A B C D E F G H I J L M N O P R S T U V W X

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IDENTITY_3D - Static variable in class uk.ac.ed.simulator_pdb.model.Constants

IDENTITY_4D - Static variable in class uk.ac.ed.simulator_pdb.model.Constants

InstanceBuilderModel - class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.

User: nix Date: Jun 30, 2004 Time: 4:57:01 PM To change this template use Options | File TemplateBuilderModel.

InstanceBuilderModel(Model) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel

InstanceBuilderModel.FileAdapter - class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileAdapter.

InstanceBuilderModel.FileAdapter() - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileAdapter

InstanceBuilderModel.FileEvent - class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileEvent.

InstanceBuilderModel.FileEvent(Object, InstanceFile) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileEvent

InstanceBuilderModel.FileListener - interface uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileListener.

InstanceBuilderModel.SelectedObjectAdapter - class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.SelectedObjectAdapter.

InstanceBuilderModel.SelectedObjectAdapter() - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.SelectedObjectAdapter

InstanceBuilderModel.SelectedObjectEvent - class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.SelectedObjectEvent.

InstanceBuilderModel.SelectedObjectEvent(Object, Object, Object) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.SelectedObjectEvent

InstanceBuilderModel.SelectedObjectEvent(Object, Matrix4d) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.SelectedObjectEvent

InstanceBuilderModel.SelectedObjectListener - interface uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.SelectedObjectListener.

InstanceFile - class uk.ac.ed.simulator_pdb.model.InstanceFile.

User: nix Date: 17-Aug-2004 Time: 16:59:11 To change this instance_file_object use Options | File InstanceFiles.

InstanceFile(File) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFile

InstanceFile() - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFile

InstanceFile.InstanceFileAdapter - class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileAdapter.

InstanceFile.InstanceFileAdapter() - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileAdapter

InstanceFile.InstanceFileEvent - class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileEvent.

InstanceFile.InstanceFileEvent(Object, InstanceFileObject) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileEvent

InstanceFile.InstanceFileEvent(Object, double) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileEvent

InstanceFile.InstanceFileListener - interface uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileListener.

InstanceFileObject - class uk.ac.ed.simulator_pdb.model.InstanceFileObject.

InstanceFileObject(String) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFileObject

InstanceFileObject.InstanceFileObjectAdapter - class uk.ac.ed.simulator_pdb.model.InstanceFileObject.InstanceFileObjectAdapter.

InstanceFileObject.InstanceFileObjectAdapter() - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFileObject.InstanceFileObjectAdapter

InstanceFileObject.InstanceFileObjectEvent - class uk.ac.ed.simulator_pdb.model.InstanceFileObject.InstanceFileObjectEvent.

InstanceFileObject.InstanceFileObjectEvent(InstanceFileObject) - Constructor for class uk.ac.ed.simulator_pdb.model.InstanceFileObject.InstanceFileObjectEvent

InstanceFileObject.InstanceFileObjectListener - interface uk.ac.ed.simulator_pdb.model.InstanceFileObject.InstanceFileObjectListener.

InstanceJava3DController - class uk.ac.ed.simulator_pdb.InstanceJava3DController.

User: nix Date: May 20, 2004 Time: 10:47:56 AM To change this template use Options | File TemplateBuilderModel.

InstanceJava3DController(Model, Java3DView) - Constructor for class uk.ac.ed.simulator_pdb.InstanceJava3DController

InstanceJava3DView - class uk.ac.ed.simulator_pdb.InstanceJava3DView.

User: nix Date: May 20, 2004 Time: 10:47:44 AM To change this template use Options | File TemplateBuilderModel.

InstanceJava3DView(Model) - Constructor for class uk.ac.ed.simulator_pdb.InstanceJava3DView

InstancePropertiesController - class uk.ac.ed.simulator_pdb.InstancePropertiesController.

User: nix Date: Jul 9, 2004 Time: 2:12:41 PM To change this template use Options | File TemplateBuilderModel.

InstancePropertiesController(Model, PropertiesView) - Constructor for class uk.ac.ed.simulator_pdb.InstancePropertiesController

InstancePropertiesView - class uk.ac.ed.simulator_pdb.InstancePropertiesView.

User: nix Date: Jul 9, 2004 Time: 2:12:27 PM To change this template use Options | File TemplateBuilderModel.

InstancePropertiesView(Model) - Constructor for class uk.ac.ed.simulator_pdb.InstancePropertiesView

InstanceToolbarController - class uk.ac.ed.simulator_pdb.InstanceToolbarController.

Created by IntelliJ IDEA.

InstanceToolbarController(Model, Java3DModel, InstanceToolbarView) - Constructor for class uk.ac.ed.simulator_pdb.InstanceToolbarController

Constructs a new TemplateToolbarController

InstanceToolbarView - class uk.ac.ed.simulator_pdb.InstanceToolbarView.

Created by IntelliJ IDEA.

InstanceToolbarView(Model) - Constructor for class uk.ac.ed.simulator_pdb.InstanceToolbarView

InstanceTreeController - class uk.ac.ed.simulator_pdb.InstanceTreeController.

InstanceTreeController(Model, InstanceTreeView) - Constructor for class uk.ac.ed.simulator_pdb.InstanceTreeController

InstanceTreeView - class uk.ac.ed.simulator_pdb.InstanceTreeView.

Created by IntelliJ IDEA.

InstanceTreeView(Model) - Constructor for class uk.ac.ed.simulator_pdb.InstanceTreeView

id - Variable in class uk.ac.ed.simulator_pdb.model.InstanceFileObject

id - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimBondTemplate

id - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimLandscapeTemplate

id - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObject

id - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate

id - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimParticleTemplate

id - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimRuleTemplate

idChanged(TemplateFileObject.TemplateFileObjectEvent) - Method in class uk.ac.ed.simulator_pdb.model.TemplateFileObject.TemplateFileObjectAdapter

idChanged(TemplateFileObject.TemplateFileObjectEvent) - Method in interface uk.ac.ed.simulator_pdb.model.TemplateFileObject.TemplateFileObjectListener

idErrorMessage() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

ifClause - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimRuleTemplate

initBlankPanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initBondSitePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initBondTemplatePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initButton() - Method in class uk.ac.ed.simulator_pdb.View.ChooserDialog

initInstanceBuilderController() - Method in class uk.ac.ed.simulator_pdb.SwingController

initInstanceFilePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initList(Object[]) - Method in class uk.ac.ed.simulator_pdb.View.ChooserDialog

initMenubarEventHandlers() - Method in class uk.ac.ed.simulator_pdb.SwingController

initModelEventHandler() - Method in class uk.ac.ed.simulator_pdb.SimulationJava3DController

initObjectPanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initObjectTemplatePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initPDBFilePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initPanel() - Method in class uk.ac.ed.simulator_pdb.View.ChooserDialog

initParticleTemplatePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initRuleTemplatePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initSettingsController() - Method in class uk.ac.ed.simulator_pdb.SwingController

initSimulatorController() - Method in class uk.ac.ed.simulator_pdb.SwingController

initSubParticlePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initTemplateBuilderController() - Method in class uk.ac.ed.simulator_pdb.SwingController

initTemplateFilePanel() - Method in class uk.ac.ed.simulator_pdb.PropertiesView

initTree() - Method in class uk.ac.ed.simulator_pdb.TreeView

initWindowEventHandlers() - Method in class uk.ac.ed.simulator_pdb.SwingController

instanceAdded(InstanceFile.InstanceFileEvent) - Method in class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileAdapter

instanceAdded(InstanceFile.InstanceFileEvent) - Method in interface uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileListener

instanceFileAdded(InstanceBuilderModel.FileEvent) - Method in class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileAdapter

instanceFileAdded(InstanceBuilderModel.FileEvent) - Method in interface uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileListener

instanceFileObjectChanged(InstanceFileObject.InstanceFileObjectEvent) - Method in class uk.ac.ed.simulator_pdb.model.InstanceFileObject.InstanceFileObjectAdapter

instanceFileObjectChanged(InstanceFileObject.InstanceFileObjectEvent) - Method in interface uk.ac.ed.simulator_pdb.model.InstanceFileObject.InstanceFileObjectListener

instanceFileRemoved(InstanceBuilderModel.FileEvent) - Method in class uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileAdapter

instanceFileRemoved(InstanceBuilderModel.FileEvent) - Method in interface uk.ac.ed.simulator_pdb.model.InstanceBuilderModel.FileListener

instanceRemoved(InstanceFile.InstanceFileEvent) - Method in class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileAdapter

instanceRemoved(InstanceFile.InstanceFileEvent) - Method in interface uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileListener

instanceTransformed(InstanceFile.InstanceFileEvent) - Method in class uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileAdapter

instanceTransformed(InstanceFile.InstanceFileEvent) - Method in interface uk.ac.ed.simulator_pdb.model.InstanceFile.InstanceFileListener

instance_file - Variable in class uk.ac.ed.simulator_pdb.model.SimulatorModel

instance_file_listener - Variable in class uk.ac.ed.simulator_pdb.InstanceJava3DView

instance_listener - Variable in class uk.ac.ed.simulator_pdb.InstanceTreeView

instance_listeners - Variable in class uk.ac.ed.simulator_pdb.model.InstanceFileObject

instances - Variable in class uk.ac.ed.simulator_pdb.TreeView

inverse_scale - Variable in class uk.ac.ed.simulator_pdb.Java3DView

isAlignedForBonding(Matrix4d, Matrix4d) - Method in class uk.ac.ed.simulator_pdb.SimulationJava3DController

isAlignedForBonding(SimBond, SimBond) - Method in class uk.ac.ed.simulator_pdb.SimulationJava3DController

isClustered() - Method in class uk.ac.ed.simulator_pdb.model.PDBFile

isIdOk(String) - Method in class uk.ac.ed.simulator_pdb.model.InstanceFileObject

isIdOk(String) - Method in class uk.ac.ed.simulator_pdb.model.TemplateFileObject

isModified() - Method in class uk.ac.ed.simulator_pdb.model.InstanceFile

isModified() - Method in class uk.ac.ed.simulator_pdb.model.TemplateFile

isOrientatedForBonding(Matrix4d, Matrix4d) - Method in class uk.ac.ed.simulator_pdb.SimulationJava3DController

isPositionedForBonding(Matrix4d, Matrix4d) - Method in class uk.ac.ed.simulator_pdb.SimulationJava3DController

is_pdb_file(File) - Static method in class uk.ac.ed.simulator_pdb.model.pdb_handler.PDBHandler

is_sim_instance_file(File) - Static method in class uk.ac.ed.simulator_pdb.model.neuroml_handler.NeuroMLHandler

is_sim_template_file(File) - Static method in class uk.ac.ed.simulator_pdb.model.neuroml_handler.NeuroMLHandler