class org.ginsim.gui.graph.hierarchicaltransitiongraph.HierarchicalCellRenderer extends DefaultTableCellRenderer implements Serializable
  
  serialVersionUID:
  
  -7412224236522039621L
- Class org.ginsim.gui.graph.hierarchicaltransitiongraph.HierarchicalEdgeParameterPanel extends AbstractParameterPanel<HierarchicalTransitionGraph,DecisionOnEdge> implements Serializable
  
  serialVersionUID:
  
  3342245591953494375L
  - Serialized Fields
    - typeLabel
```
JLabel typeLabel
```
- Class org.ginsim.gui.graph.hierarchicaltransitiongraph.HierarchicalGraphEditor extends JPanel implements Serializable
  - Serialized Fields
    - graph
```
HierarchicalTransitionGraph graph
```
    - nodeList
```
List<E> nodeList
```
    - nameField
```
StatusTextField nameField
```
    - annotationPanel
```
AnnotationPanel annotationPanel
```
    - nodePanel
```
ListPanel<T,L extends List<T>> nodePanel
```
- Class org.ginsim.gui.graph.hierarchicaltransitiongraph.HierarchicalNodeParameterPanel extends AbstractParameterPanel<HierarchicalTransitionGraph,HierarchicalNode> implements Serializable
  
  serialVersionUID:
  
  3342245591953494375L
  - Serialized Fields
    - node
```
HierarchicalNode node
```
    - jScrollPane
```
JScrollPane jScrollPane
```
    - jTable
```
JTable jTable
```
    - typeLabel
```
JLabel typeLabel
```
    - nameLabel
```
JLabel nameLabel
```
- Class org.ginsim.gui.graph.hierarchicaltransitiongraph.HierarchicalTableModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  2922634659695976653L
  - Serialized Fields
    - content
```
List<E> content
```
    - extraContent
```
byte[][] extraContent
```
    - colCount
```
int colCount
```
    - extraNames
```
String[] extraNames
```
    - len
```
int len
```
    - showExtra
```
boolean showExtra
```
    - htg
```
HierarchicalTransitionGraph htg
```
Package org.ginsim.gui.graph.reducedgraph
- Class org.ginsim.gui.graph.reducedgraph.ReducedGraphTableModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  9012745010038236066L
  - Serialized Fields
    - content
```
List<E> content
```
    - rowCount
```
int rowCount
```
    - lastcolCount
```
int lastcolCount
```
    - colCount
```
int colCount
```
    - maxrow
```
int maxrow
```
- Class org.ginsim.gui.graph.reducedgraph.ReducedParameterPanel extends AbstractParameterPanel<ReducedGraph,NodeReducedData> implements Serializable
  
  serialVersionUID:
  
  3085972711359179082L
  - Serialized Fields
    - jScrollPane
```
JScrollPane jScrollPane
```
    - jTable
```
JTable jTable
```
Package org.ginsim.gui.graph.regulatorygraph
- Class org.ginsim.gui.graph.regulatorygraph.IncomingEdgeListModel extends AbstractListModel implements Serializable
  
  serialVersionUID:
  
  6359093601750388688L
  - Serialized Fields
    - edge
```
Collection<E> edge
```
    - size
```
int size
```
- Class org.ginsim.gui.graph.regulatorygraph.InteractionPanel extends AbstractParameterPanel implements Serializable
  
  serialVersionUID:
  
  8583991719735516132L
  - Serialized Fields
    - currentNode
```
RegulatoryNode currentNode
```
    - jTable
```
JTable jTable
```
    - jScrollPane
```
JScrollPane jScrollPane
```
    - jList
```
JList<E> jList
```
    - jScrollPane1
```
JScrollPane jScrollPane1
```
    - but_remove
```
JButton but_remove
```
    - but_addParameter
```
JButton but_addParameter
```
    - upButton
```
JButton upButton
```
    - downButton
```
JButton downButton
```
    - edgeList
```
IncomingEdgeListModel edgeList
```
    - interactionList
```
TableInteractionsModel interactionList
```
    - graph
```
RegulatoryGraph graph
```
    - cellRenderer
```
org.ginsim.gui.graph.regulatorygraph.LogicalParameterCellRenderer cellRenderer
```
    - jSplitPane
```
JSplitPane jSplitPane
```
    - jPanel
```
JPanel jPanel
```
    - makeOneFunctionButton
```
JButton makeOneFunctionButton
```
    - makeNFunctionsButton
```
JButton makeNFunctionsButton
```
    - pinfo
```
GenericPropertyInfo pinfo
```
- Class org.ginsim.gui.graph.regulatorygraph.MultiEdgeEditPanel extends JPanel implements Serializable
  - Serialized Fields
    - graph
```
RegulatoryGraph graph
```
    - medge
```
RegulatoryMultiEdge medge
```
- Class org.ginsim.gui.graph.regulatorygraph.NodeMaxValueSpinModel extends SpinModel implements Serializable
  - Serialized Fields
    - vertex
```
RegulatoryNode vertex
```
    - graph
```
RegulatoryGraph graph
```
    - gui
```
GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> gui
```
- Class org.ginsim.gui.graph.regulatorygraph.RegulatoryEdgeEditor extends JPanel implements Serializable
  - Serialized Fields
    - bSource
```
org.ginsim.gui.graph.regulatorygraph.SelectButton bSource
```
    - bTarget
```
org.ginsim.gui.graph.regulatorygraph.SelectButton bTarget
```
    - annotPanel
```
AnnotationPanel annotPanel
```
    - edgeEditPanel
```
MultiEdgeEditPanel edgeEditPanel
```
- Class org.ginsim.gui.graph.regulatorygraph.RegulatoryGraphOptionPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  4585614812066176148L
  - Serialized Fields
    - comboBox
```
JComboBox<E> comboBox
```
    - extended
```
JCheckBox extended
```
    - compressed
```
JCheckBox compressed
```
- Class org.ginsim.gui.graph.regulatorygraph.TableInteractionsModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  -2093185924206743169L
  - Serialized Fields
    - interactions
```
LogicalParameterList interactions
```
    - node
```
RegulatoryNode node
```
    - graph
```
RegulatoryGraph graph
```
Package org.ginsim.gui.graph.regulatorygraph.initialstate
- Class org.ginsim.gui.graph.regulatorygraph.initialstate.CompleteStatePanel extends InitialStatePanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - oraclesPanel
```
StateListPanel oraclesPanel
```
- Class org.ginsim.gui.graph.regulatorygraph.initialstate.InitialStatePanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -572201856207494392L
  - Serialized Fields
    - initPanel
```
StateListPanel initPanel
```
    - inputPanel
```
StateListPanel inputPanel
```
    - messageLabel
```
JLabel messageLabel
```
- Class org.ginsim.gui.graph.regulatorygraph.initialstate.InitStateTableModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  -1553864043658960569L
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - m_initState
```
Map<K,V> m_initState
```
    - m_selection
```
Set<E> m_selection
```
    - imanager
```
NamedStateList imanager
```
    - panel
```
InitialStatePanel panel
```
    - several
```
boolean several
```
    - columnShift
```
int columnShift
```
    - theTable
```
JTable theTable
```
    - disabled
```
boolean disabled
```
- Class org.ginsim.gui.graph.regulatorygraph.initialstate.PatternSelectionPanel extends JComboBox implements Serializable
  - Serialized Fields
    - lrg
```
RegulatoryGraph lrg
```
    - model
```
org.ginsim.gui.graph.regulatorygraph.initialstate.PatternSelectionPanel.PatternComboModel model
```
- Class org.ginsim.gui.graph.regulatorygraph.initialstate.StateListPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -7273296658666786369L
  - Serialized Fields
    - jScrollPane
```
JScrollPane jScrollPane
```
    - tableInitStates
```
EnhancedJTable tableInitStates
```
    - model
```
InitStateTableModel model
```
    - buttonDelStateRow
```
JButton buttonDelStateRow
```
    - buttonCopyStateRow
```
JButton buttonCopyStateRow
```
    - buttonUp
```
JButton buttonUp
```
    - buttonDown
```
JButton buttonDown
```
    - buttonSelect
```
JButton buttonSelect
```
    - topInset
```
Insets topInset
```
    - stateList
```
NamedStateList stateList
```
    - panel
```
InitialStatePanel panel
```
    - several
```
boolean several
```
Package org.ginsim.gui.graph.regulatorygraph.logicalfunction
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.FTableInteractionModel extends TableInteractionsModel implements Serializable
  
  serialVersionUID:
  
  6944736425274853595L
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.LogicalFunctionPanel extends AbstractParameterPanel implements Serializable
  
  serialVersionUID:
  
  -87854595177707062L
  - Serialized Fields
    - edgeList
```
IncomingEdgeListModel edgeList
```
    - currentNode
```
RegulatoryNode currentNode
```
    - treePanel
```
LogicalFunctionTreePanel treePanel
```
    - graph
```
RegulatoryGraph graph
```
    - pinfo
```
GenericPropertyInfo pinfo
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.LogicalFunctionTreePanel extends AbstractParameterPanel implements Serializable
  
  serialVersionUID:
  
  -8323666225199589729L
  - Serialized Fields
    - tree
```
JTree tree
```
    - interactionList
```
TreeInteractionsModel interactionList
```
    - motionAdapter
```
MotionAdapter motionAdapter
```
    - componentAdapter
```
ComponentAdapter componentAdapter
```
    - dragSource
```
DragSource dragSource
```
    - dragGestureListener
```
DragGestureListener dragGestureListener
```
    - dragSourceListener
```
GsDragSourceListener dragSourceListener
```
    - dropListener
```
DropListener dropListener
```
    - menu
```
TreeMenu menu
```
    - transferable
```
GsTransferable transferable
```
    - current_transferable
```
GsTransferable current_transferable
```
    - panelFactory
```
PanelFactory panelFactory
```
Package org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.BooleanFunctionTreePanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -1420693226899522868L
  - Serialized Fields
    - treeElement
```
TreeElement treeElement
```
    - tree
```
JTree tree
```
    - width
```
int width
```
    - selected
```
boolean selected
```
    - text
```
String text
```
    - mouseListener
```
MouseListener mouseListener
```
    - mouseMotionListener
```
MouseMotionListener mouseMotionListener
```
    - buttonPanel
```
JPanel buttonPanel
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.BooleanFunctionTreeRenderer extends DefaultTreeCellRenderer implements Serializable
  
  serialVersionUID:
  
  3456841880209526024L
  - Serialized Fields
    - width
```
int width
```
    - tree
```
JTree tree
```
    - panelFactory
```
PanelFactory panelFactory
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.FunctionPanelImpl extends BooleanFunctionTreePanel implements Serializable
  
  serialVersionUID:
  
  8900639275182677150L
  - Serialized Fields
    - editButton
```
JButton editButton
```
    - textArea
```
JTextArea textArea
```
    - jsp
```
JScrollPane jsp
```
    - toUpdate
```
boolean toUpdate
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.GsJTree extends JTree implements Serializable
  
  serialVersionUID:
  
  5256095746552134049L
  - Serialized Fields
    - margin
```
int margin
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.ParamPanel extends BooleanFunctionTreePanel implements Serializable
  
  serialVersionUID:
  
  -7863256897019020183L
  - Serialized Fields
    - label
```
JLabel label
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.RootPanel extends BooleanFunctionTreePanel implements Serializable
  
  serialVersionUID:
  
  -1866485315946504210L
  - Serialized Fields
    - label
```
JLabel label
```
    - button
```
GsButton button
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.TreeMenu extends JPopupMenu implements Serializable
  
  serialVersionUID:
  
  8209694715096362318L
  - Serialized Fields
    - items
```
Hashtable<K,V> items
```
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.ValuePanel extends BooleanFunctionTreePanel implements Serializable
  
  serialVersionUID:
  
  207002545507075699L
  - Serialized Fields
    - addButton
```
JButton addButton
```
    - spinner
```
JSpinner spinner
```
Package org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.dnd
- Class org.ginsim.gui.graph.regulatorygraph.logicalfunction.graphictree.dnd.GlassPane extends JPanel implements Serializable
  
  serialVersionUID:
  
  -5868019917889487785L
  - Serialized Fields
    - composite
```
AlphaComposite composite
```
    - dragged
```
BufferedImage dragged
```
    - location
```
Point location
```
    - dx
```
int dx
```
    - dy
```
int dy
```
    - startx
```
int startx
```
    - starty
```
int starty
```
    - imageReady
```
boolean imageReady
```

Package org.ginsim.gui.graph.regulatorygraph.perturbation

Class org.ginsim.gui.graph.regulatorygraph.perturbation.PerturbationCreatePanel extends JPanel implements Serializable

Serialized Fields

perturbations
```
ListOfPerturbations perturbations
```

helper

org.ginsim.gui.graph.regulatorygraph.perturbation.PerturbationPanelCompanion helper

type
```
PerturbationType type
```
selectNode
```
JComboBox<E> selectNode
```

regulatorModel

org.ginsim.gui.graph.regulatorygraph.perturbation.RegulatorModel regulatorModel

selectRegulator
```
JComboBox<E> selectRegulator
```
selectType
```
JComboBox<E> selectType
```
selected
```
org.colomoto.biolqm.NodeInfo selected
```
regulator
```
org.colomoto.biolqm.NodeInfo regulator
```
setupPanel
```
JPanel setupPanel
```
valueLabel
```
JLabel valueLabel
```
radioKO
```
JRadioButton radioKO
```
radioEct
```
JRadioButton radioEct
```
rangeSlider
```
RangeSlider rangeSlider
```
valueSlider
```
JSlider valueSlider
```
labelRegulator
```
JLabel labelRegulator
```

acCreate

org.ginsim.gui.graph.regulatorygraph.perturbation.CreateAction acCreate

Class org.ginsim.gui.graph.regulatorygraph.perturbation.PerturbationPanel extends JPanel implements Serializable
- Serialized Fields
  - spanel
```
ListEditionPanel<T,L extends List<T>> spanel
```
  - helper
```
PerturbationPanelListHelper helper
```
Class org.ginsim.gui.graph.regulatorygraph.perturbation.PerturbationSelectionPanel extends ListSelectionPanel<Perturbation> implements Serializable

serialVersionUID:

1213902700181873169L
- Serialized Fields
  - graph
```
RegulatoryGraph graph
```
  - holder
```
PerturbationHolder holder
```

Package org.ginsim.gui.graph.trapspacetree
- Class org.ginsim.gui.graph.trapspacetree.TrapSpaceTreeMainPanel extends JPanel implements Serializable
  - Serialized Fields
    - tree
```
TrapSpaceInclusionDiagram tree
```
    - lrg
```
RegulatoryGraph lrg
```
    - styleManager
```
StyleManager<V,E extends Edge<V>> styleManager
```
    - styleProvider
```
LRGPatternStyleProvider styleProvider
```
Package org.ginsim.gui.graph.tree
- Class org.ginsim.gui.graph.tree.TreeActionPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  3342245591953494375L
  - Serialized Fields
    - sourceList
```
JComboBox<E> sourceList
```
    - treeModeList
```
JComboBox<E> treeModeList
```
    - tree
```
Tree tree
```
    - gui
```
GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> gui
```
    - hasSelectionChanged
```
boolean hasSelectionChanged
```
    - labelChooseComboBox
```
JLabel labelChooseComboBox
```

Package org.ginsim.gui.graph.view.style

Class org.ginsim.gui.graph.view.style.AnchorSelector extends JButton implements Serializable
- Serialized Fields
  - anchor
```
EdgeAnchor anchor
```
  - routing
```
EdgeRoutingPanel routing
```
Class org.ginsim.gui.graph.view.style.ColorizerPanel extends JPanel implements Serializable

serialVersionUID:

-1457727191025051650L
- Serialized Fields
  - style
```
StyleProvider<V,E extends Edge<V>> style
```
  - storeUserChoicePrefix
```
String storeUserChoicePrefix
```
  - cb_colorize
```
JCheckBox cb_colorize
```
  - styleManager
```
StyleManager<V,E extends Edge<V>> styleManager
```
Class org.ginsim.gui.graph.view.style.EdgeRoutingPanel extends JPanel implements Serializable
- Serialized Fields
  - curveCheckbox
```
JCheckBox curveCheckbox
```
  - anchorSelector
```
AnchorSelector anchorSelector
```
  - bClear
```
JButton bClear
```
  - manager
```
StyleManager<V,E extends Edge<V>> manager
```
  - selected
```
Edge<V> selected
```
Class org.ginsim.gui.graph.view.style.StyleColorizerCheckbox extends JCheckBox implements Serializable
- Serialized Fields
  - styleManager
```
StyleManager<V,E extends Edge<V>> styleManager
```
  - styleProvider
```
StyleProvider<V,E extends Edge<V>> styleProvider
```

Class org.ginsim.gui.graph.view.style.StyleEditionPanel extends JPanel implements Serializable

Serialized Fields

styleManager

StyleManager<V,E extends Edge<V>> styleManager

gui

GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> gui

m_properties
```
Map<K,V> m_properties
```
label
```
JLabel label
```
nameField
```
StatusTextField nameField
```
nameLabel
```
JLabel nameLabel
```
editor
```
StyleEditor editor
```
c
```
GridBagConstraints c
```

Class org.ginsim.gui.graph.view.style.StyleTab extends JPanel implements Serializable

Serialized Fields

manager

StyleManager<V,E extends Edge<V>> manager

nStyleModel

org.ginsim.gui.graph.view.style.ListTableModel nStyleModel

eStyleModel

org.ginsim.gui.graph.view.style.ListTableModel eStyleModel

list
```
JList<E> list
```
stylePanel
```
StyleEditionPanel stylePanel
```
selectedNodes
```
Collection<E> selectedNodes
```
selectedEdges
```
Collection<E> selectedEdges
```
bNodes
```
JToggleButton bNodes
```
bEdges
```
JToggleButton bEdges
```
b_removeProvider
```
JButton b_removeProvider
```
cb_compatibilityMode
```
JCheckBox cb_compatibilityMode
```
label
```
JLabel label
```
providerMode
```
boolean providerMode
```
pending
```
boolean pending
```
currentStyle
```
Style currentStyle
```
routing
```
EdgeRoutingPanel routing
```

Package org.ginsim.gui.notifications
- Class org.ginsim.gui.notifications.NotificationDetailFrame extends JFrame implements Serializable
  
  serialVersionUID:
  
  8174381889090560842L
  - Serialized Fields
    - scrollPane
```
JScrollPane scrollPane
```
    - btn_close
```
JButton btn_close
```
- Class org.ginsim.gui.notifications.NotificationPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -7922279455055377865L
  - Serialized Fields
    - _source
```
NotificationSource _source
```
    - notificationMessage
```
JLabel notificationMessage
```
    - bcloseNotification
```
JButton bcloseNotification
```
    - cNotificationAction
```
JComboBox<E> cNotificationAction
```
    - bNotificationAction
```
JButton bNotificationAction
```
    - bNotificationAction2
```
JButton bNotificationAction2
```
    - notification
```
Notification notification
```
Package org.ginsim.gui.shell
- Class org.ginsim.gui.shell.AboutDialog extends Frame implements Serializable
  
  serialVersionUID:
  
  8297377937071144230L
  - Serialized Fields
    - jContentPane
```
JPanel jContentPane
```
    - jEditorPane
```
JEditorPane jEditorPane
```
    - jScrollPane
```
JScrollPane jScrollPane
```
    - tabpane
```
JTabbedPane tabpane
```
    - jScrollPane2
```
JScrollPane jScrollPane2
```
    - jEditorPane2
```
JEditorPane jEditorPane2
```
- Class org.ginsim.gui.shell.MainFrame extends Frame implements Serializable
  
  serialVersionUID:
  
  3002680535567580439L
  - Serialized Fields
    - secondaryFrame
```
JDialog secondaryFrame
```
    - contentPanel
```
JPanel contentPanel
```
    - mainSplitPane
```
JSplitPane mainSplitPane
```
    - graphScrollPane
```
JScrollPane graphScrollPane
```
    - graphPanel
```
JPanel graphPanel
```
    - editTabbedPane
```
EditPanel editTabbedPane
```
    - menubar
```
JMenuBar menubar
```
    - toolbar
```
JToolBar toolbar
```
    - mmapDivLocation
```
int mmapDivLocation
```
    - notificationPanel
```
NotificationPanel notificationPanel
```
    - notificationList
```
PriorityQueue<E> notificationList
```
    - actionManager
```
FrameActionManager actionManager
```
    - graphGUI
```
GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> graphGUI
```
- Class org.ginsim.gui.shell.SearchFrame extends SimpleDialog implements Serializable
  
  serialVersionUID:
  
  381064983897248950L
  - Serialized Fields
    - gui
```
GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> gui
```
    - g
```
Graph<V,E extends Edge<V>> g
```
    - mainPanel
```
JPanel mainPanel
```
    - searchTextField
```
JTextField searchTextField
```
    - searchButton
```
JButton searchButton
```
    - table
```
JTable table
```
    - tableModel
```
org.ginsim.gui.shell.MyTableModel tableModel
```
    - autoFillTimer
```
Timer autoFillTimer
```
    - oldFilter
```
String oldFilter
```
- Class org.ginsim.gui.shell.StartupDialog extends JFrame implements Serializable
  
  serialVersionUID:
  
  2935330158118845149L
  - Serialized Fields
    - message
```
JLabel message
```
Package org.ginsim.gui.shell.actions
- Class org.ginsim.gui.shell.actions.BaseAction extends AbstractAction implements Serializable
  
  serialVersionUID:
  
  6937495427962796865L
  - Serialized Fields
    - weight
```
int weight
```
- Class org.ginsim.gui.shell.actions.ExportAction extends BaseAction implements Serializable
  - Serialized Fields
    - graph
```
Graph<V,E extends Edge<V>> graph
```
    - id
```
String id
```
- Class org.ginsim.gui.shell.actions.GenericGraphAction extends BaseAction implements Serializable
  - Serialized Fields
    - graph
```
Graph<V,E extends Edge<V>> graph
```
- Class org.ginsim.gui.shell.actions.ImportAction extends BaseAction implements Serializable
  
  serialVersionUID:
  
  4466248789435823349L
  - Serialized Fields
    - id
```
String id
```
- Class org.ginsim.gui.shell.actions.LayoutAction extends BaseAction implements Serializable
  - Serialized Fields
    - graph
```
Graph<V,E extends Edge<V>> graph
```
- Class org.ginsim.gui.shell.actions.ToolAction extends BaseAction implements Serializable
- Class org.ginsim.gui.shell.actions.ToolkitAction extends BaseAction implements Serializable
  
  serialVersionUID:
  
  -6752180058479316207L
Package org.ginsim.gui.shell.editpanel
- Class org.ginsim.gui.shell.editpanel.AbstractParameterPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  8326061792159035277L
  - Serialized Fields
    - gui
```
GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> gui
```
    - graph
```
Graph<V,E extends Edge<V>> graph
```
    - frame
```
Frame frame
```
- Class org.ginsim.gui.shell.editpanel.EditPanel extends JTabbedPane implements Serializable
  - Serialized Fields
    - gui
```
GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> gui
```
    - tabs
```
List<E> tabs
```
- Class org.ginsim.gui.shell.editpanel.MainEditTab extends JPanel implements Serializable
  - Serialized Fields
    - title
```
String title
```
    - mainPanel
```
GUIEditor<T> mainPanel
```
    - nodePanel
```
GUIEditor<T> nodePanel
```
    - edgePanel
```
GUIEditor<T> edgePanel
```
    - cards
```
CardLayout cards
```
Package org.ginsim.gui.utils.data
- Class org.ginsim.gui.utils.data.GenericPropertyEditorPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -4781276382228645091L
  - Serialized Fields
    - editor
```
ObjectEditor<T> editor
```
    - count
```
int count
```
- Class org.ginsim.gui.utils.data.ListEditionPanel extends SplitPane implements Serializable
  - Serialized Fields
    - associated
```
Object associated
```
    - cards
```
CardLayout cards
```
    - mainPanel
```
JPanel mainPanel
```
    - m_panels
```
Map<K,V> m_panels
```
    - m_cardAliases
```
Map<K,V> m_cardAliases
```
    - listPanel
```
ListPanel<T,L extends List<T>> listPanel
```
    - companion
```
ListPanelCompanion<T,L extends List<T>> companion
```
    - dialog
```
StackDialog dialog
```
- Class org.ginsim.gui.utils.data.ListPanel extends JPanel implements Serializable
  - Serialized Fields
    - sp
```
JScrollPane sp
```
    - helper
```
ListPanelHelper<T,L extends List<T>> helper
```
    - list
```
List<E> list
```
    - model
```
org.ginsim.gui.utils.data.SimpleListModel<T,L extends List<T>> model
```
    - jl
```
EnhancedJTable jl
```
    - editionPanel
```
ListEditionPanel<T,L extends List<T>> editionPanel
```
    - autohide
```
int autohide
```
    - b_up
```
JButton b_up
```
    - b_down
```
JButton b_down
```
    - b_add
```
JButton b_add
```
    - b_del
```
JButton b_del
```
    - l_title
```
JLabel l_title
```
    - p_right
```
JPanel p_right
```
    - targetpanel
```
JPanel targetpanel
```
    - cards
```
CardLayout cards
```
- Class org.ginsim.gui.utils.data.ListSelectionPanel extends JPanel implements Serializable
  - Serialized Fields
    - dialog
```
StackDialog dialog
```
    - comboModel
```
org.ginsim.gui.utils.data.ListComboModel<T> comboModel
```
- Class org.ginsim.gui.utils.data.PropertyActionButton extends JButton implements Serializable
  
  serialVersionUID:
  
  -2434800129909268912L
  - Serialized Fields
    - pinfo
```
GenericPropertyInfo pinfo
```
- Class org.ginsim.gui.utils.data.PropertySwitch extends JComboBox implements Serializable
  
  serialVersionUID:
  
  135698849165648064L
  - Serialized Fields
    - cards
```
CardLayout cards
```
    - stack
```
JPanel stack
```
- Class org.ginsim.gui.utils.data.SimpleStateListTableModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  7616168924487846012L
  - Serialized Fields
    - g
```
RegulatoryGraph g
```
    - data
```
List<E> data
```
      A list of state : byte[]
    - isEditable
```
boolean isEditable
```
    - statemax
```
byte[] statemax
```
Package org.ginsim.gui.utils.data.models
- Class org.ginsim.gui.utils.data.models.MaxSpinModel extends AbstractSpinnerModel implements Serializable
  - Serialized Fields
    - minmax
```
MinMaxSpinModel minmax
```
- Class org.ginsim.gui.utils.data.models.MinSpinModel extends AbstractSpinnerModel implements Serializable
  - Serialized Fields
    - minmax
```
MinMaxSpinModel minmax
```
- Class org.ginsim.gui.utils.data.models.SpinModel extends AbstractSpinnerModel implements Serializable
  - Serialized Fields
    - name
```
String name
```
- Class org.ginsim.gui.utils.data.models.ValueListComboModel extends DefaultComboBoxModel implements Serializable
  
  serialVersionUID:
  
  -8553547226168566527L
  - Serialized Fields
    - data
```
ValueList<T> data
```
Package org.ginsim.gui.utils.dialog.stackdialog
- Class org.ginsim.gui.utils.dialog.stackdialog.AbstractStackDialogHandler extends JPanel implements Serializable
  - Serialized Fields
    - stack
```
HandledStackDialog stack
```
- Class org.ginsim.gui.utils.dialog.stackdialog.HandledStackDialog extends StackDialog implements Serializable
  - Serialized Fields
    - handler
```
StackDialogHandler handler
```
- Class org.ginsim.gui.utils.dialog.stackdialog.LogicalModelActionDialog extends StackDialog implements Serializable
  - Serialized Fields
    - lrg
```
RegulatoryGraph lrg
```
    - perturbations
```
ListOfPerturbations perturbations
```
    - reductions
```
ListOfReductionConfigs reductions
```
    - perturbationPanel
```
PerturbationSelectionPanel perturbationPanel
```
    - reductionPanel
```
ReductionSelectionPanel reductionPanel
```
    - perturbation
```
Perturbation perturbation
```
    - reduction
```
ReductionConfig reduction
```
    - pattern
```
NamedState pattern
```
    - userID
```
String userID
```
    - mainPanel
```
JPanel mainPanel
```
    - cb_propagate
```
JCheckBox cb_propagate
```
    - cb_simplify
```
JCheckBox cb_simplify
```
- Class org.ginsim.gui.utils.dialog.stackdialog.StackDialog extends SimpleDialog implements Serializable
  
  serialVersionUID:
  
  -6696566567870168910L
  - Serialized Fields
    - messageLabel
```
JLabel messageLabel
```
    - cards
```
CardLayout cards
```
    - mainPanel
```
JPanel mainPanel
```
    - bottomPanel
```
JPanel bottomPanel
```
    - tmpPanel
```
Component tmpPanel
```
    - brun
```
JButton brun
```
    - bcancel
```
JButton bcancel
```
    - bclose
```
JButton bclose
```
Package org.ginsim.gui.utils.widgets
- Class org.ginsim.gui.utils.widgets.BooleanEditor extends JCheckBox implements Serializable
  
  serialVersionUID:
  
  7188801384907165831L
  - Serialized Fields
    - pinfo
```
GenericPropertyInfo pinfo
```
- Class org.ginsim.gui.utils.widgets.Button extends JButton implements Serializable
  
  serialVersionUID:
  
  -6823613455585788403L
  - Serialized Fields
    - insets
```
Insets insets
```
- Class org.ginsim.gui.utils.widgets.ButtonPopup extends JPanel implements Serializable
  
  serialVersionUID:
  
  -6885596437610975591L
  - Serialized Fields
    - listeners
```
List<E> listeners
```
    - options
```
List<E> options
```
    - button
```
StockButton button
```
    - dropdown
```
StockButton dropdown
```
    - menu
```
JPopupMenu menu
```
- Class org.ginsim.gui.utils.widgets.EnhancedJTable extends JTable implements Serializable
  
  serialVersionUID:
  
  835349911766025807L
  - Serialized Fields
    - v_actionListeners
```
List<E> v_actionListeners
```
- Class org.ginsim.gui.utils.widgets.EnhancedListCellRenderer extends DefaultTreeCellRenderer implements Serializable
  
  serialVersionUID:
  
  296160062672716600L
- Class org.ginsim.gui.utils.widgets.Frame extends JFrame implements Serializable
  
  serialVersionUID:
  
  -9024470351150546630L
  - Serialized Fields
    - id
```
String id
```
- Class org.ginsim.gui.utils.widgets.GsButton extends JButton implements Serializable
  
  serialVersionUID:
  
  -6823613455585788403L
  - Serialized Fields
    - insets
```
Insets insets
```
- Class org.ginsim.gui.utils.widgets.GsPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -2899156169561371789L
  - Serialized Fields
    - title
```
String title
```
- Class org.ginsim.gui.utils.widgets.Label extends JLabel implements Serializable
  
  serialVersionUID:
  
  6165159464465715839L
- Class org.ginsim.gui.utils.widgets.RangeSlider extends JSlider implements Serializable
- Class org.ginsim.gui.utils.widgets.SeparatorComboBox extends JComboBox implements Serializable
  
  serialVersionUID:
  
  7306739458381754030L
  - Serialized Fields
    - released
```
boolean released
```
    - separatorSelected
```
boolean separatorSelected
```
- Class org.ginsim.gui.utils.widgets.SplitPane extends JSplitPane implements Serializable
  
  serialVersionUID:
  
  5625943556046782994L
  - Serialized Fields
    - name
```
String name
```
- Class org.ginsim.gui.utils.widgets.StatusTextField extends JTextField implements Serializable
  
  serialVersionUID:
  
  7188801384907165831L
  - Serialized Fields
    - emptyText
```
String emptyText
```
    - status
```
int status
```
    - highlight
```
boolean highlight
```
    - hasFocus
```
boolean hasFocus
```
    - pinfo
```
TextProperty pinfo
```
- Class org.ginsim.gui.utils.widgets.StockButton extends JButton implements Serializable
  
  serialVersionUID:
  
  -9206518187476502060L
- Class org.ginsim.gui.utils.widgets.TableHeaderTransferHandler extends TransferHandler implements Serializable
Package org.ginsim.gui.utils.widgets.treetable
- Class org.ginsim.gui.utils.widgets.treetable.JTreeTable extends EnhancedJTable implements Serializable
  
  serialVersionUID:
  
  5970043592153390983L
  - Serialized Fields
    - tree
```
JTreeTable.TreeTableCellRenderer tree
```
- Class org.ginsim.gui.utils.widgets.treetable.JTreeTable.TreeTableCellEditor extends AbstractCellEditor implements Serializable
  
  serialVersionUID:
  
  -6082380313290493844L
- Class org.ginsim.gui.utils.widgets.treetable.JTreeTable.TreeTableCellRenderer extends JTree implements Serializable
  
  serialVersionUID:
  
  -7702308522559472L
  - Serialized Fields
    - visibleRow
```
int visibleRow
```
- Class org.ginsim.gui.utils.widgets.treetable.TreeTableModelAdapter extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  -2777937382866866602L
  - Serialized Fields
    - tree
```
JTree tree
```
    - treeTableModel
```
TreeTableModel treeTableModel
```
Package org.ginsim.service.tool.avatar.params
- Class org.ginsim.service.tool.avatar.params.AvatarParameterList extends NamedList<AvatarParameters> implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - graph
```
RegulatoryGraph graph
```
    - pcmanager
```
PrioritySetList pcmanager
```
    - imanager
```
NamedStatesHandler imanager
```
Package org.ginsim.service.tool.avatar.utils
- Class org.ginsim.service.tool.avatar.utils.AvaException extends RuntimeException implements Serializable
  
  serialVersionUID:
  
  1L
Package org.ginsim.service.tool.modelreduction
- Class org.ginsim.service.tool.modelreduction.ListOfReductionConfigs extends NamedList<ReductionConfig> implements Serializable
  - Serialized Fields
    - s_current
```
String s_current
```
    - graph
```
RegulatoryGraph graph
```
    - outputStrippers
```
Set<E> outputStrippers
```
    - fixedPropagaters
```
Set<E> fixedPropagaters
```
    - users
```
Map<K,V> users
```
Package org.ginsim.service.tool.reg2dyn
- Class org.ginsim.service.tool.reg2dyn.SimulationParameterList extends NamedList<SimulationParameters> implements Serializable
  - Serialized Fields
    - graph
```
RegulatoryGraph graph
```
    - imanager
```
NamedStatesHandler imanager
```
    - pcmanager
```
PrioritySetList pcmanager
```
    - perturbations
```
ListOfPerturbations perturbations
```
Package org.ginsim.service.tool.reg2dyn.limitedsimulation
- Class org.ginsim.service.tool.reg2dyn.limitedsimulation.StatesToHierarchicalEditTab extends AbstractParameterPanel<DynamicGraph,DynamicNode> implements Serializable
  
  serialVersionUID:
  
  -4906477197046628561L
  - Serialized Fields
    - states2hnode
```
HashMap<K,V> states2hnode
```
    - htg
```
HierarchicalTransitionGraph htg
```
    - jScrollPane
```
JScrollPane jScrollPane
```
    - jTable
```
JTable jTable
```
    - typeLabel
```
JLabel typeLabel
```
    - nameLabel
```
JLabel nameLabel
```
    - showInHTGButton
```
JButton showInHTGButton
```
    - node
```
HierarchicalNode node
```
Package org.ginsim.service.tool.reg2dyn.priorityclass
- Class org.ginsim.service.tool.reg2dyn.priorityclass.PrioritySetDefinition extends ListenableNamedList<PriorityClass> implements Serializable
  - Serialized Fields
    - m_elt
```
Map<K,V> m_elt
```
    - name
```
String name
```
- Class org.ginsim.service.tool.reg2dyn.priorityclass.PrioritySetList extends NamedList<UpdaterDefinition> implements Serializable
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - lockedIndex
```
int lockedIndex
```
Package org.ginsim.servicegui.export.cadp
- Class org.ginsim.servicegui.export.cadp.CADPExportConfigPanel extends AbstractStackDialogHandler implements Serializable
  
  serialVersionUID:
  
  7274577689017747224L
  - Serialized Fields
    - config
```
CADPExportConfig config
```
    - action
```
org.ginsim.servicegui.export.cadp.CADPExportAction action
```
    - instanceSelectorPanel
```
InstanceSelectorWidget instanceSelectorPanel
```
    - adjacencyMatrixPanel
```
AdjacencyMatrixWidget adjacencyMatrixPanel
```
    - integrationPanel
```
IntegrationFunctionWidget integrationPanel
```
    - visibleComponentsPanel
```
VisibleComponentsWidget visibleComponentsPanel
```
    - initialStatesPanel
```
InitialStatesWidget initialStatesPanel
```
    - instances
```
int instances
```
    - topology
```
Topology topology
```
    - mappedNodes
```
List<E> mappedNodes
```
    - stableStates
```
List<E> stableStates
```
    - compatibleStableStates
```
List<E> compatibleStableStates
```
- Class org.ginsim.servicegui.export.cadp.InitialStatesWidget extends JPanel implements Serializable
  
  serialVersionUID:
  
  -2054629059623751148L
  - Serialized Fields
    - dialog
```
CompositionSpecificationDialog dialog
```
    - scrollPane
```
JScrollPane scrollPane
```
    - tableInitStates
```
EnhancedJTable tableInitStates
```
    - messageLabel
```
JLabel messageLabel
```
- Class org.ginsim.servicegui.export.cadp.LRMInitialStateModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  -1133482826268556900L
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - initialStates
```
List<E> initialStates
```
    - dialog
```
CompositionSpecificationDialog dialog
```
    - nbCol
```
int nbCol
```
    - nbRow
```
int nbRow
```
    - panel
```
InitialStatesWidget panel
```
    - theTable
```
JTable theTable
```
- Class org.ginsim.servicegui.export.cadp.VisibleComponentsWidget extends JPanel implements Serializable
  
  serialVersionUID:
  
  6900573600550522830L
  - Serialized Fields
    - dialog
```
CompositionSpecificationDialog dialog
```
    - listNodes
```
List<E> listNodes
```
    - eligible
```
List<E> eligible
```
    - nodeList
```
JList<E> nodeList
```
    - messageLabel
```
JLabel messageLabel
```
Package org.ginsim.servicegui.export.documentation
- Class org.ginsim.servicegui.export.documentation.LRGDocumentationAction extends ExportAction<RegulatoryGraph> implements Serializable
  - Serialized Fields
    - service
```
LRGDocumentationService service
```
    - format
```
GenericDocumentFormat format
```
Package org.ginsim.servicegui.export.nusmv
- Class org.ginsim.servicegui.export.nusmv.NuSMVExportConfigPanel extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  -7398674287463858306L
  - Serialized Fields
    - config
```
NuSMVConfig config
```
    - action
```
org.ginsim.servicegui.export.nusmv.NuSMVExportAction action
```
    - mainPanel
```
JPanel mainPanel
```
    - priorityPanel
```
PrioritySelectionPanel priorityPanel
```
    - initPanel
```
InitialStatePanel initPanel
```
    - jrbCTL
```
JRadioButton jrbCTL
```
    - jrbARCTL
```
JRadioButton jrbARCTL
```
    - hasInputs
```
boolean hasInputs
```
Package org.ginsim.servicegui.export.petrinet
- Class org.ginsim.servicegui.export.petrinet.PetriNetExportAction extends ExportAction<RegulatoryGraph> implements Serializable
  - Serialized Fields
    - format
```
org.colomoto.biolqm.io.petrinet.PetriNetFormat format
```
    - encoder
```
org.colomoto.biolqm.io.petrinet.AbstractPNEncoder encoder
```
    - model
```
org.colomoto.biolqm.LogicalModel model
```
    - m_init
```
Map<K,V> m_init
```
    - m_input
```
Map<K,V> m_input
```
Package org.ginsim.servicegui.export.prism
- Class org.ginsim.servicegui.export.prism.PRISMExportConfigPanel extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  -7398674287463858306L
  - Serialized Fields
    - config
```
PRISMConfig config
```
    - action
```
org.ginsim.servicegui.export.prism.PRISMExportAction action
```
    - mainPanel
```
JPanel mainPanel
```
    - initPanel
```
InitialStatePanel initPanel
```
Package org.ginsim.servicegui.export.sat
- Class org.ginsim.servicegui.export.sat.SATExportConfigPanel extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  -7398674287463858306L
  - Serialized Fields
    - config
```
SATConfig config
```
    - action
```
org.ginsim.servicegui.export.sat.SATExportAction action
```
    - mainPanel
```
JPanel mainPanel
```
    - initPanel
```
InitialStatePanel initPanel
```
    - type
```
SATExportType type
```
Package org.ginsim.servicegui.format.ginml
- Class org.ginsim.servicegui.format.ginml.GINMLFormatConfigPanel extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  7758753788324234716L
  - Serialized Fields
    - config
```
GINMLFormatConfig config
```
    - action
```
ExportAction<G extends Graph> action
```
    - mainPanel
```
JPanel mainPanel
```
Package org.ginsim.servicegui.format.sbml
- Class org.ginsim.servicegui.format.sbml.SBMLQualExportConfigPanel extends AbstractStackDialogHandler implements Serializable
  
  serialVersionUID:
  
  9043565812912568136L
  - Serialized Fields
    - config
```
SBMLQualConfig config
```
    - action
```
ExportAction<G extends Graph> action
```
Package org.ginsim.servicegui.tool.avatar
- Class org.ginsim.servicegui.tool.avatar.AvatarConfigFrame extends AvatarLogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  -8243962416980316054L
  - Serialized Fields
    - panelAvatar
```
SimulationPanel panelAvatar
```
      pointer to the panel with the parameters for an avatar simulation
    - panelFF
```
SimulationPanel panelFF
```
      pointer to the panel with the parameters for a firefront simulation
    - panelMC
```
SimulationPanel panelMC
```
      pointer to the panel with the parameters for a Monte Carlo simulation
    - states
```
CompleteStatePanel states
```
      pointer to the panel with the initial states and oracles
    - jcbAlgorithm
```
JComboBox<E> jcbAlgorithm
```
      selected simulation: Avatar, Firefront or Monte Carlo
    - quiet
```
JCheckBox quiet
```
      whether detailed logs should be printed (not advisable for complex models)
    - statestore
```
AvatarStateStore statestore
```
      named store with the initial states and oracles
    - outputPanel
```
JPanel outputPanel
```
    - filename
```
String filename
```
    - horizontalPanel
```
JSplitPane horizontalPanel
```
    - jtaOutput
```
JTextArea jtaOutput
```
    - forceStop
```
JButton forceStop
```
    - results
```
AvatarResults results
```
    - memorizedFile
```
File memorizedFile
```
    - logFile
```
File logFile
```
    - resFile
```
File resFile
```
    - csvFile
```
File csvFile
```
    - editionPanel
```
AvaParameterEditionPanel editionPanel
```
    - open
```
String open
```
    - end
```
String end
```
    - algoVar
```
String algoVar
```
- Class org.ginsim.servicegui.tool.avatar.AvatarLogicalModelActionDialog extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  6959189835195994930L
  - Serialized Fields
    - yAdjustment
```
int yAdjustment
```
Package org.ginsim.servicegui.tool.avatar.algopanels
- Class org.ginsim.servicegui.tool.avatar.algopanels.AvatarPanel extends SimulationPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - runsB
```
JTextField runsB
```
    - tauB
```
JTextField tauB
```
    - depthB
```
JTextField depthB
```
    - aproxDepth
```
JTextField aproxDepth
```
    - minTranB
```
JTextField minTranB
```
    - minCycleB
```
JTextField minCycleB
```
    - maxPsizeB
```
JTextField maxPsizeB
```
    - maxRewiringSizeB
```
JTextField maxRewiringSizeB
```
    - keepTransB
```
JCheckBox keepTransB
```
    - strategy
```
JComboBox<E> strategy
```
    - open
```
String open
```
    - end
```
String end
```
    - runsVar
```
String runsVar
```
    - tauVar
```
String tauVar
```
    - depthVar
```
String depthVar
```
    - keepTransVar
```
String keepTransVar
```
    - strategyVar
```
String strategyVar
```
    - minTransVar
```
String minTransVar
```
    - minCycleVar
```
String minCycleVar
```
    - maxPSizeVar
```
String maxPSizeVar
```
    - maxRewiringSizeVar
```
String maxRewiringSizeVar
```
    - panelAvatarP1
```
JPanel panelAvatarP1
```
    - panelAvatarP2
```
JPanel panelAvatarP2
```
- Class org.ginsim.servicegui.tool.avatar.algopanels.FirefrontPanel extends SimulationPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - maxExpandffB
```
JTextField maxExpandffB
```
    - depthffB
```
JTextField depthffB
```
    - alphaB
```
JTextField alphaB
```
    - betaB
```
JTextField betaB
```
    - open
```
String open
```
    - end
```
String end
```
    - alphaVar
```
String alphaVar
```
    - betaVar
```
String betaVar
```
    - maxExpandVar
```
String maxExpandVar
```
    - depthffVar
```
String depthffVar
```
- Class org.ginsim.servicegui.tool.avatar.algopanels.MonteCarloPanel extends SimulationPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - runs
```
JTextField runs
```
    - depth
```
JTextField depth
```
    - open
```
String open
```
    - end
```
String end
```
    - runsVar
```
String runsVar
```
    - depthVar
```
String depthVar
```
- Class org.ginsim.servicegui.tool.avatar.algopanels.SimulationPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  -8563253212299485519L
Package org.ginsim.servicegui.tool.avatar.others
- Class org.ginsim.servicegui.tool.avatar.others.FixedSizePanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - height
```
int height
```
    - width
```
int width
```
- Class org.ginsim.servicegui.tool.avatar.others.TitleToolTipPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  1L
Package org.ginsim.servicegui.tool.avatar.parameters
- Class org.ginsim.servicegui.tool.avatar.parameters.AvaParameterEditionPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  1197188580286713173L
  - Serialized Fields
    - paramList
```
AvatarParameterList paramList
```
      list of simulation contexts
    - stackDialog
```
AvatarConfigFrame stackDialog
```
      pointer to main/parent panel
    - paramPanel
```
ListEditionPanel<T,L extends List<T>> paramPanel
```
    - graph
```
RegulatoryGraph graph
```
    - currentParam
```
int[] currentParam
```

Package org.ginsim.servicegui.tool.circuit

Class org.ginsim.servicegui.tool.circuit.CircuitConfigureSearch extends JPanel implements Serializable

serialVersionUID:: 412805818821147248L

Serialized Fields

config
```
CircuitSearchStoreConfig config
```
jsp
```
JScrollPane jsp
```
jtable
```
JTable jtable
```

model

org.ginsim.servicegui.tool.circuit.GsCircuitConfigModel model

circuitFrame
```
CircuitFrame circuitFrame
```

smodel

org.ginsim.servicegui.tool.circuit.GsCircuitSpinModel smodel

buttonReset
```
JButton buttonReset
```
nodeOrder
```
List<E> nodeOrder
```

Class org.ginsim.servicegui.tool.circuit.CircuitFrame extends StackDialog implements Serializable

serialVersionUID:: 2671795894716799300L

Serialized Fields

graph
```
RegulatoryGraph graph
```
status
```
CircuitGUIStatus status
```
v_circuit
```
List<E> v_circuit
```
tree
```
JTreeTable tree
```

treemodel

org.ginsim.servicegui.tool.circuit.GsCircuitTreeModel treemodel

configDialog
```
JPanel configDialog
```
resultPanel
```
JPanel resultPanel
```
cards
```
CardLayout cards
```
splitPane
```
JSplitPane splitPane
```
jContentPane
```
JPanel jContentPane
```
labelProgression
```
JLabel labelProgression
```
sp
```
JScrollPane sp
```
sp2
```
JScrollPane sp2
```
jta
```
JTextArea jta
```
config
```
CircuitSearchStoreConfig config
```
cb_cleanup
```
JCheckBox cb_cleanup
```
mutantstore
```
PerturbationHolder mutantstore
```
mutantPanel
```
PerturbationSelectionPanel mutantPanel
```
viewContextButton
```
JButton viewContextButton
```
cSearcher
```
CircuitSearcher cSearcher
```

ddmanager

org.colomoto.mddlib.MDDManager ddmanager

mddPaths

org.colomoto.mddlib.PathSearcher mddPaths

Package org.ginsim.servicegui.tool.composition
- Class org.ginsim.servicegui.tool.composition.AdjacencyMatrixWidget extends JPanel implements Serializable
  
  serialVersionUID:
  
  -7735335091138597285L
  - Serialized Fields
    - symmetricTopology
```
boolean symmetricTopology
```
    - matrix
```
JCheckBox[][] matrix
```
    - reverseMatrix
```
Map<K,V> reverseMatrix
```
    - symmetryGroup
```
ButtonGroup symmetryGroup
```
    - buttonSym
```
JRadioButton buttonSym
```
    - buttonAsy
```
JRadioButton buttonAsy
```
    - dialog
```
CompositionSpecificationDialog dialog
```
- Class org.ginsim.servicegui.tool.composition.CompositionConfigDialog extends StackDialog implements Serializable
  
  serialVersionUID:
  
  8046844091168372569L
  - Serialized Fields
    - graph
```
RegulatoryGraph graph
```
    - dialog
```
CompositionPanel dialog
```
    - isRunning
```
boolean isRunning
```
- Class org.ginsim.servicegui.tool.composition.CompositionPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  1139543816020490397L
  - Serialized Fields
    - config
```
CompositionConfig config
```
    - graph
```
RegulatoryGraph graph
```
    - mappedNodes
```
List<E> mappedNodes
```
    - instances
```
int instances
```
    - topology
```
Topology topology
```
    - mainPanel
```
JPanel mainPanel
```
    - instanceSelectorPanel
```
InstanceSelectorWidget instanceSelectorPanel
```
    - adjacencyMatrixPanel
```
AdjacencyMatrixWidget adjacencyMatrixPanel
```
    - integrationPanel
```
IntegrationFunctionWidget integrationPanel
```
    - reducePanel
```
JPanel reducePanel
```
    - toReduce
```
JCheckBox toReduce
```
- Class org.ginsim.servicegui.tool.composition.InstanceSelectorWidget extends JPanel implements Serializable
  
  serialVersionUID:
  
  4722616808096433759L
  - Serialized Fields
    - numberInstances
```
JSpinner numberInstances
```
- Class org.ginsim.servicegui.tool.composition.IntegrationFunctionWidget extends JPanel implements Serializable
  
  serialVersionUID:
  
  2423386096996654728L
  - Serialized Fields
    - dialog
```
CompositionSpecificationDialog dialog
```
    - inputNodes
```
List<E> inputNodes
```
    - properNodes
```
List<E> properNodes
```
    - messageLabel
```
JLabel messageLabel
```
    - outputLabel
```
JLabel outputLabel
```
    - mappedInputSelection
```
Map<K,V> mappedInputSelection
```
    - mappedFunctionSelection
```
Map<K,V> mappedFunctionSelection
```
    - mappedProperSelection
```
Map<K,V> mappedProperSelection
```
    - reverseProperSelectionMap
```
Map<K,V> reverseProperSelectionMap
```
    - mappedPane
```
Map<K,V> mappedPane
```
Package org.ginsim.servicegui.tool.dataviewer
- Class org.ginsim.servicegui.tool.dataviewer.DataViewer extends JScrollPane implements Serializable
  
  serialVersionUID:
  
  -7540546129482675257L
  - Serialized Fields
    - graph
```
Graph<V,E extends Edge<V>> graph
```
    - panel
```
JPanel panel
```
    - objManager
```
ObjectAssociationManager objManager
```
    - deleted
```
Map<K,V> deleted
```
    - dialog
```
HandledStackDialog dialog
```
Package org.ginsim.servicegui.tool.decisionanalysis
- Class org.ginsim.servicegui.tool.decisionanalysis.DecisionAnalysisFrame extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  -7619253564236142617L
  - Serialized Fields
    - htg
```
HierarchicalTransitionGraph htg
```
    - mainPanel
```
JPanel mainPanel
```
    - selectPriorityClass
```
PrioritySelectionPanel selectPriorityClass
```
    - currentParameter
```
SimulationParameters currentParameter
```
Package org.ginsim.servicegui.tool.dynamicanalyser
- Class org.ginsim.servicegui.tool.dynamicanalyser.DynamicAnalyserPathModel extends DefaultTableModel implements Serializable
  
  serialVersionUID:
  
  1737959610482682294L
  - Serialized Fields
    - len
```
int len
```
    - nbBad
```
int nbBad
```
    - nodeOrder
```
List<E> nodeOrder
```
    - v
```
List<E> v
```
    - v_in
```
List<E> v_in
```
    - graph
```
DynamicGraph graph
```
    - searchConfig
```
DynamicSearchPathConfig searchConfig
```
- Class org.ginsim.servicegui.tool.dynamicanalyser.DynamicPathItemCellRenderer extends DefaultTableCellRenderer implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    - v_in
```
List<E> v_in
```
    - t_in
```
boolean[] t_in
```
    - defaultColor
```
Color defaultColor
```
    - highlightColor
```
Color highlightColor
```
- Class org.ginsim.servicegui.tool.dynamicanalyser.DynamicSearchPathConfig extends JDialog implements Serializable
  
  serialVersionUID:
  
  -1664002987035655174L
  - Serialized Fields
    - graph
```
DynamicGraph graph
```
    - v_pathConstraints
```
List<E> v_pathConstraints
```
    - jcontentPane
```
JPanel jcontentPane
```
    - scrollPane
```
JScrollPane scrollPane
```
    - tableConstraint
```
JTable tableConstraint
```
    - but_search
```
JButton but_search
```
    - but_add
```
JButton but_add
```
    - but_del
```
JButton but_del
```
    - but_gp
```
JButton but_gp
```
    - but_view
```
JButton but_view
```
    - but_close
```
JButton but_close
```
    - l_info
```
JLabel l_info
```
    - p_result
```
JPanel p_result
```
    - model
```
DynamicAnalyserPathModel model
```
    - path
```
List<E> path
```
    - frame
```
JFrame frame
```
    - s_nodeOrder
```
String s_nodeOrder
```

Package org.ginsim.servicegui.tool.graphcomparator

Class org.ginsim.servicegui.tool.graphcomparator.GraphComparatorCaptionFrame extends JFrame implements Serializable

serialVersionUID:: -3613649496687281647L

Serialized Fields

g
```
Graph<V,E extends Edge<V>> g
```
mainPanel
```
JPanel mainPanel
```
resultsPane
```
JTextArea resultsPane
```
diffColor
```
JRadioButton diffColor
```
specG1Color
```
JRadioButton specG1Color
```
specG2Color
```
JRadioButton specG2Color
```
intersectColor
```
JRadioButton intersectColor
```
exclusionColor
```
JRadioButton exclusionColor
```
fusionColor1
```
JRadioButton fusionColor1
```
fusionColor2
```
JRadioButton fusionColor2
```
automaticRoutingButton
```
JButton automaticRoutingButton
```

gcResult

GraphComparatorResult<V,E extends Edge<V>,G extends Graph<V,E>> gcResult

Class org.ginsim.servicegui.tool.graphcomparator.GraphComparatorFrame extends StackDialog implements Serializable

Serialized Fields

frame
```
JFrame frame
```
frame_graph
```
Graph<V,E extends Edge<V>> frame_graph
```
g1_modelComboBox
```
JComboBox<E> g1_modelComboBox
```
g2_modelComboBox
```
JComboBox<E> g2_modelComboBox
```
g1_filepath
```
JTextField g1_filepath
```
g2_filepath
```
JTextField g2_filepath
```
g1_chooseFileButton
```
JButton g1_chooseFileButton
```
g2_chooseFileButton
```
JButton g2_chooseFileButton
```
jfc
```
JFileChooser jfc
```
displayGraphCheckBox
```
JCheckBox displayGraphCheckBox
```
mainPanel
```
JPanel mainPanel
```
graphList
```
List<E> graphList
```
opt_display_graph
```
boolean opt_display_graph
```

Package org.ginsim.servicegui.tool.interactionanalysis
- Class org.ginsim.servicegui.tool.interactionanalysis.InteractionAnalysisFrame extends StackDialog implements Serializable
  
  serialVersionUID:
  
  -9126723853606423085L
  - Serialized Fields
    - frame
```
JFrame frame
```
    - regGraph
```
RegulatoryGraph regGraph
```
    - mainPanel
```
Container mainPanel
```
    - saveReportButton
```
JButton saveReportButton
```
    - iaService
```
InteractionAnalysisService iaService
```
    - algoResult
```
InteractionAnalysisAlgoResult algoResult
```
    - mutantSelectionPanel
```
PerturbationSelectionPanel mutantSelectionPanel
```
    - mutantStore
```
PerturbationHolder mutantStore
```
    - colorizerPanel
```
ColorizerPanel colorizerPanel
```

Package org.ginsim.servicegui.tool.localgraph

Class org.ginsim.servicegui.tool.localgraph.LocalGraphFrame extends StackDialog implements Serializable

Serialized Fields

THRESHOLD_AUTO_REFRESH
```
int THRESHOLD_AUTO_REFRESH
```
mainPanel
```
Container mainPanel
```
addStatesButton
```
JButton addStatesButton
```
replaceStatesButton
```
JButton replaceStatesButton
```
config
```
LocalGraphConfig config
```
functionalityMap
```
Map<K,V> functionalityMap
```
activityMap
```
Map<K,V> activityMap
```
styleProvider
```
LocalGraphStyleProvider styleProvider
```

styleManager

StyleManager<V,E extends Edge<V>> styleManager

mutantSelectionPanel

PerturbationSelectionPanel mutantSelectionPanel

perturbation
```
Perturbation perturbation
```

sst

org.ginsim.servicegui.tool.localgraph.StateSelectorTable sst

isColorized
```
boolean isColorized
```

Package org.ginsim.servicegui.tool.modelreduction
- Class org.ginsim.servicegui.tool.modelreduction.ReductionConfigDialog extends StackDialog implements Serializable
  
  serialVersionUID:
  
  3618855894072951620L
  - Serialized Fields
    - graph
```
RegulatoryGraph graph
```
    - lp
```
ReductionConfigurationPanel lp
```
    - simplifier
```
ReductionTask simplifier
```
    - reconstructionTask
```
ReconstructionTask reconstructionTask
```
    - config
```
ReductionConfig config
```
    - isRunning
```
boolean isRunning
```
- Class org.ginsim.servicegui.tool.modelreduction.ReductionConfigSelectionPanel extends ListSelectionPanel<ReductionConfig> implements Serializable
  
  serialVersionUID:
  
  1213902700181873169L
  - Serialized Fields
    - graph
```
RegulatoryGraph graph
```
    - holder
```
ReductionHolder holder
```
- Class org.ginsim.servicegui.tool.modelreduction.ReductionConfigurationPanel extends ListEditionPanel<ReductionConfig,ListOfReductionConfigs> implements Serializable
- Class org.ginsim.servicegui.tool.modelreduction.ReductionSelectionPanel extends JPanel implements Serializable
  
  serialVersionUID:
  
  1213902700181873169L
  - Serialized Fields
    - cfgPanel
```
ReductionConfigSelectionPanel cfgPanel
```
    - patternPanel
```
PatternSelectionPanel patternPanel
```
Package org.ginsim.servicegui.tool.omddViz
- Class org.ginsim.servicegui.tool.omddViz.OmddVizFrame extends StackDialog implements Serializable
  
  serialVersionUID:
  
  -7619253564236142617L
  - Serialized Fields
    - frame
```
JFrame frame
```
    - mainPanel
```
Container mainPanel
```
    - calcPanel
```
JPanel calcPanel
```
    - resPanel
```
JPanel resPanel
```
    - leftOperandCB
```
JComboBox<E> leftOperandCB
```
    - rightOperandCB
```
JComboBox<E> rightOperandCB
```
    - operatorCB
```
JComboBox<E> operatorCB
```
    - resultTextField
```
JTextField resultTextField
```
    - displayTreeButton
```
JButton displayTreeButton
```
    - graph
```
RegulatoryGraph graph
```
    - ddmanager
```
org.colomoto.mddlib.MDDManager ddmanager
```
    - leftOmdd
```
int leftOmdd
```
    - rightOmdd
```
int rightOmdd
```
    - resOmdd
```
int resOmdd
```
    - operators
```
org.colomoto.mddlib.MDDOperator[] operators
```
Package org.ginsim.servicegui.tool.pathfinding
- Class org.ginsim.servicegui.tool.pathfinding.DynamicAnalyserPathModel extends DefaultTableModel implements Serializable
  
  serialVersionUID:
  
  1737959610482682294L
  - Serialized Fields
    - len
```
int len
```
    - nbBad
```
int nbBad
```
    - nodeOrder
```
List<E> nodeOrder
```
    - v
```
List<E> v
```
    - v_in
```
List<E> v_in
```
    - graph
```
DynamicGraph graph
```
- Class org.ginsim.servicegui.tool.pathfinding.PathFindingFrame extends StackDialog implements Serializable
  
  serialVersionUID:
  
  -7430762236435581864L
  - Serialized Fields
    - graph
```
Graph<V,E extends Edge<V>> graph
```
    - resultsPanel
```
Container resultsPanel
```
    - progressionPanel
```
Container progressionPanel
```
    - progressBar
```
JProgressBar progressBar
```
    - progressionLabel
```
JLabel progressionLabel
```
    - pathList
```
JList<E> pathList
```
    - colorizeButton
```
JButton colorizeButton
```
    - copyButton
```
JButton copyButton
```
    - pathListScrollPane
```
JScrollPane pathListScrollPane
```
    - isColorized
```
boolean isColorized
```
    - path
```
List<E> path
```
    - selector
```
PathStyleProvider selector
```
    - b_selectFromGraph
```
JButton b_selectFromGraph
```
    - b_add
```
JButton b_add
```
    - b_del
```
JButton b_del
```
    - constraintTable
```
JTable constraintTable
```
    - constraintModel
```
PathFindingTableModel<N> constraintModel
```
Package org.ginsim.servicegui.tool.polytopesViz
- Class org.ginsim.servicegui.tool.polytopesViz.PolytopesVizFrame extends StackDialog implements Serializable
  
  serialVersionUID:
  
  -7619253564236142617L
  - Serialized Fields
    - graph
```
DynamicGraph graph
```
    - mainPanel
```
Container mainPanel
```
    - colPanel
```
ColorizerPanel colPanel
```
    - polytopeTextField
```
JTextField polytopeTextField
```
Package org.ginsim.servicegui.tool.reg2dyn
- Class org.ginsim.servicegui.tool.reg2dyn.BaseSimulationFrame extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  8275117764047606650L
- Class org.ginsim.servicegui.tool.reg2dyn.PrioritySelectionPanel extends ListSelectionPanel<UpdaterDefinition> implements Serializable
  
  serialVersionUID:
  
  1213902700181873169L
  - Serialized Fields
    - pcpanel
```
ListEditionPanel<T,L extends List<T>> pcpanel
```
    - pcmanager
```
PrioritySetList pcmanager
```
    - store
```
UpdaterDefinitionStore store
```
- Class org.ginsim.servicegui.tool.reg2dyn.SimulationParameterEditionPanel extends JPanel implements Serializable
  - Serialized Fields
    - paramList
```
SimulationParameterList paramList
```
    - currentParameter
```
SimulationParameters currentParameter
```
    - simulationStrategyPanel
```
JPanel simulationStrategyPanel
```
    - initStatePanel
```
InitialStatePanel initStatePanel
```
    - radioChangeListener
```
ChangeListener radioChangeListener
```
    - simulationMethodsComboBox
```
JComboBox<E> simulationMethodsComboBox
```
    - depthGrp
```
ButtonGroup depthGrp
```
    - radioDephtFirst
```
JRadioButton radioDephtFirst
```
    - radioBreadthFirst
```
JRadioButton radioBreadthFirst
```
    - stackDialog
```
StackDialog stackDialog
```
    - textMaxDepth
```
JTextField textMaxDepth
```
    - textMaxNodes
```
JTextField textMaxNodes
```
    - labelMaxDepth
```
JLabel labelMaxDepth
```
    - labelMaxNodes
```
JLabel labelMaxNodes
```
    - selectPriorityClass
```
PrioritySelectionPanel selectPriorityClass
```
    - indentInset
```
Insets indentInset
```
    - refreshing
```
boolean refreshing
```
- Class org.ginsim.servicegui.tool.reg2dyn.SingleSimulationFrame extends BaseSimulationFrame implements Serializable
  
  serialVersionUID:
  
  8687415239702718705L
  - Serialized Fields
    - regGraphFrame
```
Frame regGraphFrame
```
      The regulatoryGraph frame
    - paramList
```
SimulationParameterList paramList
```
    - sim
```
Simulation sim
```
    - isrunning
```
boolean isrunning
```
    - spane
```
ListEditionPanel<T,L extends List<T>> spane
```
Package org.ginsim.servicegui.tool.reg2dyn.limitedSimulation
- Class org.ginsim.servicegui.tool.reg2dyn.limitedSimulation.LimitedSimulationFrame extends LogicalModelActionDialog implements Serializable
  
  serialVersionUID:
  
  5659168888297711105L
  - Serialized Fields
    - htg
```
HierarchicalTransitionGraph htg
```
    - mainPanel
```
JPanel mainPanel
```
    - strategy
```
JCheckBox strategy
```
    - selectPriorityClass
```
PrioritySelectionPanel selectPriorityClass
```
    - pcmanager
```
PrioritySetList pcmanager
```
    - params
```
SimulationParameters params
```
Package org.ginsim.servicegui.tool.reg2dyn.priorityclass
- Class org.ginsim.servicegui.tool.reg2dyn.priorityclass.PriorityClassContentEditor extends JPanel implements Serializable
  - Serialized Fields
    - but_insert
```
JButton but_insert
```
    - but_remove
```
JButton but_remove
```
    - contentPanel
```
ListPanel<T,L extends List<T>> contentPanel
```
    - availablePanel
```
ListPanel<T,L extends List<T>> availablePanel
```
    - parentPanel
```
PriorityDefinitionPanel parentPanel
```
    - l_content
```
List<E> l_content
```
    - l_available
```
List<E> l_available
```
    - pcdef
```
PrioritySetDefinition pcdef
```
    - currentClass
```
PriorityClass currentClass
```
- Class org.ginsim.servicegui.tool.reg2dyn.priorityclass.PriorityDefinitionPanel extends ListEditionPanel<PriorityClass,PrioritySetDefinition> implements Serializable
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - pcdef
```
PrioritySetDefinition pcdef
```
    - but_group
```
StockButton but_group
```
- Class org.ginsim.servicegui.tool.reg2dyn.priorityclass.UpdatingPanel extends JPanel implements Serializable
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - pcmanager
```
PrioritySetList pcmanager
```
    - updater
```
UpdaterDefinition updater
```
    - priorityPanel
```
PriorityDefinitionPanel priorityPanel
```
    - editPanel
```
ListEditionPanel<T,L extends List<T>> editPanel
```
    - info
```
JLabel info
```
Package org.ginsim.servicegui.tool.regulatorygraphanimation
- Class org.ginsim.servicegui.tool.regulatorygraphanimation.AnimatorUI extends JDialog implements Serializable
  
  serialVersionUID:
  
  -603747997597648387L
  - Serialized Fields
    - pathList
```
JList<E> pathList
```
    - pathModel
```
RegulatoryAnimator pathModel
```
    - contentPane
```
JPanel contentPane
```
    - bPlay
```
JButton bPlay
```
    - bRewind
```
JButton bRewind
```
    - bClose
```
JButton bClose
```
    - scrollpane
```
JScrollPane scrollpane
```
    - bGP
```
JButton bGP
```
- Class org.ginsim.servicegui.tool.regulatorygraphanimation.AReg2GPConfig extends JDialog implements Serializable
  
  serialVersionUID:
  
  -7398674287463858306L
  - Serialized Fields
    - blockTable
```
JTable blockTable
```
    - nodeOrder
```
List<E> nodeOrder
```
    - t_selected
```
boolean[] t_selected
```
    - contentPane
```
JPanel contentPane
```
    - scrollPane
```
JScrollPane scrollPane
```
    - but_export
```
JButton but_export
```
    - but_cancel
```
JButton but_cancel
```
    - combo_choice
```
JComboBox<E> combo_choice
```
    - path
```
List<E> path
```
- Class org.ginsim.servicegui.tool.regulatorygraphanimation.AReg2GPModel extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  864660594916225977L
  - Serialized Fields
    - nodeOrder
```
List<E> nodeOrder
```
    - t_selected
```
boolean[] t_selected
```
- Class org.ginsim.servicegui.tool.regulatorygraphanimation.RegulatoryAnimator extends AbstractListModel implements Serializable
  
  serialVersionUID:
  
  2490572906584434122L
  - Serialized Fields
    - regGraph
```
RegulatoryGraph regGraph
```
    - dynGraph
```
DynamicGraph dynGraph
```
    - path
```
List<E> path
```
    - nodeOrder
```
List<E> nodeOrder
```
    - pathPlayer
```
org.ginsim.servicegui.tool.regulatorygraphanimation.RegulatoryAnimator.PathPlayer pathPlayer
```
    - ui
```
AnimatorUI ui
```
    - frame
```
JFrame frame
```
    - styleProvider
```
LRGStateStyleProvider styleProvider
```
    - styleManager
```
StyleManager<V,E extends Edge<V>> styleManager
```
    - stg_styleProvider
```
STGPathStyleProvider stg_styleProvider
```
    - stg_styleManager
```
StyleManager<V,E extends Edge<V>> stg_styleManager
```
    - nextEdges
```
Collection<E> nextEdges
```
    - nextNodes
```
Collection<E> nextNodes
```
Package org.ginsim.servicegui.tool.stablestates
- Class org.ginsim.servicegui.tool.stablestates.ColoredCellRenderer extends DefaultTableCellRenderer implements Serializable
- Class org.ginsim.servicegui.tool.stablestates.StableStateSwingUI extends LogicalModelActionDialog implements Serializable
  - Serialized Fields
    - model
```
StableTableModel model
```
    - tresult
```
EnhancedJTable tresult
```
    - m_finder
```
org.colomoto.biolqm.tool.fixpoints.FixpointTask m_finder
```
    - cb_pattern
```
JCheckBox cb_pattern
```
    - cb_extra
```
JCheckBox cb_extra
```
Package org.ginsim.servicegui.tool.stateinregulatorygraph
- Class org.ginsim.servicegui.tool.stateinregulatorygraph.StateInRegGraphFrame extends StackDialog implements Serializable
  
  serialVersionUID:
  
  -5576209151262677441L
  - Serialized Fields
    - regGraph
```
RegulatoryGraph regGraph
```
    - mainPanel
```
Container mainPanel
```
    - tabbedPane
```
JTabbedPane tabbedPane
```
    - styleProvider
```
LRGStateStyleProvider styleProvider
```
    - colorizerCheckbox
```
StyleColorizerCheckbox colorizerCheckbox
```
Package org.ginsim.servicegui.tool.trapspace
- Class org.ginsim.servicegui.tool.trapspace.TrapSpaceSwingUI extends LogicalModelActionDialog implements Serializable
  - Serialized Fields
    - model
```
TrapSpaceTableModel model
```
    - tresult
```
EnhancedJTable tresult
```
    - cb_diag
```
JCheckBox cb_diag
```
    - settings
```
org.ginsim.servicegui.tool.trapspace.TrapSpaceParameters settings
```
    - m_identifier
```
org.colomoto.common.task.Task<T> m_identifier
```
- Class org.ginsim.servicegui.tool.trapspace.TrapSpaceTableModel extends AbstractTableModel implements Serializable
  - Serialized Fields
    - solutions
```
org.colomoto.biolqm.tool.trapspaces.TrapSpaceList solutions
```

Serialized Form

Package org.colomoto.biolqm.io.avatar

Class org.colomoto.biolqm.io.avatar.AvatarLogicalModelException extends IOException implements Serializable

Package org.ginsim.common.application

Class org.ginsim.common.application.GsException extends Exception implements Serializable

Serialized Fields

gravity

message

exception

Package org.ginsim.common.utils

Class org.ginsim.common.utils.ArraySet extends ArrayList<T> implements Serializable

Package org.ginsim.common.xml

Class org.ginsim.common.xml.ParsingWarningReport extends ArrayList<ParsingWarning> implements Serializable

Package org.ginsim.commongui.dialog

Class org.ginsim.commongui.dialog.ResultsDialog extends SimpleDialog implements Serializable

Serialized Fields

mainPanel

results

resultsPane

Class org.ginsim.commongui.dialog.SimpleDialog extends JDialog implements Serializable

Serialized Fields

id

gui

actionListener

saveAction

Package org.ginsim.commongui.utils

Class org.ginsim.commongui.utils.DefaultTableHeaderCellRenderer extends DefaultTableCellRenderer implements Serializable

Serialized Fields

horizontalTextPositionSet

Class org.ginsim.commongui.utils.VerticalTableHeaderCellRenderer extends DefaultTableHeaderCellRenderer implements Serializable

Package org.ginsim.core.annotation

Class org.ginsim.core.annotation.Annotation extends ArrayList<AnnotationLink> implements Serializable

Serialized Fields

comment

ref

Package org.ginsim.core.graph.backend

Class org.ginsim.core.graph.backend.JgraphtBackendImpl extends org.jgrapht.graph.DefaultListenableGraph<V,E extends Edge<V>> implements Serializable

Serialized Fields

base

viewListener

evsmap

defaultEdgeStyle

Package org.ginsim.core.graph.hierarchicaltransitiongraph

Class org.ginsim.core.graph.hierarchicaltransitiongraph.HierarchicalNodeSet extends HashSet<HierarchicalNode> implements Serializable

Serialized Fields

hashCode

Package org.ginsim.core.graph.regulatorygraph.logicalfunction

Class org.ginsim.core.graph.regulatorygraph.logicalfunction.LogicalParameterList extends ArrayList<LogicalParameter> implements Serializable

Serialized Fields

manualp

functionp

updateDup

nbDup

Package org.ginsim.core.graph.regulatorygraph.namedstates

Class org.ginsim.core.graph.regulatorygraph.namedstates.NamedStateList extends ListenableNamedList<NamedState> implements Serializable

Serialized Fields

nodeOrder

prefix

Package org.ginsim.core.graph.regulatorygraph.perturbation

Class org.ginsim.core.graph.regulatorygraph.perturbation.ListOfPerturbations extends ArrayList<Perturbation> implements Serializable

Serialized Fields

perturbationUsers

aliases

lrg

Package org.ginsim.core.graph.view.css

Class org.ginsim.core.graph.view.css.CSSSyntaxException extends Exception implements Serializable

Package org.ginsim.core.graph.view.shapes

Class org.ginsim.core.graph.view.shapes.SVGEllipse extends Ellipse2D.Double implements Serializable

Class org.ginsim.core.graph.view.shapes.SVGPolygon extends Polygon implements Serializable

Class org.ginsim.core.graph.view.shapes.SVGRectangle extends Rectangle implements Serializable

Package org.ginsim.core.utils.data

Class org.ginsim.core.utils.data.HashSetForSet extends HashSet implements Serializable

Serialized Fields

myid

Class org.ginsim.core.utils.data.ListenableNamedList extends NamedList<T extends NamedObject> implements Serializable

Serialized Fields

listeners

Class org.ginsim.core.utils.data.NamedList extends ArrayList<T extends NamedObject> implements Serializable

Package org.ginsim.gui

Class org.ginsim.gui.WhatToDoWithGraph extends Frame implements Serializable