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Hierarchy For All Packages
Package Hierarchies:
org.cellmicrocosmos.cm2
,
org.cellmicrocosmos.cm2.coarsegrainsupport
,
org.cellmicrocosmos.cm2.constants
,
org.cellmicrocosmos.cm2.dataobjects
,
org.cellmicrocosmos.cm2.engine
,
org.cellmicrocosmos.cm2.functionality3d
,
org.cellmicrocosmos.cm2.gui
,
org.cellmicrocosmos.cm2.gui.dialogs
,
org.cellmicrocosmos.cm2.gui.elements
,
org.cellmicrocosmos.cm2.interfaces
,
org.cellmicrocosmos.cm2.io
,
org.cellmicrocosmos.cm2.io.ppe.network.http
,
org.cellmicrocosmos.cm2.io.ppe.toolbox
,
org.cellmicrocosmos.cm2.io.ppe.transform.xml
,
org.cellmicrocosmos.cm2.membranepackingalgorithm
,
org.cellmicrocosmos.cm2.membranepackingalgorithms
,
org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer
,
org.cellmicrocosmos.cm2.misc
,
org.cellmicrocosmos.cm2.pluginmanager
,
org.cellmicrocosmos.cmX.mrna
,
org.cellmicrocosmos.j3d.jogl
,
org.cellmicrocosmos.j3d.jogl.lib
Class Hierarchy
java.lang.Object
javax.swing.text.AbstractDocument (implements javax.swing.text.Document, java.io.Serializable)
javax.swing.text.PlainDocument
org.cellmicrocosmos.cm2.gui.dialogs.
LimitedDocument
org.cellmicrocosmos.cm2.membranepackingalgorithm.
Application_Constants
org.cellmicrocosmos.cm2.membranepackingalgorithm.
Atom
org.cellmicrocosmos.cm2.dataobjects.
Atom_3D
(implements java.lang.Comparable<T>)
org.cellmicrocosmos.cm2.dataobjects.
Particle
org.cellmicrocosmos.cm2.functionality3d.
Atom_Creator_3D
org.cellmicrocosmos.cm2.membranepackingalgorithm.
AutoBox
org.cellmicrocosmos.cm2.membranepackingalgorithm.
Bond
org.cellmicrocosmos.cm2.pluginmanager.
CalculationManager
org.cellmicrocosmos.cm2.functionality3d.
CameraMode
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.ALGORITHMS
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.ATOMVALUES
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.DEBUG
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.GENERAL
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.GUI_SETTINGS_AND_CONTROLS
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.IMAGES_AND_ICONS
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.IO
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.J3D
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.MEMBRANE_SIZES
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.MISC
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.MOLECULE_DEFAULTS
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.RENDERMODE
org.cellmicrocosmos.cm2.constants.
CM2_CONSTANTS.THREADS
org.cellmicrocosmos.cm2.misc.
Cm2_IconDepot
org.cellmicrocosmos.cm2.misc.
Cm2_Toolkit
org.cellmicrocosmos.cm2.misc.
Cm2_Toolkit.Membrane_Image2D_Generator
org.cellmicrocosmos.cm2.gui.
ColumnSorter
(implements java.util.Comparator<T>)
org.cellmicrocosmos.cm2.io.
Compatibility
java.awt.Component (implements java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable)
java.awt.Container
javax.swing.JComponent (implements java.io.Serializable)
javax.swing.AbstractButton (implements java.awt.ItemSelectable, javax.swing.SwingConstants)
javax.swing.JButton (implements javax.accessibility.Accessible)
org.cellmicrocosmos.cm2.gui.
HelpBtn
javax.swing.JToggleButton (implements javax.accessibility.Accessible)
javax.swing.JRadioButton (implements javax.accessibility.Accessible)
org.cellmicrocosmos.cm2.gui.
MyJRadioButton
(implements java.awt.event.MouseListener)
javax.swing.JPanel (implements javax.accessibility.Accessible)
org.cellmicrocosmos.cm2.gui.
CompatibilityPanel
org.cellmicrocosmos.cm2.gui.elements.
ComponentView
(implements javax.swing.event.ChangeListener)
org.cellmicrocosmos.cm2.coarsegrainsupport.
ControlPanel
org.cellmicrocosmos.cm2.coarsegrainsupport.
ConformationPanel
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.coarsegrainsupport.
GranularityPanel
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.coarsegrainsupport.
ControlPanel.TitledPanel
org.cellmicrocosmos.cm2.gui.elements.
DatabaseView
(implements java.awt.event.ActionListener, org.cellmicrocosmos.cm2.interfaces.
EditDBEntryDialogListener
, javax.swing.event.ListSelectionListener, java.awt.event.MouseMotionListener)
org.cellmicrocosmos.cm2.membranepackingalgorithm.
GraphPanel
org.cellmicrocosmos.cm2.functionality3d.
Membrane3D
org.cellmicrocosmos.cm2.gui.elements.
MembraneView
(implements java.awt.event.ActionListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener)
org.cellmicrocosmos.cm2.gui.elements.
MembraneView.IntersectionPanel
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.gui.
MyFCAccessory
(implements java.beans.PropertyChangeListener)
org.cellmicrocosmos.cm2.gui.
MylFCAccessoryForGenerating
org.cellmicrocosmos.cm2.membranepackingalgorithm.
ParameterMatrixPanel
org.cellmicrocosmos.cm2.coarsegrainsupport.
ParticlePropertiesPanel
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.gui.elements.
PropertiesView
org.cellmicrocosmos.cm2.gui.elements.
StatisticsView
javax.swing.text.JTextComponent (implements javax.accessibility.Accessible, javax.swing.Scrollable)
javax.swing.JTextField (implements javax.swing.SwingConstants)
org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.
MyNumberTextField
(implements javax.swing.event.CaretListener, java.awt.event.FocusListener)
javax.swing.JToolBar (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.
Gui
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.coarsegrainsupport.
MoleculeEditorToolbar
(implements java.awt.event.ActionListener)
java.awt.Window (implements javax.accessibility.Accessible)
java.awt.Dialog
javax.swing.JDialog (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
org.cellmicrocosmos.cm2.gui.dialogs.
AboutPane
org.cellmicrocosmos.cm2.gui.dialogs.
AlgorithmWizzard
(implements java.awt.event.ActionListener, javax.swing.event.ListSelectionListener)
org.cellmicrocosmos.cm2.gui.dialogs.
ChangeSizeDialog
(implements java.awt.event.ActionListener, javax.swing.event.ChangeListener)
org.cellmicrocosmos.cm2.gui.dialogs.
EditDBEntryDialog
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.gui.dialogs.
EnterMatrixDialog
(implements java.awt.event.ActionListener, javax.swing.event.CaretListener)
org.cellmicrocosmos.cm2.gui.dialogs.
J3DSettingsDialog
(implements java.awt.event.ActionListener, javax.swing.event.ChangeListener)
org.cellmicrocosmos.cm2.gui.dialogs.
ManageTitleSectionDialog
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.gui.dialogs.
NewMembraneDialog
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.gui.dialogs.
ProtocolDialog
org.cellmicrocosmos.cm2.gui.dialogs.
SetUpConnectionsDialog
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.gui.dialogs.
StatusDialog
java.awt.Frame (implements java.awt.MenuContainer)
javax.swing.JFrame (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
org.cellmicrocosmos.cm2.gui.
PDBFileBrowser
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.gui.dialogs.
PdbSettingsWindow
(implements java.awt.event.ActionListener)
org.cellmicrocosmos.cm2.membranepackingalgorithm.
ConfigIO
org.cellmicrocosmos.cm2.misc.
ConfigParser
org.cellmicrocosmos.cm2.io.ppe.toolbox.
ConfParser
org.cellmicrocosmos.cm2.io.ppe.network.http.
Connection
org.cellmicrocosmos.cm2.io.ppe.network.http.
OPMConnection
org.cellmicrocosmos.cm2.io.ppe.network.http.
PdbTMConnection
org.cellmicrocosmos.cm2.dataobjects.
Constraint_3D
org.cellmicrocosmos.cm2.functionality3d.
CoordinateBar
org.cellmicrocosmos.cm2.membranepackingalgorithm.
CoordinateTransformationHints
org.cellmicrocosmos.cm2.io.
DatabaseIO
org.cellmicrocosmos.cm2.engine.
DataPool
org.cellmicrocosmos.cm2.engine.
DataPool.AlgorithmSettings
org.cellmicrocosmos.cm2.engine.
DataPool.APLVoroSettings
org.cellmicrocosmos.cm2.engine.
DataPool.AtomValues
org.cellmicrocosmos.cm2.engine.
DataPool.CoordinateTransformationSettings
org.cellmicrocosmos.cm2.engine.
DataPool.DNDBridge
org.cellmicrocosmos.cm2.engine.
DataPool.InternetSettings
org.cellmicrocosmos.cm2.engine.
DataPool.IO
org.cellmicrocosmos.cm2.engine.
DataPool.J3DSettings
org.cellmicrocosmos.cm2.engine.
DataPool.JmolSettings
org.cellmicrocosmos.cm2.engine.
DataPool.LimitationSettings
org.cellmicrocosmos.cm2.engine.
DataPool.PPESettings
org.xml.sax.helpers.DefaultHandler (implements org.xml.sax.ContentHandler, org.xml.sax.DTDHandler, org.xml.sax.EntityResolver, org.xml.sax.ErrorHandler)
org.cellmicrocosmos.cm2.io.ppe.toolbox.
MIFHandler
org.cellmicrocosmos.cm2.io.ppe.transform.xml.
SAXCustomizer
(implements org.cellmicrocosmos.cm2.io.ppe.transform.xml.
XMLCustomizer
)
org.cellmicrocosmos.cm2.coarsegrainsupport.
Display
org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.
Energies
org.cellmicrocosmos.cm2.membranepackingalgorithm.
EnergyFunction
org.cellmicrocosmos.cm2.engine.
Engine
org.cellmicrocosmos.cm2.engine.
Engine.BasicOperations
(implements org.cellmicrocosmos.cm2.interfaces.
GuiListener
)
org.cellmicrocosmos.cm2.engine.
Engine.DatabaseOperations
(implements org.cellmicrocosmos.cm2.interfaces.
DatabaseViewListener
)
org.cellmicrocosmos.cm2.engine.
Engine.J3DOperations
org.cellmicrocosmos.cm2.engine.
Engine.MembraneOperations
(implements org.cellmicrocosmos.cm2.interfaces.
MembraneViewListener
)
org.cellmicrocosmos.cm2.io.
FileIOHandler
org.cellmicrocosmos.cm2.gui.
GlobalDatabaseBrowser
(implements java.awt.event.ActionListener, javax.swing.event.ListSelectionListener)
org.cellmicrocosmos.cm2.gui.dialogs.
HelpDialog
org.cellmicrocosmos.cm2.functionality3d.
Hud
java.awt.Image
java.awt.image.BufferedImage (implements java.awt.Transparency, java.awt.image.WritableRenderedImage)
org.cellmicrocosmos.cm2.gui.
MyGradientBufferedImage
org.cellmicrocosmos.cm2.io.
Installer
org.cellmicrocosmos.cm2.functionality3d.
IntersectionsDisplayer
org.cellmicrocosmos.cm2.functionality3d.
IntersectManager
org.cellmicrocosmos.cm2.dataobjects.
Layer
org.cellmicrocosmos.cm2.gui.
MainGui
(implements java.awt.event.ActionListener, javax.swing.event.ChangeListener)
org.cellmicrocosmos.cm2.gui.
MainGui.TabComponentNoBorder
(implements net.infonode.gui.shaped.border.ShapedBorder)
org.cellmicrocosmos.cm2.io.
MembraneMetaInfo
org.cellmicrocosmos.cm2.dataobjects.
MembraneModel
org.cellmicrocosmos.cm2.membranepackingalgorithm.
MembranePackingAlgorithm
(implements org.cellmicrocosmos.cm2.membranepackingalgorithm.
MembranePackingAlgorithmInterface
)
org.cellmicrocosmos.cm2.membranepackingalgorithms.
AdvancedRandomPlacing
org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.
Atom_Level_Minimizer
org.cellmicrocosmos.cm2.misc.
Cm2_Toolkit.ToolkitMembranePackingAlgorithm
org.cellmicrocosmos.cm2.membranepackingalgorithms.
Distributor
org.cellmicrocosmos.cm2.membranepackingalgorithms.
IntersectionDeleter
org.cellmicrocosmos.cm2.membranepackingalgorithms.
LinearPlacing
org.cellmicrocosmos.cm2.membranepackingalgorithms.
MembraneShifter
org.cellmicrocosmos.cm2.membranepackingalgorithms.
RandomPlacing
org.cellmicrocosmos.cm2.membranepackingalgorithms.
SimulatedAnnealing
(implements java.awt.event.ActionListener, javax.swing.event.ChangeListener, java.awt.event.ItemListener)
org.cellmicrocosmos.cm2.membranepackingalgorithms.
Tetris
org.cellmicrocosmos.cm2.membranepackingalgorithms.
TheWandererRookie
(implements javax.swing.event.ChangeListener, java.awt.event.ItemListener)
org.cellmicrocosmos.cm2.membranepackingalgorithm.
MembranePackingAlgorithmGUI
org.cellmicrocosmos.cm2.io.
MembraneXmlReader
org.cellmicrocosmos.cm2.io.
MembraneXmlWriter
org.cellmicrocosmos.cm2.membranepackingalgorithm.
MicroDomain
org.cellmicrocosmos.cm2.dataobjects.
MicroDomain_3D
org.cellmicrocosmos.cm2.functionality3d.
MicroDomainManager
(implements java.awt.event.MouseListener, java.awt.event.MouseMotionListener)
org.cellmicrocosmos.cm2.membranepackingalgorithm.
Molecule
org.cellmicrocosmos.cm2.membranepackingalgorithm.
Lipid
org.cellmicrocosmos.cm2.membranepackingalgorithm.
Protein
org.cellmicrocosmos.cm2.dataobjects.
Molecule_3D
org.cellmicrocosmos.cm2.dataobjects.
Lipid_3D
org.cellmicrocosmos.cm2.dataobjects.
Protein_3D
org.cellmicrocosmos.cm2.coarsegrainsupport.
Molecule_Profile_IO
org.cellmicrocosmos.cm2.coarsegrainsupport.
MoleculeEditor
(implements java.awt.event.KeyListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener)
org.cellmicrocosmos.cm2.coarsegrainsupport.
MoleculeProfile
org.cellmicrocosmos.cmX.mrna.
MRNA
org.cellmicrocosmos.cm2.dataobjects.
MyBounds
org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.
MyData
org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.
MyDefaults
org.cellmicrocosmos.cm2.io.
PdbReader_3D
org.cellmicrocosmos.cm2.io.
PdbReader_3D.PdbAttributes
org.cellmicrocosmos.cm2.io.
PDBWriter
org.cellmicrocosmos.cm2.functionality3d.
PickNDragManager
(implements java.awt.event.KeyListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener)
org.cellmicrocosmos.cm2.pluginmanager.
Plugin
org.cellmicrocosmos.cm2.pluginmanager.
PluginIO
org.cellmicrocosmos.cm2.pluginmanager.
PluginManager
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPE_CONSTANTS
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPE_CONSTANTS.CONF_PARSER
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPE_CONSTANTS.CONNECTION
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPE_CONSTANTS.DB
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPE_CONSTANTS.IO
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPE_CONSTANTS.MIFILE
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPE_CONSTANTS.PPE_UPDATER
org.cellmicrocosmos.cm2.io.ppe.toolbox.
PPEUpdater
java.util.Random (implements java.io.Serializable)
org.cellmicrocosmos.cm2.membranepackingalgorithm.
SimpleRandom
org.cellmicrocosmos.cm2.membranepackingalgorithm.
UniqueRandom
org.cellmicrocosmos.cm2.functionality3d.
Raster
org.cellmicrocosmos.cm2.io.
ReversePDBParser
org.cellmicrocosmos.cm2.membranepackingalgorithm.
RotationToolkit
javax.media.j3d.SceneGraphObject
javax.media.j3d.Node
javax.media.j3d.Leaf
javax.media.j3d.Behavior
com.sun.j3d.utils.behaviors.vp.ViewPlatformBehavior
com.sun.j3d.utils.behaviors.vp.ViewPlatformAWTBehavior (implements java.awt.event.KeyListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.event.MouseWheelListener)
org.cellmicrocosmos.cm2.functionality3d.
OrbitBehaviorAdvanced
org.cellmicrocosmos.cm2.gui.
Searcher
org.cellmicrocosmos.cm2.functionality3d.
SelectionBox
org.cellmicrocosmos.cm2.
Start
org.cellmicrocosmos.cm2.engine.
StartMain
org.cellmicrocosmos.cm2.engine.
TestArea
java.lang.Thread (implements java.lang.Runnable)
org.cellmicrocosmos.cm2.pluginmanager.
CalculationManager.CalculationThread
java.lang.Throwable (implements java.io.Serializable)
java.lang.Exception
org.cellmicrocosmos.cm2.membranepackingalgorithm.
IllegalOperationException
org.cellmicrocosmos.cm2.io.
InvalidEntriesException
Interface Hierarchy
org.cellmicrocosmos.cm2.interfaces.
CM2AdditionalListener
org.cellmicrocosmos.cm2.interfaces.
DatabaseViewListener
org.cellmicrocosmos.cm2.interfaces.
EditDBEntryDialogListener
org.cellmicrocosmos.cm2.interfaces.
GuiListener
org.cellmicrocosmos.cm2.membranepackingalgorithm.
MembranePackingAlgorithmInterface
org.cellmicrocosmos.cm2.interfaces.
MembraneViewListener
org.cellmicrocosmos.cm2.interfaces.
SearchListener
org.cellmicrocosmos.cm2.io.ppe.transform.xml.
XMLCustomizer
Skip navigation links
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Use
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Deprecated
Index
Help
Prev
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Frames
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All Classes